Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5d/dbb2dc41e4569187fb2a51519a54df/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/77004480fbeeb34d9edaaec51329e9/fi_workdir/1173_D6K_T1_RNA_SLD_01_A23T55JLT4_2.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5d/dbb2dc41e4569187fb2a51519a54df/.command.run
==> STAGING COMPLETE (3 inputs)
Using standard /usr/local/lib/perl5/site_perl/auto/share/dist/AGAT/agat_config.yaml file
------------------------------------------------------------------------------
| Another GFF Analysis Toolkit (AGAT) - Version: v1.2.0 |
| https://github.com/NBISweden/AGAT |
| National Bioinformatics Infrastructure Sweden (NBIS) - www.nbis.se |
------------------------------------------------------------------------------
------ Start parsing ------
-------------------------- parse options and metadata --------------------------
=> Accessing the feature_levels YAML file
Using standard /usr/local/lib/perl5/site_perl/auto/share/dist/AGAT/feature_levels.yaml file
=> Attribute used to group features when no Parent/ID relationship exists (i.e common tag):
* locus_tag
* gene_id
=> merge_loci option deactivated
=> Machine information:
This script is being run by perl v5.32.1
Bioperl location being used: /usr/local/lib/perl5/site_perl/Bio/
Operating system being used: linux
=> Accessing Ontology
No ontology accessible from the gff file header!
We use the SOFA ontology distributed with AGAT:
/usr/local/lib/perl5/site_perl/auto/share/dist/AGAT/so.obo
Read ontology /usr/local/lib/perl5/site_perl/auto/share/dist/AGAT/so.obo:
4 root terms, and 2596 total terms, and 1516 leaf terms
Filtering ontology:
We found 1861 terms that are sequence_feature or is_a child of it.
--------------------------------- parsing file ---------------------------------
=> Number of line in file: 9647
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 9647
=> Number of feature type (3rd column): 2
* Level1: 0 =>
* level2: 0 =>
* level3: 2 => CDS exon
* unknown: 0 =>
=>Check because only level3 features:
* Number of feature with Parent attribute:0
* Number of feature with a common attribute:9647
=> Some common attributes and some Parent attributes missing.
/!\ For features where both are missing A single Level2 features (e.g. mRNA) and a single level1 (e.g. gene) will be created by AGAT, and all level3 feautres (e,g, CDS,exon) will be attached to them. This is probably not what you want...
see B. 2.2 and 3. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
/!\ For features where the common attribute or the parent attribute is missing, it would be fine as long as you do not expect isoforms in your annotation (Eukaryote). see B. 4. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
!! You might try to fix the issue by choosing a common tag attribute to use in order to group the features correctly (parameter --ct in agat_convert_sp_gxf2gxf.pl).
=> Version of the Bioperl GFF parser selected by AGAT: 2
------ End parsing (done in 2 second) ------
------ Start checks ------
---------------------------- Check1: feature types -----------------------------
----------------------------------- ontology -----------------------------------
All feature types in agreement with the Ontology.
------------------------------------- agat -------------------------------------
AGAT can deal with all the encountered feature types (3rd column)
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check2: duplicates ------------------------------
None found
------------------------------ done in 0 seconds -------------------------------
-------------------------- Check3: sequential bucket ---------------------------
Nothing to check as sequential bucket!
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check4: l2 linked to l3 ----------------------------
L1 and L2 created:
AC015911.9--SLFN12L HAVANA gene 4692 11059 . + . FI_gene_label "SLFN12L^ENSG00000205045.11" ; ID "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; exon_id "ENSE00003850559.1" ; exon_number 2 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; gene_name SLFN12L ; gene_type protein_coding ; havana_gene "OTTHUMG00000193506.1" ; havana_transcript "OTTHUMT00000395748.3" ; hgnc_id "HGNC:33920" ; level 2 ; orig_coord_info "chr17,35479117,35480155,-" ; protein_id "ENSP00000437635.2" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "AC015911.9--SLFN12L^ENST00000260908.12" ; transcript_name "SLFN12L-201" ; transcript_support_level 5 ; transcript_type protein_coding
AC015911.9--SLFN12L HAVANA mRNA 4692 11059 . + . FI_gene_label "SLFN12L^ENSG00000205045.11" ; ID "AC015911.9--SLFN12L^ENST00000260908.12" ; Parent "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; exon_id "ENSE00003850559.1" ; exon_number 2 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; gene_name SLFN12L ; gene_type protein_coding ; havana_gene "OTTHUMG00000193506.1" ; havana_transcript "OTTHUMT00000395748.3" ; hgnc_id "HGNC:33920" ; level 2 ; orig_coord_info "chr17,35479117,35480155,-" ; protein_id "ENSP00000437635.2" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "AC015911.9--SLFN12L^ENST00000260908.12" ; transcript_name "SLFN12L-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
AC092807.3--DDAH1 HAVANA gene 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC092807.3--DDAH1 HAVANA mRNA 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^ENST00000284031.13" ; Parent "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC093815.1--UGT8 HAVANA gene 4326 14673 . + . FI_gene_label "UGT8^ENSG00000174607.11" ; ID "AC093815.1--UGT8^UGT8^ENSG00000174607.11" ; ccdsid "CCDS3705.1" ; exon_id "ENSE00001253585.4" ; exon_number 2 ; gene_id "AC093815.1--UGT8^UGT8^ENSG00000174607.11" ; gene_name UGT8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132915.5" ; havana_transcript "OTTHUMT00000256426.3" ; hgnc_id "HGNC:12555" ; level 2 ; orig_coord_info "chr4,114622881,114623702,+" ; protein_id "ENSP00000311648.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC093815.1--UGT8^ENST00000310836.11" ; transcript_name "UGT8-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC093815.1--UGT8 HAVANA mRNA 4326 14673 . + . FI_gene_label "UGT8^ENSG00000174607.11" ; ID "AC093815.1--UGT8^ENST00000310836.11" ; Parent "AC093815.1--UGT8^UGT8^ENSG00000174607.11" ; ccdsid "CCDS3705.1" ; exon_id "ENSE00001253585.4" ; exon_number 2 ; gene_id "AC093815.1--UGT8^UGT8^ENSG00000174607.11" ; gene_name UGT8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132915.5" ; havana_transcript "OTTHUMT00000256426.3" ; hgnc_id "HGNC:12555" ; level 2 ; orig_coord_info "chr4,114622881,114623702,+" ; protein_id "ENSP00000311648.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC093815.1--UGT8^ENST00000310836.11" ; transcript_name "UGT8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AL033504.1--SASH1 HAVANA gene 12342 42617 . + . FI_gene_label "SASH1^ENSG00000111961.18" ; ID "AL033504.1--SASH1^SASH1^ENSG00000111961.18" ; ccdsid "CCDS5212.1" ; exon_id "ENSE00001444575.2" ; exon_number 1 ; gene_id "AL033504.1--SASH1^SASH1^ENSG00000111961.18" ; gene_name SASH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015773.4" ; havana_transcript "OTTHUMT00000042619.3" ; hgnc_id "HGNC:19182" ; level 2 ; orig_coord_info "chr6,148343068,148343223,+" ; protein_id "ENSP00000356437.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AL033504.1--SASH1^ENST00000367467.8" ; transcript_name "SASH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
AL033504.1--SASH1 HAVANA mRNA 12342 42617 . + . FI_gene_label "SASH1^ENSG00000111961.18" ; ID "AL033504.1--SASH1^ENST00000367467.8" ; Parent "AL033504.1--SASH1^SASH1^ENSG00000111961.18" ; ccdsid "CCDS5212.1" ; exon_id "ENSE00001444575.2" ; exon_number 1 ; gene_id "AL033504.1--SASH1^SASH1^ENSG00000111961.18" ; gene_name SASH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015773.4" ; havana_transcript "OTTHUMT00000042619.3" ; hgnc_id "HGNC:19182" ; level 2 ; orig_coord_info "chr6,148343068,148343223,+" ; protein_id "ENSP00000356437.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AL033504.1--SASH1^ENST00000367467.8" ; transcript_name "SASH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AP001021.1--YAP1 HAVANA gene 12676 28371 . + . FI_gene_label "YAP1^ENSG00000137693.14" ; ID "AP001021.1--YAP1^YAP1^ENSG00000137693.14" ; ccdsid "CCDS44716.1" ; exon_id "ENSE00003850849.1" ; exon_number 1 ; gene_id "AP001021.1--YAP1^YAP1^ENSG00000137693.14" ; gene_name YAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167322.4" ; havana_transcript "OTTHUMT00000394151.2" ; hgnc_id "HGNC:16262" ; level 2 ; orig_coord_info "chr11,102110849,102111169,+" ; protein_id "ENSP00000282441.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "AP001021.1--YAP1^ENST00000282441.10" ; transcript_name "YAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
AP001021.1--YAP1 HAVANA mRNA 12676 28371 . + . FI_gene_label "YAP1^ENSG00000137693.14" ; ID "AP001021.1--YAP1^ENST00000282441.10" ; Parent "AP001021.1--YAP1^YAP1^ENSG00000137693.14" ; ccdsid "CCDS44716.1" ; exon_id "ENSE00003850849.1" ; exon_number 1 ; gene_id "AP001021.1--YAP1^YAP1^ENSG00000137693.14" ; gene_name YAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167322.4" ; havana_transcript "OTTHUMT00000394151.2" ; hgnc_id "HGNC:16262" ; level 2 ; orig_coord_info "chr11,102110849,102111169,+" ; protein_id "ENSP00000282441.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "AP001021.1--YAP1^ENST00000282441.10" ; transcript_name "YAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
B4GALT6--DSC3 HAVANA gene 2260 12015 . + . FI_gene_label "B4GALT6^ENSG00000118276.11" ; ID "B4GALT6--DSC3^B4GALT6^ENSG00000118276.11" ; ccdsid "CCDS82245.1" ; exon_id "ENSE00001683600.2" ; exon_number 1 ; gene_id "B4GALT6--DSC3^B4GALT6^ENSG00000118276.11" ; gene_name B4GALT6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131980.4" ; havana_transcript "OTTHUMT00000447517.1" ; hgnc_id "HGNC:929" ; level 1 ; orig_coord_info "chr18,31684312,31684426,-" ; protein_id "ENSP00000237019.7" ; tag basic exp_conf CCDS ; transcript_id "B4GALT6--DSC3^ENST00000237019.11" ; transcript_name "B4GALT6-201" ; transcript_support_level 1 ; transcript_type protein_coding
B4GALT6--DSC3 HAVANA mRNA 2260 12015 . + . FI_gene_label "B4GALT6^ENSG00000118276.11" ; ID "B4GALT6--DSC3^ENST00000237019.11" ; Parent "B4GALT6--DSC3^B4GALT6^ENSG00000118276.11" ; ccdsid "CCDS82245.1" ; exon_id "ENSE00001683600.2" ; exon_number 1 ; gene_id "B4GALT6--DSC3^B4GALT6^ENSG00000118276.11" ; gene_name B4GALT6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131980.4" ; havana_transcript "OTTHUMT00000447517.1" ; hgnc_id "HGNC:929" ; level 1 ; orig_coord_info "chr18,31684312,31684426,-" ; protein_id "ENSP00000237019.7" ; tag basic exp_conf CCDS ; transcript_id "B4GALT6--DSC3^ENST00000237019.11" ; transcript_name "B4GALT6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
B4GALT6--DSC3 HAVANA gene 17505 38614 . + . FI_gene_label "DSC3^ENSG00000134762.17" ; ID "B4GALT6--DSC3^DSC3^ENSG00000134762.17" ; ccdsid "CCDS32810.1" ; exon_id "ENSE00002687302.2" ; exon_number 1 ; gene_id "B4GALT6--DSC3^DSC3^ENSG00000134762.17" ; gene_name DSC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179622.2" ; havana_transcript "OTTHUMT00000447384.2" ; hgnc_id "HGNC:3037" ; level 2 ; orig_coord_info "chr18,31042592,31042660,-" ; protein_id "ENSP00000353608.4" ; tag non_canonical_genome_sequence_error basic MANE_Select appris_principal_1 CCDS ; transcript_id "B4GALT6--DSC3^ENST00000360428.9" ; transcript_name "DSC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
B4GALT6--DSC3 HAVANA mRNA 17505 38614 . + . FI_gene_label "DSC3^ENSG00000134762.17" ; ID "B4GALT6--DSC3^ENST00000360428.9" ; Parent "B4GALT6--DSC3^DSC3^ENSG00000134762.17" ; ccdsid "CCDS32810.1" ; exon_id "ENSE00002687302.2" ; exon_number 1 ; gene_id "B4GALT6--DSC3^DSC3^ENSG00000134762.17" ; gene_name DSC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179622.2" ; havana_transcript "OTTHUMT00000447384.2" ; hgnc_id "HGNC:3037" ; level 2 ; orig_coord_info "chr18,31042592,31042660,-" ; protein_id "ENSP00000353608.4" ; tag non_canonical_genome_sequence_error basic MANE_Select appris_principal_1 CCDS ; transcript_id "B4GALT6--DSC3^ENST00000360428.9" ; transcript_name "DSC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
BIRC3--PDGFD HAVANA gene 1035 16073 . + . FI_gene_label "BIRC3^ENSG00000023445.16" ; ID "BIRC3--PDGFD^BIRC3^ENSG00000023445.16" ; ccdsid "CCDS8315.1" ; exon_id "ENSE00001256551.1" ; exon_number 2 ; gene_id "BIRC3--PDGFD^BIRC3^ENSG00000023445.16" ; gene_name BIRC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167324.6" ; havana_transcript "OTTHUMT00000394159.2" ; hgnc_id "HGNC:591" ; level 2 ; orig_coord_info "chr11,102324510,102325362,+" ; protein_id "ENSP00000263464.4" ; tag alternative_5_UTR CAGE_supported_TSS basic MANE_Select appris_principal_1 CCDS ; transcript_id "BIRC3--PDGFD^ENST00000263464.9" ; transcript_name "BIRC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
BIRC3--PDGFD HAVANA mRNA 1035 16073 . + . FI_gene_label "BIRC3^ENSG00000023445.16" ; ID "BIRC3--PDGFD^ENST00000263464.9" ; Parent "BIRC3--PDGFD^BIRC3^ENSG00000023445.16" ; ccdsid "CCDS8315.1" ; exon_id "ENSE00001256551.1" ; exon_number 2 ; gene_id "BIRC3--PDGFD^BIRC3^ENSG00000023445.16" ; gene_name BIRC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167324.6" ; havana_transcript "OTTHUMT00000394159.2" ; hgnc_id "HGNC:591" ; level 2 ; orig_coord_info "chr11,102324510,102325362,+" ; protein_id "ENSP00000263464.4" ; tag alternative_5_UTR CAGE_supported_TSS basic MANE_Select appris_principal_1 CCDS ; transcript_id "BIRC3--PDGFD^ENST00000263464.9" ; transcript_name "BIRC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
BIRC3--PDGFD HAVANA gene 19074 30336 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "BIRC3--PDGFD^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "BIRC3--PDGFD^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "BIRC3--PDGFD^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
BIRC3--PDGFD HAVANA mRNA 19074 30336 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "BIRC3--PDGFD^ENST00000302251.9" ; Parent "BIRC3--PDGFD^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "BIRC3--PDGFD^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "BIRC3--PDGFD^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CDV3--MT-RNR2 HAVANA gene 1001 8278 . + . FI_gene_label "CDV3^ENSG00000091527.16" ; ID "CDV3--MT-RNR2^CDV3^ENSG00000091527.16" ; ccdsid "CCDS3079.1" ; exon_id "ENSE00001346369.4" ; exon_number 1 ; gene_id "CDV3--MT-RNR2^CDV3^ENSG00000091527.16" ; gene_name CDV3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159764.13" ; havana_transcript "OTTHUMT00000357203.1" ; hgnc_id "HGNC:26928" ; level 2 ; orig_coord_info "chr3,133574045,133574284,+" ; protein_id "ENSP00000264993.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "CDV3--MT-RNR2^ENST00000264993.8" ; transcript_name "CDV3-201" ; transcript_support_level 1 ; transcript_type protein_coding
CDV3--MT-RNR2 HAVANA mRNA 1001 8278 . + . FI_gene_label "CDV3^ENSG00000091527.16" ; ID "CDV3--MT-RNR2^ENST00000264993.8" ; Parent "CDV3--MT-RNR2^CDV3^ENSG00000091527.16" ; ccdsid "CCDS3079.1" ; exon_id "ENSE00001346369.4" ; exon_number 1 ; gene_id "CDV3--MT-RNR2^CDV3^ENSG00000091527.16" ; gene_name CDV3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159764.13" ; havana_transcript "OTTHUMT00000357203.1" ; hgnc_id "HGNC:26928" ; level 2 ; orig_coord_info "chr3,133574045,133574284,+" ; protein_id "ENSP00000264993.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "CDV3--MT-RNR2^ENST00000264993.8" ; transcript_name "CDV3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CLTC--VMP1 HAVANA gene 39205 57907 . + . FI_gene_label "VMP1^ENSG00000062716.13" ; ID "CLTC--VMP1^VMP1^ENSG00000062716.13" ; ccdsid "CCDS11619.1" ; exon_id "ENSE00003550286.1" ; exon_number 2 ; gene_id "CLTC--VMP1^VMP1^ENSG00000062716.13" ; gene_name VMP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179882.4" ; havana_transcript "OTTHUMT00000448793.2" ; hgnc_id "HGNC:29559" ; level 2 ; orig_coord_info "chr17,59731447,59731522,+" ; protein_id "ENSP00000262291.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CLTC--VMP1^ENST00000262291.9" ; transcript_name "VMP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CLTC--VMP1 HAVANA mRNA 39205 57907 . + . FI_gene_label "VMP1^ENSG00000062716.13" ; ID "CLTC--VMP1^ENST00000262291.9" ; Parent "CLTC--VMP1^VMP1^ENSG00000062716.13" ; ccdsid "CCDS11619.1" ; exon_id "ENSE00003550286.1" ; exon_number 2 ; gene_id "CLTC--VMP1^VMP1^ENSG00000062716.13" ; gene_name VMP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179882.4" ; havana_transcript "OTTHUMT00000448793.2" ; hgnc_id "HGNC:29559" ; level 2 ; orig_coord_info "chr17,59731447,59731522,+" ; protein_id "ENSP00000262291.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CLTC--VMP1^ENST00000262291.9" ; transcript_name "VMP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CLTC--VMP1 HAVANA gene 1207 35742 . + . FI_gene_label "CLTC^ENSG00000141367.12" ; ID "CLTC--VMP1^CLTC^ENSG00000141367.12" ; ccdsid "CCDS32696.1" ; exon_id "ENSE00003895422.1" ; exon_number 1 ; gene_id "CLTC--VMP1^CLTC^ENSG00000141367.12" ; gene_name CLTC ; gene_type protein_coding ; havana_gene "OTTHUMG00000134279.5" ; havana_transcript "OTTHUMT00000258859.2" ; hgnc_id "HGNC:2092" ; level 2 ; orig_coord_info "chr17,59620132,59620173,+" ; protein_id "ENSP00000269122.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CLTC--VMP1^ENST00000269122.8" ; transcript_name "CLTC-201" ; transcript_support_level 1 ; transcript_type protein_coding
CLTC--VMP1 HAVANA mRNA 1207 35742 . + . FI_gene_label "CLTC^ENSG00000141367.12" ; ID "CLTC--VMP1^ENST00000269122.8" ; Parent "CLTC--VMP1^CLTC^ENSG00000141367.12" ; ccdsid "CCDS32696.1" ; exon_id "ENSE00003895422.1" ; exon_number 1 ; gene_id "CLTC--VMP1^CLTC^ENSG00000141367.12" ; gene_name CLTC ; gene_type protein_coding ; havana_gene "OTTHUMG00000134279.5" ; havana_transcript "OTTHUMT00000258859.2" ; hgnc_id "HGNC:2092" ; level 2 ; orig_coord_info "chr17,59620132,59620173,+" ; protein_id "ENSP00000269122.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CLTC--VMP1^ENST00000269122.8" ; transcript_name "CLTC-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COL1A1--SLC45A4 HAVANA gene 25435 34927 . + . FI_gene_label "SLC45A4^ENSG00000022567.10" ; ID "COL1A1--SLC45A4^SLC45A4^ENSG00000022567.10" ; ccdsid "CCDS34948.1" ; exon_id "ENSE00001475008.1" ; exon_number 1 ; gene_id "COL1A1--SLC45A4^SLC45A4^ENSG00000022567.10" ; gene_name SLC45A4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164393.4" ; havana_transcript "OTTHUMT00000378571.3" ; hgnc_id "HGNC:29196" ; level 2 ; orig_coord_info "chr8,141228179,141228266,-" ; protein_id "ENSP00000024061.3" ; tag basic appris_principal_1 CCDS ; transcript_id "COL1A1--SLC45A4^ENST00000024061.7" ; transcript_name "SLC45A4-201" ; transcript_support_level 1 ; transcript_type protein_coding
COL1A1--SLC45A4 HAVANA mRNA 25435 34927 . + . FI_gene_label "SLC45A4^ENSG00000022567.10" ; ID "COL1A1--SLC45A4^ENST00000024061.7" ; Parent "COL1A1--SLC45A4^SLC45A4^ENSG00000022567.10" ; ccdsid "CCDS34948.1" ; exon_id "ENSE00001475008.1" ; exon_number 1 ; gene_id "COL1A1--SLC45A4^SLC45A4^ENSG00000022567.10" ; gene_name SLC45A4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164393.4" ; havana_transcript "OTTHUMT00000378571.3" ; hgnc_id "HGNC:29196" ; level 2 ; orig_coord_info "chr8,141228179,141228266,-" ; protein_id "ENSP00000024061.3" ; tag basic appris_principal_1 CCDS ; transcript_id "COL1A1--SLC45A4^ENST00000024061.7" ; transcript_name "SLC45A4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COL1A1--SLC45A4 HAVANA gene 1002 18313 . + . FI_gene_label "COL1A1^ENSG00000108821.14" ; ID "COL1A1--SLC45A4^COL1A1^ENSG00000108821.14" ; ccdsid "CCDS11561.1" ; exon_id "ENSE00003500023.2" ; exon_number 1 ; gene_id "COL1A1--SLC45A4^COL1A1^ENSG00000108821.14" ; gene_name COL1A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000148674.9" ; havana_transcript "OTTHUMT00000309036.3" ; hgnc_id "HGNC:2197" ; level 2 ; orig_coord_info "chr17,50201411,50201513,-" ; protein_id "ENSP00000225964.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COL1A1--SLC45A4^ENST00000225964.10" ; transcript_name "COL1A1-201" ; transcript_support_level 1 ; transcript_type protein_coding
COL1A1--SLC45A4 HAVANA mRNA 1002 18313 . + . FI_gene_label "COL1A1^ENSG00000108821.14" ; ID "COL1A1--SLC45A4^ENST00000225964.10" ; Parent "COL1A1--SLC45A4^COL1A1^ENSG00000108821.14" ; ccdsid "CCDS11561.1" ; exon_id "ENSE00003500023.2" ; exon_number 1 ; gene_id "COL1A1--SLC45A4^COL1A1^ENSG00000108821.14" ; gene_name COL1A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000148674.9" ; havana_transcript "OTTHUMT00000309036.3" ; hgnc_id "HGNC:2197" ; level 2 ; orig_coord_info "chr17,50201411,50201513,-" ; protein_id "ENSP00000225964.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COL1A1--SLC45A4^ENST00000225964.10" ; transcript_name "COL1A1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
EIF4H--COL1A2 HAVANA gene 1126 12292 . + . FI_gene_label "EIF4H^ENSG00000106682.16" ; ID "EIF4H--COL1A2^EIF4H^ENSG00000106682.16" ; ccdsid "CCDS5564.1" ; exon_id "ENSE00001946404.1" ; exon_number 1 ; gene_id "EIF4H--COL1A2^EIF4H^ENSG00000106682.16" ; gene_name EIF4H ; gene_type protein_coding ; havana_gene "OTTHUMG00000023025.4" ; havana_transcript "OTTHUMT00000252375.2" ; hgnc_id "HGNC:12741" ; level 2 ; orig_coord_info "chr7,74174384,74174442,+" ; protein_id "ENSP00000265753.8" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "EIF4H--COL1A2^ENST00000265753.13" ; transcript_name "EIF4H-201" ; transcript_support_level 2 ; transcript_type protein_coding
EIF4H--COL1A2 HAVANA mRNA 1126 12292 . + . FI_gene_label "EIF4H^ENSG00000106682.16" ; ID "EIF4H--COL1A2^ENST00000265753.13" ; Parent "EIF4H--COL1A2^EIF4H^ENSG00000106682.16" ; ccdsid "CCDS5564.1" ; exon_id "ENSE00001946404.1" ; exon_number 1 ; gene_id "EIF4H--COL1A2^EIF4H^ENSG00000106682.16" ; gene_name EIF4H ; gene_type protein_coding ; havana_gene "OTTHUMG00000023025.4" ; havana_transcript "OTTHUMT00000252375.2" ; hgnc_id "HGNC:12741" ; level 2 ; orig_coord_info "chr7,74174384,74174442,+" ; protein_id "ENSP00000265753.8" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "EIF4H--COL1A2^ENST00000265753.13" ; transcript_name "EIF4H-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
EIF4H--COL1A2 HAVANA gene 15319 47004 . + . FI_gene_label "COL1A2^ENSG00000164692.18" ; ID "EIF4H--COL1A2^COL1A2^ENSG00000164692.18" ; ccdsid "CCDS34682.1" ; exon_id "ENSE00001086693.3" ; exon_number 1 ; gene_id "EIF4H--COL1A2^COL1A2^ENSG00000164692.18" ; gene_name COL1A2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000148675.3" ; havana_transcript "OTTHUMT00000309045.3" ; hgnc_id "HGNC:2198" ; level 2 ; orig_coord_info "chr7,94395032,94395101,+" ; protein_id "ENSP00000297268.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "EIF4H--COL1A2^ENST00000297268.11" ; transcript_name "COL1A2-201" ; transcript_support_level 1 ; transcript_type protein_coding
EIF4H--COL1A2 HAVANA mRNA 15319 47004 . + . FI_gene_label "COL1A2^ENSG00000164692.18" ; ID "EIF4H--COL1A2^ENST00000297268.11" ; Parent "EIF4H--COL1A2^COL1A2^ENSG00000164692.18" ; ccdsid "CCDS34682.1" ; exon_id "ENSE00001086693.3" ; exon_number 1 ; gene_id "EIF4H--COL1A2^COL1A2^ENSG00000164692.18" ; gene_name COL1A2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000148675.3" ; havana_transcript "OTTHUMT00000309045.3" ; hgnc_id "HGNC:2198" ; level 2 ; orig_coord_info "chr7,94395032,94395101,+" ; protein_id "ENSP00000297268.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "EIF4H--COL1A2^ENST00000297268.11" ; transcript_name "COL1A2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
FLG-AS1--ARHGAP32 HAVANA gene 34725 65804 . + . FI_gene_label "ARHGAP32^ENSG00000134909.18" ; ID "FLG-AS1--ARHGAP32^ARHGAP32^ENSG00000134909.18" ; ccdsid "CCDS44769.1" ; exon_id "ENSE00002477884.1" ; exon_number 1 ; gene_id "FLG-AS1--ARHGAP32^ARHGAP32^ENSG00000134909.18" ; gene_name ARHGAP32 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165774.4" ; havana_transcript "OTTHUMT00000386151.3" ; hgnc_id "HGNC:17399" ; level 2 ; orig_coord_info "chr11,129192083,129192198,-" ; protein_id "ENSP00000310561.8" ; tag basic appris_principal_2 CCDS ; transcript_id "FLG-AS1--ARHGAP32^ENST00000310343.13" ; transcript_name "ARHGAP32-201" ; transcript_support_level 1 ; transcript_type protein_coding
FLG-AS1--ARHGAP32 HAVANA mRNA 34725 65804 . + . FI_gene_label "ARHGAP32^ENSG00000134909.18" ; ID "FLG-AS1--ARHGAP32^ENST00000310343.13" ; Parent "FLG-AS1--ARHGAP32^ARHGAP32^ENSG00000134909.18" ; ccdsid "CCDS44769.1" ; exon_id "ENSE00002477884.1" ; exon_number 1 ; gene_id "FLG-AS1--ARHGAP32^ARHGAP32^ENSG00000134909.18" ; gene_name ARHGAP32 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165774.4" ; havana_transcript "OTTHUMT00000386151.3" ; hgnc_id "HGNC:17399" ; level 2 ; orig_coord_info "chr11,129192083,129192198,-" ; protein_id "ENSP00000310561.8" ; tag basic appris_principal_2 CCDS ; transcript_id "FLG-AS1--ARHGAP32^ENST00000310343.13" ; transcript_name "ARHGAP32-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GLIS3--AP003304.1 HAVANA gene 10255 36922 . + . FI_gene_label "GLIS3^ENSG00000107249.23" ; ID "GLIS3--AP003304.1^GLIS3^ENSG00000107249.23" ; ccdsid "CCDS6451.1" ; exon_id "ENSE00003508620.1" ; exon_number 2 ; gene_id "GLIS3--AP003304.1^GLIS3^ENSG00000107249.23" ; gene_name GLIS3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019463.7" ; havana_transcript "OTTHUMT00000051559.1" ; hgnc_id "HGNC:28510" ; level 2 ; orig_coord_info "chr9,4125734,4125864,-" ; protein_id "ENSP00000325494.10" ; tag basic appris_alternative_2 CCDS ; transcript_id "GLIS3--AP003304.1^ENST00000324333.14" ; transcript_name "GLIS3-201" ; transcript_support_level 1 ; transcript_type protein_coding
GLIS3--AP003304.1 HAVANA mRNA 10255 36922 . + . FI_gene_label "GLIS3^ENSG00000107249.23" ; ID "GLIS3--AP003304.1^ENST00000324333.14" ; Parent "GLIS3--AP003304.1^GLIS3^ENSG00000107249.23" ; ccdsid "CCDS6451.1" ; exon_id "ENSE00003508620.1" ; exon_number 2 ; gene_id "GLIS3--AP003304.1^GLIS3^ENSG00000107249.23" ; gene_name GLIS3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019463.7" ; havana_transcript "OTTHUMT00000051559.1" ; hgnc_id "HGNC:28510" ; level 2 ; orig_coord_info "chr9,4125734,4125864,-" ; protein_id "ENSP00000325494.10" ; tag basic appris_alternative_2 CCDS ; transcript_id "GLIS3--AP003304.1^ENST00000324333.14" ; transcript_name "GLIS3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GLIS3--PDGFD HAVANA gene 39923 51185 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "GLIS3--PDGFD^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "GLIS3--PDGFD^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "GLIS3--PDGFD^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
GLIS3--PDGFD HAVANA mRNA 39923 51185 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "GLIS3--PDGFD^ENST00000302251.9" ; Parent "GLIS3--PDGFD^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "GLIS3--PDGFD^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "GLIS3--PDGFD^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GLIS3--PDGFD HAVANA gene 10255 36922 . + . FI_gene_label "GLIS3^ENSG00000107249.23" ; ID "GLIS3--PDGFD^GLIS3^ENSG00000107249.23" ; ccdsid "CCDS6451.1" ; exon_id "ENSE00003508620.1" ; exon_number 2 ; gene_id "GLIS3--PDGFD^GLIS3^ENSG00000107249.23" ; gene_name GLIS3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019463.7" ; havana_transcript "OTTHUMT00000051559.1" ; hgnc_id "HGNC:28510" ; level 2 ; orig_coord_info "chr9,4125734,4125864,-" ; protein_id "ENSP00000325494.10" ; tag basic appris_alternative_2 CCDS ; transcript_id "GLIS3--PDGFD^ENST00000324333.14" ; transcript_name "GLIS3-201" ; transcript_support_level 1 ; transcript_type protein_coding
GLIS3--PDGFD HAVANA mRNA 10255 36922 . + . FI_gene_label "GLIS3^ENSG00000107249.23" ; ID "GLIS3--PDGFD^ENST00000324333.14" ; Parent "GLIS3--PDGFD^GLIS3^ENSG00000107249.23" ; ccdsid "CCDS6451.1" ; exon_id "ENSE00003508620.1" ; exon_number 2 ; gene_id "GLIS3--PDGFD^GLIS3^ENSG00000107249.23" ; gene_name GLIS3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019463.7" ; havana_transcript "OTTHUMT00000051559.1" ; hgnc_id "HGNC:28510" ; level 2 ; orig_coord_info "chr9,4125734,4125864,-" ; protein_id "ENSP00000325494.10" ; tag basic appris_alternative_2 CCDS ; transcript_id "GLIS3--PDGFD^ENST00000324333.14" ; transcript_name "GLIS3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LINC01429--SALL4 HAVANA gene 8327 19077 . + . FI_gene_label "SALL4^ENSG00000101115.13" ; ID "LINC01429--SALL4^SALL4^ENSG00000101115.13" ; ccdsid "CCDS13438.1" ; exon_id "ENSE00002691295.2" ; exon_number 1 ; gene_id "LINC01429--SALL4^SALL4^ENSG00000101115.13" ; gene_name SALL4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032752.6" ; havana_transcript "OTTHUMT00000079738.5" ; hgnc_id "HGNC:15924" ; level 2 ; orig_coord_info "chr20,51802279,51802408,-" ; protein_id "ENSP00000217086.4" ; tag 3_standard_supported_extension basic MANE_Select appris_principal_1 CCDS ; transcript_id "LINC01429--SALL4^ENST00000217086.9" ; transcript_name "SALL4-201" ; transcript_support_level 1 ; transcript_type protein_coding
LINC01429--SALL4 HAVANA mRNA 8327 19077 . + . FI_gene_label "SALL4^ENSG00000101115.13" ; ID "LINC01429--SALL4^ENST00000217086.9" ; Parent "LINC01429--SALL4^SALL4^ENSG00000101115.13" ; ccdsid "CCDS13438.1" ; exon_id "ENSE00002691295.2" ; exon_number 1 ; gene_id "LINC01429--SALL4^SALL4^ENSG00000101115.13" ; gene_name SALL4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032752.6" ; havana_transcript "OTTHUMT00000079738.5" ; hgnc_id "HGNC:15924" ; level 2 ; orig_coord_info "chr20,51802279,51802408,-" ; protein_id "ENSP00000217086.4" ; tag 3_standard_supported_extension basic MANE_Select appris_principal_1 CCDS ; transcript_id "LINC01429--SALL4^ENST00000217086.9" ; transcript_name "SALL4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MTAP--CDKN2B-AS1 HAVANA gene 1022 14638 . + . FI_gene_label "MTAP^ENSG00000099810.21" ; ID "MTAP--CDKN2B-AS1^MTAP^ENSG00000099810.21" ; exon_id "ENSE00001547793.2" ; exon_number 1 ; gene_id "MTAP--CDKN2B-AS1^MTAP^ENSG00000099810.21" ; gene_name MTAP ; gene_type protein_coding ; havana_gene "OTTHUMG00000019690.10" ; havana_transcript "OTTHUMT00000334287.1" ; hgnc_id "HGNC:7413" ; level 2 ; orig_coord_info "chr9,21802749,21802781,+" ; protein_id "ENSP00000393507.1" ; tag not_organism_supported ; transcript_id "MTAP--CDKN2B-AS1^ENST00000419385.5" ; transcript_name "MTAP-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
MTAP--CDKN2B-AS1 HAVANA mRNA 1022 14638 . + . FI_gene_label "MTAP^ENSG00000099810.21" ; ID "MTAP--CDKN2B-AS1^ENST00000419385.5" ; Parent "MTAP--CDKN2B-AS1^MTAP^ENSG00000099810.21" ; exon_id "ENSE00001547793.2" ; exon_number 1 ; gene_id "MTAP--CDKN2B-AS1^MTAP^ENSG00000099810.21" ; gene_name MTAP ; gene_type protein_coding ; havana_gene "OTTHUMG00000019690.10" ; havana_transcript "OTTHUMT00000334287.1" ; hgnc_id "HGNC:7413" ; level 2 ; orig_coord_info "chr9,21802749,21802781,+" ; protein_id "ENSP00000393507.1" ; tag not_organism_supported ; transcript_id "MTAP--CDKN2B-AS1^ENST00000419385.5" ; transcript_name "MTAP-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
NUP214--AP000851.1 HAVANA gene 1001 45815 . + . FI_gene_label "NUP214^ENSG00000126883.17" ; ID "NUP214--AP000851.1^NUP214^ENSG00000126883.17" ; ccdsid "CCDS6940.1" ; exon_id "ENSE00002159824.1" ; exon_number 1 ; gene_id "NUP214--AP000851.1^NUP214^ENSG00000126883.17" ; gene_name NUP214 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020816.11" ; havana_transcript "OTTHUMT00000054694.2" ; hgnc_id "HGNC:8064" ; level 2 ; orig_coord_info "chr9,131125705,131125749,+" ; protein_id "ENSP00000352400.5" ; tag CAGE_supported_TSS basic MANE_Select appris_principal_4 CCDS ; transcript_id "NUP214--AP000851.1^ENST00000359428.10" ; transcript_name "NUP214-201" ; transcript_support_level 1 ; transcript_type protein_coding
NUP214--AP000851.1 HAVANA mRNA 1001 45815 . + . FI_gene_label "NUP214^ENSG00000126883.17" ; ID "NUP214--AP000851.1^ENST00000359428.10" ; Parent "NUP214--AP000851.1^NUP214^ENSG00000126883.17" ; ccdsid "CCDS6940.1" ; exon_id "ENSE00002159824.1" ; exon_number 1 ; gene_id "NUP214--AP000851.1^NUP214^ENSG00000126883.17" ; gene_name NUP214 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020816.11" ; havana_transcript "OTTHUMT00000054694.2" ; hgnc_id "HGNC:8064" ; level 2 ; orig_coord_info "chr9,131125705,131125749,+" ; protein_id "ENSP00000352400.5" ; tag CAGE_supported_TSS basic MANE_Select appris_principal_4 CCDS ; transcript_id "NUP214--AP000851.1^ENST00000359428.10" ; transcript_name "NUP214-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NUP214--AP000851.2 HAVANA gene 1001 45815 . + . FI_gene_label "NUP214^ENSG00000126883.17" ; ID "NUP214--AP000851.2^NUP214^ENSG00000126883.17" ; ccdsid "CCDS6940.1" ; exon_id "ENSE00002159824.1" ; exon_number 1 ; gene_id "NUP214--AP000851.2^NUP214^ENSG00000126883.17" ; gene_name NUP214 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020816.11" ; havana_transcript "OTTHUMT00000054694.2" ; hgnc_id "HGNC:8064" ; level 2 ; orig_coord_info "chr9,131125705,131125749,+" ; protein_id "ENSP00000352400.5" ; tag CAGE_supported_TSS basic MANE_Select appris_principal_4 CCDS ; transcript_id "NUP214--AP000851.2^ENST00000359428.10" ; transcript_name "NUP214-201" ; transcript_support_level 1 ; transcript_type protein_coding
NUP214--AP000851.2 HAVANA mRNA 1001 45815 . + . FI_gene_label "NUP214^ENSG00000126883.17" ; ID "NUP214--AP000851.2^ENST00000359428.10" ; Parent "NUP214--AP000851.2^NUP214^ENSG00000126883.17" ; ccdsid "CCDS6940.1" ; exon_id "ENSE00002159824.1" ; exon_number 1 ; gene_id "NUP214--AP000851.2^NUP214^ENSG00000126883.17" ; gene_name NUP214 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020816.11" ; havana_transcript "OTTHUMT00000054694.2" ; hgnc_id "HGNC:8064" ; level 2 ; orig_coord_info "chr9,131125705,131125749,+" ; protein_id "ENSP00000352400.5" ; tag CAGE_supported_TSS basic MANE_Select appris_principal_4 CCDS ; transcript_id "NUP214--AP000851.2^ENST00000359428.10" ; transcript_name "NUP214-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDCD1LG2--AP001830.2 HAVANA gene 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--AP001830.2^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--AP001830.2^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--AP001830.2^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDCD1LG2--AP001830.2 HAVANA mRNA 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--AP001830.2^ENST00000397747.5" ; Parent "PDCD1LG2--AP001830.2^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--AP001830.2^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--AP001830.2^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDCD1LG2--DYNC2H1 HAVANA gene 12545 104432 . + . FI_gene_label "DYNC2H1^ENSG00000187240.16" ; ID "PDCD1LG2--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; exon_id "ENSE00002164953.1" ; exon_number 1 ; gene_id "PDCD1LG2--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; gene_name DYNC2H1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165941.6" ; havana_transcript "OTTHUMT00000387197.1" ; hgnc_id "HGNC:2962" ; level 2 ; orig_coord_info "chr11,103109575,103109769,+" ; protein_id "ENSP00000334021.7" ; tag basic ; transcript_id "PDCD1LG2--DYNC2H1^ENST00000334267.11" ; transcript_name "DYNC2H1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDCD1LG2--DYNC2H1 HAVANA mRNA 12545 104432 . + . FI_gene_label "DYNC2H1^ENSG00000187240.16" ; ID "PDCD1LG2--DYNC2H1^ENST00000334267.11" ; Parent "PDCD1LG2--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; exon_id "ENSE00002164953.1" ; exon_number 1 ; gene_id "PDCD1LG2--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; gene_name DYNC2H1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165941.6" ; havana_transcript "OTTHUMT00000387197.1" ; hgnc_id "HGNC:2962" ; level 2 ; orig_coord_info "chr11,103109575,103109769,+" ; protein_id "ENSP00000334021.7" ; tag basic ; transcript_id "PDCD1LG2--DYNC2H1^ENST00000334267.11" ; transcript_name "DYNC2H1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDCD1LG2--DYNC2H1 HAVANA gene 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--DYNC2H1^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--DYNC2H1^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--DYNC2H1^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDCD1LG2--DYNC2H1 HAVANA mRNA 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--DYNC2H1^ENST00000397747.5" ; Parent "PDCD1LG2--DYNC2H1^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--DYNC2H1^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--DYNC2H1^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDCD1LG2--MMP7 HAVANA gene 12436 18710 . + . FI_gene_label "MMP7^ENSG00000137673.9" ; ID "PDCD1LG2--MMP7^MMP7^ENSG00000137673.9" ; ccdsid "CCDS8317.1" ; exon_id "ENSE00002145134.2" ; exon_number 1 ; gene_id "PDCD1LG2--MMP7^MMP7^ENSG00000137673.9" ; gene_name MMP7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000048193.3" ; havana_transcript "OTTHUMT00000109633.3" ; hgnc_id "HGNC:7174" ; level 2 ; orig_coord_info "chr11,102530593,102530700,-" ; protein_id "ENSP00000260227.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--MMP7^ENST00000260227.5" ; transcript_name "MMP7-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDCD1LG2--MMP7 HAVANA mRNA 12436 18710 . + . FI_gene_label "MMP7^ENSG00000137673.9" ; ID "PDCD1LG2--MMP7^ENST00000260227.5" ; Parent "PDCD1LG2--MMP7^MMP7^ENSG00000137673.9" ; ccdsid "CCDS8317.1" ; exon_id "ENSE00002145134.2" ; exon_number 1 ; gene_id "PDCD1LG2--MMP7^MMP7^ENSG00000137673.9" ; gene_name MMP7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000048193.3" ; havana_transcript "OTTHUMT00000109633.3" ; hgnc_id "HGNC:7174" ; level 2 ; orig_coord_info "chr11,102530593,102530700,-" ; protein_id "ENSP00000260227.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--MMP7^ENST00000260227.5" ; transcript_name "MMP7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDCD1LG2--MMP7 HAVANA gene 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--MMP7^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--MMP7^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--MMP7^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDCD1LG2--MMP7 HAVANA mRNA 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--MMP7^ENST00000397747.5" ; Parent "PDCD1LG2--MMP7^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--MMP7^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--MMP7^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDCD1LG2--OR5AP2 HAVANA gene 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--OR5AP2^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--OR5AP2^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--OR5AP2^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDCD1LG2--OR5AP2 HAVANA mRNA 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--OR5AP2^ENST00000397747.5" ; Parent "PDCD1LG2--OR5AP2^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--OR5AP2^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--OR5AP2^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDCD1LG2--OR5AP2 HAVANA gene 12433 13438 . + . FI_gene_label "OR5AP2^ENSG00000172464.3" ; ID "PDCD1LG2--OR5AP2^OR5AP2^ENSG00000172464.3" ; ccdsid "CCDS31534.1" ; exon_id "ENSE00002252212.1" ; exon_number 1 ; gene_id "PDCD1LG2--OR5AP2^OR5AP2^ENSG00000172464.3" ; gene_name OR5AP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166865.3" ; havana_transcript "OTTHUMT00000391613.3" ; hgnc_id "HGNC:15258" ; level 2 ; orig_coord_info "chr11,56641492,56642439,-" ; protein_id "ENSP00000442701.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PDCD1LG2--OR5AP2^ENST00000544374.2" ; transcript_name "OR5AP2-201" ; transcript_support_level NA ; transcript_type protein_coding
PDCD1LG2--OR5AP2 HAVANA mRNA 12433 13438 . + . FI_gene_label "OR5AP2^ENSG00000172464.3" ; ID "PDCD1LG2--OR5AP2^ENST00000544374.2" ; Parent "PDCD1LG2--OR5AP2^OR5AP2^ENSG00000172464.3" ; ccdsid "CCDS31534.1" ; exon_id "ENSE00002252212.1" ; exon_number 1 ; gene_id "PDCD1LG2--OR5AP2^OR5AP2^ENSG00000172464.3" ; gene_name OR5AP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166865.3" ; havana_transcript "OTTHUMT00000391613.3" ; hgnc_id "HGNC:15258" ; level 2 ; orig_coord_info "chr11,56641492,56642439,-" ; protein_id "ENSP00000442701.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PDCD1LG2--OR5AP2^ENST00000544374.2" ; transcript_name "OR5AP2-201" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PDCD1LG2--OR5AR1 HAVANA gene 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--OR5AR1^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--OR5AR1^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--OR5AR1^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDCD1LG2--OR5AR1 HAVANA mRNA 1001 9432 . + . FI_gene_label "PDCD1LG2^ENSG00000197646.8" ; ID "PDCD1LG2--OR5AR1^ENST00000397747.5" ; Parent "PDCD1LG2--OR5AR1^PDCD1LG2^ENSG00000197646.8" ; ccdsid "CCDS6465.1" ; exon_id "ENSE00001801096.1" ; exon_number 2 ; gene_id "PDCD1LG2--OR5AR1^PDCD1LG2^ENSG00000197646.8" ; gene_name PDCD1LG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019504.3" ; havana_transcript "OTTHUMT00000051634.3" ; hgnc_id "HGNC:18731" ; level 2 ; orig_coord_info "chr9,5522547,5522601,+" ; protein_id "ENSP00000380855.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDCD1LG2--OR5AR1^ENST00000397747.5" ; transcript_name "PDCD1LG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDCD1LG2--OR5AR1 HAVANA gene 12433 13458 . + . FI_gene_label "OR5AR1^ENSG00000172459.4" ; ID "PDCD1LG2--OR5AR1^OR5AR1^ENSG00000172459.4" ; exon_id "ENSE00003757047.1" ; exon_number 1 ; gene_id "PDCD1LG2--OR5AR1^OR5AR1^ENSG00000172459.4" ; gene_name OR5AR1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154213.3" ; havana_transcript "OTTHUMT00000334434.1" ; hgnc_id "HGNC:15260" ; level 2 ; orig_coord_info "chr11,56663686,56664615,+" ; protein_id "ENSP00000485240.1" ; tag basic appris_principal_1 ; transcript_id "PDCD1LG2--OR5AR1^ENST00000624596.1" ; transcript_name "OR5AR1-201" ; transcript_support_level NA ; transcript_type protein_coding
PDCD1LG2--OR5AR1 HAVANA mRNA 12433 13458 . + . FI_gene_label "OR5AR1^ENSG00000172459.4" ; ID "PDCD1LG2--OR5AR1^ENST00000624596.1" ; Parent "PDCD1LG2--OR5AR1^OR5AR1^ENSG00000172459.4" ; exon_id "ENSE00003757047.1" ; exon_number 1 ; gene_id "PDCD1LG2--OR5AR1^OR5AR1^ENSG00000172459.4" ; gene_name OR5AR1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154213.3" ; havana_transcript "OTTHUMT00000334434.1" ; hgnc_id "HGNC:15260" ; level 2 ; orig_coord_info "chr11,56663686,56664615,+" ; protein_id "ENSP00000485240.1" ; tag basic appris_principal_1 ; transcript_id "PDCD1LG2--OR5AR1^ENST00000624596.1" ; transcript_name "OR5AR1-201" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PDGFD--DYNC2H1 HAVANA gene 1001 12263 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "PDGFD--DYNC2H1^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "PDGFD--DYNC2H1^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "PDGFD--DYNC2H1^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDGFD--DYNC2H1 HAVANA mRNA 1001 12263 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "PDGFD--DYNC2H1^ENST00000302251.9" ; Parent "PDGFD--DYNC2H1^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "PDGFD--DYNC2H1^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "PDGFD--DYNC2H1^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDGFD--DYNC2H1 HAVANA gene 15376 107263 . + . FI_gene_label "DYNC2H1^ENSG00000187240.16" ; ID "PDGFD--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; exon_id "ENSE00002164953.1" ; exon_number 1 ; gene_id "PDGFD--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; gene_name DYNC2H1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165941.6" ; havana_transcript "OTTHUMT00000387197.1" ; hgnc_id "HGNC:2962" ; level 2 ; orig_coord_info "chr11,103109575,103109769,+" ; protein_id "ENSP00000334021.7" ; tag basic ; transcript_id "PDGFD--DYNC2H1^ENST00000334267.11" ; transcript_name "DYNC2H1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDGFD--DYNC2H1 HAVANA mRNA 15376 107263 . + . FI_gene_label "DYNC2H1^ENSG00000187240.16" ; ID "PDGFD--DYNC2H1^ENST00000334267.11" ; Parent "PDGFD--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; exon_id "ENSE00002164953.1" ; exon_number 1 ; gene_id "PDGFD--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; gene_name DYNC2H1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165941.6" ; havana_transcript "OTTHUMT00000387197.1" ; hgnc_id "HGNC:2962" ; level 2 ; orig_coord_info "chr11,103109575,103109769,+" ; protein_id "ENSP00000334021.7" ; tag basic ; transcript_id "PDGFD--DYNC2H1^ENST00000334267.11" ; transcript_name "DYNC2H1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDGFD--MMP20 HAVANA gene 15264 29530 . + . FI_gene_label "MMP20^ENSG00000137674.4" ; ID "PDGFD--MMP20^MMP20^ENSG00000137674.4" ; ccdsid "CCDS8318.1" ; exon_id "ENSE00000930310.1" ; exon_number 1 ; gene_id "PDGFD--MMP20^MMP20^ENSG00000137674.4" ; gene_name MMP20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168081.3" ; havana_transcript "OTTHUMT00000398012.2" ; hgnc_id "HGNC:7167" ; level 2 ; orig_coord_info "chr11,102625194,102625319,-" ; protein_id "ENSP00000260228.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDGFD--MMP20^ENST00000260228.3" ; transcript_name "MMP20-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDGFD--MMP20 HAVANA mRNA 15264 29530 . + . FI_gene_label "MMP20^ENSG00000137674.4" ; ID "PDGFD--MMP20^ENST00000260228.3" ; Parent "PDGFD--MMP20^MMP20^ENSG00000137674.4" ; ccdsid "CCDS8318.1" ; exon_id "ENSE00000930310.1" ; exon_number 1 ; gene_id "PDGFD--MMP20^MMP20^ENSG00000137674.4" ; gene_name MMP20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168081.3" ; havana_transcript "OTTHUMT00000398012.2" ; hgnc_id "HGNC:7167" ; level 2 ; orig_coord_info "chr11,102625194,102625319,-" ; protein_id "ENSP00000260228.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDGFD--MMP20^ENST00000260228.3" ; transcript_name "MMP20-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDGFD--MMP20 HAVANA gene 1001 12263 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "PDGFD--MMP20^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "PDGFD--MMP20^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "PDGFD--MMP20^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDGFD--MMP20 HAVANA mRNA 1001 12263 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "PDGFD--MMP20^ENST00000302251.9" ; Parent "PDGFD--MMP20^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "PDGFD--MMP20^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "PDGFD--MMP20^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PTPRM--TTC39C HAVANA gene 51245 72203 . + . FI_gene_label "TTC39C^ENSG00000168234.13" ; ID "PTPRM--TTC39C^TTC39C^ENSG00000168234.13" ; ccdsid "CCDS32804.1" ; exon_id "ENSE00003492798.1" ; exon_number 2 ; gene_id "PTPRM--TTC39C^TTC39C^ENSG00000168234.13" ; gene_name TTC39C ; gene_type protein_coding ; havana_gene "OTTHUMG00000179403.6" ; havana_transcript "OTTHUMT00000446105.1" ; hgnc_id "HGNC:26595" ; level 2 ; orig_coord_info "chr18,24064156,24064188,+" ; protein_id "ENSP00000306598.6" ; tag basic CCDS ; transcript_id "PTPRM--TTC39C^ENST00000304621.10" ; transcript_name "TTC39C-201" ; transcript_support_level 1 ; transcript_type protein_coding
PTPRM--TTC39C HAVANA mRNA 51245 72203 . + . FI_gene_label "TTC39C^ENSG00000168234.13" ; ID "PTPRM--TTC39C^ENST00000304621.10" ; Parent "PTPRM--TTC39C^TTC39C^ENSG00000168234.13" ; ccdsid "CCDS32804.1" ; exon_id "ENSE00003492798.1" ; exon_number 2 ; gene_id "PTPRM--TTC39C^TTC39C^ENSG00000168234.13" ; gene_name TTC39C ; gene_type protein_coding ; havana_gene "OTTHUMG00000179403.6" ; havana_transcript "OTTHUMT00000446105.1" ; hgnc_id "HGNC:26595" ; level 2 ; orig_coord_info "chr18,24064156,24064188,+" ; protein_id "ENSP00000306598.6" ; tag basic CCDS ; transcript_id "PTPRM--TTC39C^ENST00000304621.10" ; transcript_name "TTC39C-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PTPRM--TTC39C HAVANA gene 1001 48244 . + . FI_gene_label "PTPRM^ENSG00000173482.17" ; ID "PTPRM--TTC39C^PTPRM^ENSG00000173482.17" ; ccdsid "CCDS11840.1" ; exon_id "ENSE00002698597.1" ; exon_number 1 ; gene_id "PTPRM--TTC39C^PTPRM^ENSG00000173482.17" ; gene_name PTPRM ; gene_type protein_coding ; havana_gene "OTTHUMG00000131575.5" ; havana_transcript "OTTHUMT00000254456.1" ; hgnc_id "HGNC:9675" ; level 2 ; orig_coord_info "chr18,7567819,7567891,+" ; protein_id "ENSP00000331418.8" ; tag basic appris_principal_4 CCDS ; transcript_id "PTPRM--TTC39C^ENST00000332175.12" ; transcript_name "PTPRM-201" ; transcript_support_level 1 ; transcript_type protein_coding
PTPRM--TTC39C HAVANA mRNA 1001 48244 . + . FI_gene_label "PTPRM^ENSG00000173482.17" ; ID "PTPRM--TTC39C^ENST00000332175.12" ; Parent "PTPRM--TTC39C^PTPRM^ENSG00000173482.17" ; ccdsid "CCDS11840.1" ; exon_id "ENSE00002698597.1" ; exon_number 1 ; gene_id "PTPRM--TTC39C^PTPRM^ENSG00000173482.17" ; gene_name PTPRM ; gene_type protein_coding ; havana_gene "OTTHUMG00000131575.5" ; havana_transcript "OTTHUMT00000254456.1" ; hgnc_id "HGNC:9675" ; level 2 ; orig_coord_info "chr18,7567819,7567891,+" ; protein_id "ENSP00000331418.8" ; tag basic appris_principal_4 CCDS ; transcript_id "PTPRM--TTC39C^ENST00000332175.12" ; transcript_name "PTPRM-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RCC2--AC012491.1 HAVANA gene 2117 13574 . + . FI_gene_label "RCC2^ENSG00000179051.14" ; ID "RCC2--AC012491.1^RCC2^ENSG00000179051.14" ; ccdsid "CCDS181.1" ; exon_id "ENSE00001467076.1" ; exon_number 1 ; gene_id "RCC2--AC012491.1^RCC2^ENSG00000179051.14" ; gene_name RCC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000002513.2" ; havana_transcript "OTTHUMT00000007145.1" ; hgnc_id "HGNC:30297" ; level 2 ; orig_coord_info "chr1,17438230,17438514,-" ; protein_id "ENSP00000364582.3" ; tag alternative_5_UTR basic appris_principal_1 CCDS ; transcript_id "RCC2--AC012491.1^ENST00000375433.3" ; transcript_name "RCC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
RCC2--AC012491.1 HAVANA mRNA 2117 13574 . + . FI_gene_label "RCC2^ENSG00000179051.14" ; ID "RCC2--AC012491.1^ENST00000375433.3" ; Parent "RCC2--AC012491.1^RCC2^ENSG00000179051.14" ; ccdsid "CCDS181.1" ; exon_id "ENSE00001467076.1" ; exon_number 1 ; gene_id "RCC2--AC012491.1^RCC2^ENSG00000179051.14" ; gene_name RCC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000002513.2" ; havana_transcript "OTTHUMT00000007145.1" ; hgnc_id "HGNC:30297" ; level 2 ; orig_coord_info "chr1,17438230,17438514,-" ; protein_id "ENSP00000364582.3" ; tag alternative_5_UTR basic appris_principal_1 CCDS ; transcript_id "RCC2--AC012491.1^ENST00000375433.3" ; transcript_name "RCC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RCC2--CPS1 HAVANA gene 20810 68949 . + . FI_gene_label "CPS1^ENSG00000021826.17" ; ID "RCC2--CPS1^CPS1^ENSG00000021826.17" ; ccdsid "CCDS2393.1" ; exon_id "ENSE00001851340.2" ; exon_number 1 ; gene_id "RCC2--CPS1^CPS1^ENSG00000021826.17" ; gene_name CPS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132994.16" ; havana_transcript "OTTHUMT00000256569.6" ; hgnc_id "HGNC:2323" ; level 2 ; orig_coord_info "chr2,210556734,210556859,+" ; protein_id "ENSP00000233072.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RCC2--CPS1^ENST00000233072.10" ; transcript_name "CPS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
RCC2--CPS1 HAVANA mRNA 20810 68949 . + . FI_gene_label "CPS1^ENSG00000021826.17" ; ID "RCC2--CPS1^ENST00000233072.10" ; Parent "RCC2--CPS1^CPS1^ENSG00000021826.17" ; ccdsid "CCDS2393.1" ; exon_id "ENSE00001851340.2" ; exon_number 1 ; gene_id "RCC2--CPS1^CPS1^ENSG00000021826.17" ; gene_name CPS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132994.16" ; havana_transcript "OTTHUMT00000256569.6" ; hgnc_id "HGNC:2323" ; level 2 ; orig_coord_info "chr2,210556734,210556859,+" ; protein_id "ENSP00000233072.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RCC2--CPS1^ENST00000233072.10" ; transcript_name "CPS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RCC2--CPS1 HAVANA gene 2117 13574 . + . FI_gene_label "RCC2^ENSG00000179051.14" ; ID "RCC2--CPS1^RCC2^ENSG00000179051.14" ; ccdsid "CCDS181.1" ; exon_id "ENSE00001467076.1" ; exon_number 1 ; gene_id "RCC2--CPS1^RCC2^ENSG00000179051.14" ; gene_name RCC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000002513.2" ; havana_transcript "OTTHUMT00000007145.1" ; hgnc_id "HGNC:30297" ; level 2 ; orig_coord_info "chr1,17438230,17438514,-" ; protein_id "ENSP00000364582.3" ; tag alternative_5_UTR basic appris_principal_1 CCDS ; transcript_id "RCC2--CPS1^ENST00000375433.3" ; transcript_name "RCC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
RCC2--CPS1 HAVANA mRNA 2117 13574 . + . FI_gene_label "RCC2^ENSG00000179051.14" ; ID "RCC2--CPS1^ENST00000375433.3" ; Parent "RCC2--CPS1^RCC2^ENSG00000179051.14" ; ccdsid "CCDS181.1" ; exon_id "ENSE00001467076.1" ; exon_number 1 ; gene_id "RCC2--CPS1^RCC2^ENSG00000179051.14" ; gene_name RCC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000002513.2" ; havana_transcript "OTTHUMT00000007145.1" ; hgnc_id "HGNC:30297" ; level 2 ; orig_coord_info "chr1,17438230,17438514,-" ; protein_id "ENSP00000364582.3" ; tag alternative_5_UTR basic appris_principal_1 CCDS ; transcript_id "RCC2--CPS1^ENST00000375433.3" ; transcript_name "RCC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RPSAP52--HMGA2 HAVANA gene 7036 17922 . + . FI_gene_label "HMGA2^ENSG00000149948.14" ; ID "RPSAP52--HMGA2^HMGA2^ENSG00000149948.14" ; ccdsid "CCDS31854.1" ; exon_id "ENSE00001242304.6" ; exon_number 1 ; gene_id "RPSAP52--HMGA2^HMGA2^ENSG00000149948.14" ; gene_name HMGA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168936.2" ; havana_transcript "OTTHUMT00000401660.1" ; hgnc_id "HGNC:5009" ; level 2 ; orig_coord_info "chr12,65825271,65825381,+" ; protein_id "ENSP00000346658.3" ; tag basic CCDS ; transcript_id "RPSAP52--HMGA2^ENST00000354636.7" ; transcript_name "HMGA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
RPSAP52--HMGA2 HAVANA mRNA 7036 17922 . + . FI_gene_label "HMGA2^ENSG00000149948.14" ; ID "RPSAP52--HMGA2^ENST00000354636.7" ; Parent "RPSAP52--HMGA2^HMGA2^ENSG00000149948.14" ; ccdsid "CCDS31854.1" ; exon_id "ENSE00001242304.6" ; exon_number 1 ; gene_id "RPSAP52--HMGA2^HMGA2^ENSG00000149948.14" ; gene_name HMGA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168936.2" ; havana_transcript "OTTHUMT00000401660.1" ; hgnc_id "HGNC:5009" ; level 2 ; orig_coord_info "chr12,65825271,65825381,+" ; protein_id "ENSP00000346658.3" ; tag basic CCDS ; transcript_id "RPSAP52--HMGA2^ENST00000354636.7" ; transcript_name "HMGA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SH3BP5--AC002074.1 HAVANA gene 6814 13788 . + . FI_gene_label "SH3BP5^ENSG00000131370.16" ; ID "SH3BP5--AC002074.1^SH3BP5^ENSG00000131370.16" ; exon_id "ENSE00003567202.1" ; exon_number 2 ; gene_id "SH3BP5--AC002074.1^SH3BP5^ENSG00000131370.16" ; gene_name SH3BP5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129859.18" ; havana_transcript "OTTHUMT00000340748.2" ; hgnc_id "HGNC:10827" ; level 2 ; orig_coord_info "chr3,15269713,15269736,-" ; protein_id "ENSP00000394115.1" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "SH3BP5--AC002074.1^ENST00000366391.6" ; transcript_name "SH3BP5-201" ; transcript_support_level 3 ; transcript_type protein_coding
SH3BP5--AC002074.1 HAVANA mRNA 6814 13788 . + . FI_gene_label "SH3BP5^ENSG00000131370.16" ; ID "SH3BP5--AC002074.1^ENST00000366391.6" ; Parent "SH3BP5--AC002074.1^SH3BP5^ENSG00000131370.16" ; exon_id "ENSE00003567202.1" ; exon_number 2 ; gene_id "SH3BP5--AC002074.1^SH3BP5^ENSG00000131370.16" ; gene_name SH3BP5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129859.18" ; havana_transcript "OTTHUMT00000340748.2" ; hgnc_id "HGNC:10827" ; level 2 ; orig_coord_info "chr3,15269713,15269736,-" ; protein_id "ENSP00000394115.1" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "SH3BP5--AC002074.1^ENST00000366391.6" ; transcript_name "SH3BP5-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
SRGAP2C--FCGR1B ENSEMBL gene 2862 12336 . + . FI_gene_label "SRGAP2C^ENSG00000171943.12" ; ID "SRGAP2C--FCGR1B^SRGAP2C^ENSG00000171943.12" ; exon_id "ENSE00001603200.1" ; exon_number 2 ; gene_id "SRGAP2C--FCGR1B^SRGAP2C^ENSG00000171943.12" ; gene_name SRGAP2C ; gene_type protein_coding ; havana_gene "OTTHUMG00000041445.4" ; hgnc_id "HGNC:30584" ; level 3 ; orig_coord_info "chr1,121365329,121365355,+" ; protein_id "ENSP00000483477.1" ; tag basic ; transcript_id "SRGAP2C--FCGR1B^ENST00000304465.7" ; transcript_name "SRGAP2C-201" ; transcript_support_level 5 ; transcript_type protein_coding
SRGAP2C--FCGR1B ENSEMBL mRNA 2862 12336 . + . FI_gene_label "SRGAP2C^ENSG00000171943.12" ; ID "SRGAP2C--FCGR1B^ENST00000304465.7" ; Parent "SRGAP2C--FCGR1B^SRGAP2C^ENSG00000171943.12" ; exon_id "ENSE00001603200.1" ; exon_number 2 ; gene_id "SRGAP2C--FCGR1B^SRGAP2C^ENSG00000171943.12" ; gene_name SRGAP2C ; gene_type protein_coding ; havana_gene "OTTHUMG00000041445.4" ; hgnc_id "HGNC:30584" ; level 3 ; orig_coord_info "chr1,121365329,121365355,+" ; protein_id "ENSP00000483477.1" ; tag basic ; transcript_id "SRGAP2C--FCGR1B^ENST00000304465.7" ; transcript_name "SRGAP2C-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
SRGAP2C--FCGR1B HAVANA gene 20313 25940 . + . FI_gene_label "FCGR1B^ENSG00000198019.13" ; ID "SRGAP2C--FCGR1B^FCGR1B^ENSG00000198019.13" ; exon_id "ENSE00003737289.1" ; exon_number 2 ; gene_id "SRGAP2C--FCGR1B^FCGR1B^ENSG00000198019.13" ; gene_name FCGR1B ; gene_type protein_coding ; havana_gene "OTTHUMG00000040903.9" ; havana_transcript "OTTHUMT00000098245.6" ; hgnc_id "HGNC:3614" ; level 2 ; orig_coord_info "chr1,121087830,121087841,+" ; protein_id "ENSP00000481411.1" ; tag mRNA_end_NF cds_end_NF ; transcript_id "SRGAP2C--FCGR1B^ENST00000369178.5" ; transcript_name "FCGR1B-201" ; transcript_support_level 5 ; transcript_type protein_coding
SRGAP2C--FCGR1B HAVANA mRNA 20313 25940 . + . FI_gene_label "FCGR1B^ENSG00000198019.13" ; ID "SRGAP2C--FCGR1B^ENST00000369178.5" ; Parent "SRGAP2C--FCGR1B^FCGR1B^ENSG00000198019.13" ; exon_id "ENSE00003737289.1" ; exon_number 2 ; gene_id "SRGAP2C--FCGR1B^FCGR1B^ENSG00000198019.13" ; gene_name FCGR1B ; gene_type protein_coding ; havana_gene "OTTHUMG00000040903.9" ; havana_transcript "OTTHUMT00000098245.6" ; hgnc_id "HGNC:3614" ; level 2 ; orig_coord_info "chr1,121087830,121087841,+" ; protein_id "ENSP00000481411.1" ; tag mRNA_end_NF cds_end_NF ; transcript_id "SRGAP2C--FCGR1B^ENST00000369178.5" ; transcript_name "FCGR1B-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
TBC1D13--AL442224.1 HAVANA gene 1097 13950 . + . FI_gene_label "TBC1D13^ENSG00000107021.16" ; ID "TBC1D13--AL442224.1^TBC1D13^ENSG00000107021.16" ; ccdsid "CCDS69677.1" ; exon_id "ENSE00001899761.1" ; exon_number 1 ; gene_id "TBC1D13--AL442224.1^TBC1D13^ENSG00000107021.16" ; gene_name TBC1D13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020760.2" ; havana_transcript "OTTHUMT00000054495.1" ; hgnc_id "HGNC:25571" ; level 2 ; orig_coord_info "chr9,128787354,128787376,+" ; protein_id "ENSP00000223865.8" ; tag basic CCDS ; transcript_id "TBC1D13--AL442224.1^ENST00000223865.8" ; transcript_name "TBC1D13-201" ; transcript_support_level 2 ; transcript_type protein_coding
TBC1D13--AL442224.1 HAVANA mRNA 1097 13950 . + . FI_gene_label "TBC1D13^ENSG00000107021.16" ; ID "TBC1D13--AL442224.1^ENST00000223865.8" ; Parent "TBC1D13--AL442224.1^TBC1D13^ENSG00000107021.16" ; ccdsid "CCDS69677.1" ; exon_id "ENSE00001899761.1" ; exon_number 1 ; gene_id "TBC1D13--AL442224.1^TBC1D13^ENSG00000107021.16" ; gene_name TBC1D13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020760.2" ; havana_transcript "OTTHUMT00000054495.1" ; hgnc_id "HGNC:25571" ; level 2 ; orig_coord_info "chr9,128787354,128787376,+" ; protein_id "ENSP00000223865.8" ; tag basic CCDS ; transcript_id "TBC1D13--AL442224.1^ENST00000223865.8" ; transcript_name "TBC1D13-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TLK2--AC240565.1 HAVANA mRNA 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^ENST00000326270.13" ; Parent "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEFF2--TEX41 HAVANA gene 1001 16591 . + . FI_gene_label "TMEFF2^ENSG00000144339.12" ; ID "TMEFF2--TEX41^TMEFF2^ENSG00000144339.12" ; ccdsid "CCDS2314.1" ; exon_id "ENSE00001511404.3" ; exon_number 1 ; gene_id "TMEFF2--TEX41^TMEFF2^ENSG00000144339.12" ; gene_name TMEFF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132723.5" ; havana_transcript "OTTHUMT00000256065.3" ; hgnc_id "HGNC:11867" ; level 2 ; orig_coord_info "chr2,192194353,192194524,-" ; protein_id "ENSP00000272771.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMEFF2--TEX41^ENST00000272771.10" ; transcript_name "TMEFF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEFF2--TEX41 HAVANA mRNA 1001 16591 . + . FI_gene_label "TMEFF2^ENSG00000144339.12" ; ID "TMEFF2--TEX41^ENST00000272771.10" ; Parent "TMEFF2--TEX41^TMEFF2^ENSG00000144339.12" ; ccdsid "CCDS2314.1" ; exon_id "ENSE00001511404.3" ; exon_number 1 ; gene_id "TMEFF2--TEX41^TMEFF2^ENSG00000144339.12" ; gene_name TMEFF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132723.5" ; havana_transcript "OTTHUMT00000256065.3" ; hgnc_id "HGNC:11867" ; level 2 ; orig_coord_info "chr2,192194353,192194524,-" ; protein_id "ENSP00000272771.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMEFF2--TEX41^ENST00000272771.10" ; transcript_name "TMEFF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEM123--DYNC2H1 HAVANA gene 14407 106294 . + . FI_gene_label "DYNC2H1^ENSG00000187240.16" ; ID "TMEM123--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; exon_id "ENSE00002164953.1" ; exon_number 1 ; gene_id "TMEM123--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; gene_name DYNC2H1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165941.6" ; havana_transcript "OTTHUMT00000387197.1" ; hgnc_id "HGNC:2962" ; level 2 ; orig_coord_info "chr11,103109575,103109769,+" ; protein_id "ENSP00000334021.7" ; tag basic ; transcript_id "TMEM123--DYNC2H1^ENST00000334267.11" ; transcript_name "DYNC2H1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEM123--DYNC2H1 HAVANA mRNA 14407 106294 . + . FI_gene_label "DYNC2H1^ENSG00000187240.16" ; ID "TMEM123--DYNC2H1^ENST00000334267.11" ; Parent "TMEM123--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; exon_id "ENSE00002164953.1" ; exon_number 1 ; gene_id "TMEM123--DYNC2H1^DYNC2H1^ENSG00000187240.16" ; gene_name DYNC2H1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165941.6" ; havana_transcript "OTTHUMT00000387197.1" ; hgnc_id "HGNC:2962" ; level 2 ; orig_coord_info "chr11,103109575,103109769,+" ; protein_id "ENSP00000334021.7" ; tag basic ; transcript_id "TMEM123--DYNC2H1^ENST00000334267.11" ; transcript_name "DYNC2H1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEM123--DYNC2H1 HAVANA gene 2212 11294 . + . FI_gene_label "TMEM123^ENSG00000152558.15" ; ID "TMEM123--DYNC2H1^TMEM123^ENSG00000152558.15" ; exon_id "ENSE00002186086.1" ; exon_number 1 ; gene_id "TMEM123--DYNC2H1^TMEM123^ENSG00000152558.15" ; gene_name TMEM123 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167326.4" ; havana_transcript "OTTHUMT00000394177.1" ; hgnc_id "HGNC:30138" ; level 2 ; orig_coord_info "chr11,102452524,102452623,-" ; protein_id "ENSP00000355285.3" ; tag basic appris_alternative_2 ; transcript_id "TMEM123--DYNC2H1^ENST00000361236.7" ; transcript_name "TMEM123-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEM123--DYNC2H1 HAVANA mRNA 2212 11294 . + . FI_gene_label "TMEM123^ENSG00000152558.15" ; ID "TMEM123--DYNC2H1^ENST00000361236.7" ; Parent "TMEM123--DYNC2H1^TMEM123^ENSG00000152558.15" ; exon_id "ENSE00002186086.1" ; exon_number 1 ; gene_id "TMEM123--DYNC2H1^TMEM123^ENSG00000152558.15" ; gene_name TMEM123 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167326.4" ; havana_transcript "OTTHUMT00000394177.1" ; hgnc_id "HGNC:30138" ; level 2 ; orig_coord_info "chr11,102452524,102452623,-" ; protein_id "ENSP00000355285.3" ; tag basic appris_alternative_2 ; transcript_id "TMEM123--DYNC2H1^ENST00000361236.7" ; transcript_name "TMEM123-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEM123--PDGFD HAVANA gene 14295 25557 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "TMEM123--PDGFD^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "TMEM123--PDGFD^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "TMEM123--PDGFD^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEM123--PDGFD HAVANA mRNA 14295 25557 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "TMEM123--PDGFD^ENST00000302251.9" ; Parent "TMEM123--PDGFD^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "TMEM123--PDGFD^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "TMEM123--PDGFD^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEM123--PDGFD HAVANA gene 2212 11294 . + . FI_gene_label "TMEM123^ENSG00000152558.15" ; ID "TMEM123--PDGFD^TMEM123^ENSG00000152558.15" ; exon_id "ENSE00002186086.1" ; exon_number 1 ; gene_id "TMEM123--PDGFD^TMEM123^ENSG00000152558.15" ; gene_name TMEM123 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167326.4" ; havana_transcript "OTTHUMT00000394177.1" ; hgnc_id "HGNC:30138" ; level 2 ; orig_coord_info "chr11,102452524,102452623,-" ; protein_id "ENSP00000355285.3" ; tag basic appris_alternative_2 ; transcript_id "TMEM123--PDGFD^ENST00000361236.7" ; transcript_name "TMEM123-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEM123--PDGFD HAVANA mRNA 2212 11294 . + . FI_gene_label "TMEM123^ENSG00000152558.15" ; ID "TMEM123--PDGFD^ENST00000361236.7" ; Parent "TMEM123--PDGFD^TMEM123^ENSG00000152558.15" ; exon_id "ENSE00002186086.1" ; exon_number 1 ; gene_id "TMEM123--PDGFD^TMEM123^ENSG00000152558.15" ; gene_name TMEM123 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167326.4" ; havana_transcript "OTTHUMT00000394177.1" ; hgnc_id "HGNC:30138" ; level 2 ; orig_coord_info "chr11,102452524,102452623,-" ; protein_id "ENSP00000355285.3" ; tag basic appris_alternative_2 ; transcript_id "TMEM123--PDGFD^ENST00000361236.7" ; transcript_name "TMEM123-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEM123--PPP2R2C HAVANA gene 26002 38739 . + . FI_gene_label "PPP2R2C^ENSG00000074211.14" ; ID "TMEM123--PPP2R2C^PPP2R2C^ENSG00000074211.14" ; ccdsid "CCDS3388.1" ; exon_id "ENSE00001339649.2" ; exon_number 1 ; gene_id "TMEM123--PPP2R2C^PPP2R2C^ENSG00000074211.14" ; gene_name PPP2R2C ; gene_type protein_coding ; havana_gene "OTTHUMG00000090445.7" ; havana_transcript "OTTHUMT00000206890.2" ; hgnc_id "HGNC:9306" ; level 2 ; orig_coord_info "chr4,6381777,6381846,-" ; protein_id "ENSP00000335083.5" ; tag basic CCDS ; transcript_id "TMEM123--PPP2R2C^ENST00000335585.9" ; transcript_name "PPP2R2C-202" ; transcript_support_level 2 ; transcript_type protein_coding
TMEM123--PPP2R2C HAVANA mRNA 26002 38739 . + . FI_gene_label "PPP2R2C^ENSG00000074211.14" ; ID "TMEM123--PPP2R2C^ENST00000335585.9" ; Parent "TMEM123--PPP2R2C^PPP2R2C^ENSG00000074211.14" ; ccdsid "CCDS3388.1" ; exon_id "ENSE00001339649.2" ; exon_number 1 ; gene_id "TMEM123--PPP2R2C^PPP2R2C^ENSG00000074211.14" ; gene_name PPP2R2C ; gene_type protein_coding ; havana_gene "OTTHUMG00000090445.7" ; havana_transcript "OTTHUMT00000206890.2" ; hgnc_id "HGNC:9306" ; level 2 ; orig_coord_info "chr4,6381777,6381846,-" ; protein_id "ENSP00000335083.5" ; tag basic CCDS ; transcript_id "TMEM123--PPP2R2C^ENST00000335585.9" ; transcript_name "PPP2R2C-202" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
TMEM123--PPP2R2C HAVANA gene 2212 11294 . + . FI_gene_label "TMEM123^ENSG00000152558.15" ; ID "TMEM123--PPP2R2C^TMEM123^ENSG00000152558.15" ; exon_id "ENSE00002186086.1" ; exon_number 1 ; gene_id "TMEM123--PPP2R2C^TMEM123^ENSG00000152558.15" ; gene_name TMEM123 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167326.4" ; havana_transcript "OTTHUMT00000394177.1" ; hgnc_id "HGNC:30138" ; level 2 ; orig_coord_info "chr11,102452524,102452623,-" ; protein_id "ENSP00000355285.3" ; tag basic appris_alternative_2 ; transcript_id "TMEM123--PPP2R2C^ENST00000361236.7" ; transcript_name "TMEM123-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEM123--PPP2R2C HAVANA mRNA 2212 11294 . + . FI_gene_label "TMEM123^ENSG00000152558.15" ; ID "TMEM123--PPP2R2C^ENST00000361236.7" ; Parent "TMEM123--PPP2R2C^TMEM123^ENSG00000152558.15" ; exon_id "ENSE00002186086.1" ; exon_number 1 ; gene_id "TMEM123--PPP2R2C^TMEM123^ENSG00000152558.15" ; gene_name TMEM123 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167326.4" ; havana_transcript "OTTHUMT00000394177.1" ; hgnc_id "HGNC:30138" ; level 2 ; orig_coord_info "chr11,102452524,102452623,-" ; protein_id "ENSP00000355285.3" ; tag basic appris_alternative_2 ; transcript_id "TMEM123--PPP2R2C^ENST00000361236.7" ; transcript_name "TMEM123-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEM123--YAP1 HAVANA gene 14295 29990 . + . FI_gene_label "YAP1^ENSG00000137693.14" ; ID "TMEM123--YAP1^YAP1^ENSG00000137693.14" ; ccdsid "CCDS44716.1" ; exon_id "ENSE00003850849.1" ; exon_number 1 ; gene_id "TMEM123--YAP1^YAP1^ENSG00000137693.14" ; gene_name YAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167322.4" ; havana_transcript "OTTHUMT00000394151.2" ; hgnc_id "HGNC:16262" ; level 2 ; orig_coord_info "chr11,102110849,102111169,+" ; protein_id "ENSP00000282441.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "TMEM123--YAP1^ENST00000282441.10" ; transcript_name "YAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEM123--YAP1 HAVANA mRNA 14295 29990 . + . FI_gene_label "YAP1^ENSG00000137693.14" ; ID "TMEM123--YAP1^ENST00000282441.10" ; Parent "TMEM123--YAP1^YAP1^ENSG00000137693.14" ; ccdsid "CCDS44716.1" ; exon_id "ENSE00003850849.1" ; exon_number 1 ; gene_id "TMEM123--YAP1^YAP1^ENSG00000137693.14" ; gene_name YAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167322.4" ; havana_transcript "OTTHUMT00000394151.2" ; hgnc_id "HGNC:16262" ; level 2 ; orig_coord_info "chr11,102110849,102111169,+" ; protein_id "ENSP00000282441.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "TMEM123--YAP1^ENST00000282441.10" ; transcript_name "YAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEM123--YAP1 HAVANA gene 2212 11294 . + . FI_gene_label "TMEM123^ENSG00000152558.15" ; ID "TMEM123--YAP1^TMEM123^ENSG00000152558.15" ; exon_id "ENSE00002186086.1" ; exon_number 1 ; gene_id "TMEM123--YAP1^TMEM123^ENSG00000152558.15" ; gene_name TMEM123 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167326.4" ; havana_transcript "OTTHUMT00000394177.1" ; hgnc_id "HGNC:30138" ; level 2 ; orig_coord_info "chr11,102452524,102452623,-" ; protein_id "ENSP00000355285.3" ; tag basic appris_alternative_2 ; transcript_id "TMEM123--YAP1^ENST00000361236.7" ; transcript_name "TMEM123-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEM123--YAP1 HAVANA mRNA 2212 11294 . + . FI_gene_label "TMEM123^ENSG00000152558.15" ; ID "TMEM123--YAP1^ENST00000361236.7" ; Parent "TMEM123--YAP1^TMEM123^ENSG00000152558.15" ; exon_id "ENSE00002186086.1" ; exon_number 1 ; gene_id "TMEM123--YAP1^TMEM123^ENSG00000152558.15" ; gene_name TMEM123 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167326.4" ; havana_transcript "OTTHUMT00000394177.1" ; hgnc_id "HGNC:30138" ; level 2 ; orig_coord_info "chr11,102452524,102452623,-" ; protein_id "ENSP00000355285.3" ; tag basic appris_alternative_2 ; transcript_id "TMEM123--YAP1^ENST00000361236.7" ; transcript_name "TMEM123-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEM65--ANXA13 HAVANA gene 19039 33771 . + . FI_gene_label "ANXA13^ENSG00000104537.17" ; ID "TMEM65--ANXA13^ANXA13^ENSG00000104537.17" ; ccdsid "CCDS34939.1" ; exon_id "ENSE00002111080.1" ; exon_number 1 ; gene_id "TMEM65--ANXA13^ANXA13^ENSG00000104537.17" ; gene_name ANXA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164987.3" ; havana_transcript "OTTHUMT00000381307.1" ; hgnc_id "HGNC:536" ; level 2 ; orig_coord_info "chr8,123737320,123737334,-" ; protein_id "ENSP00000262219.6" ; tag basic appris_principal_3 CCDS ; transcript_id "TMEM65--ANXA13^ENST00000262219.10" ; transcript_name "ANXA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEM65--ANXA13 HAVANA mRNA 19039 33771 . + . FI_gene_label "ANXA13^ENSG00000104537.17" ; ID "TMEM65--ANXA13^ENST00000262219.10" ; Parent "TMEM65--ANXA13^ANXA13^ENSG00000104537.17" ; ccdsid "CCDS34939.1" ; exon_id "ENSE00002111080.1" ; exon_number 1 ; gene_id "TMEM65--ANXA13^ANXA13^ENSG00000104537.17" ; gene_name ANXA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164987.3" ; havana_transcript "OTTHUMT00000381307.1" ; hgnc_id "HGNC:536" ; level 2 ; orig_coord_info "chr8,123737320,123737334,-" ; protein_id "ENSP00000262219.6" ; tag basic appris_principal_3 CCDS ; transcript_id "TMEM65--ANXA13^ENST00000262219.10" ; transcript_name "ANXA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMEM65--ANXA13 HAVANA gene 1001 16038 . + . FI_gene_label "TMEM65^ENSG00000164983.8" ; ID "TMEM65--ANXA13^TMEM65^ENSG00000164983.8" ; ccdsid "CCDS6348.1" ; exon_id "ENSE00001314522.7" ; exon_number 1 ; gene_id "TMEM65--ANXA13^TMEM65^ENSG00000164983.8" ; gene_name TMEM65 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165021.2" ; havana_transcript "OTTHUMT00000381464.2" ; hgnc_id "HGNC:25203" ; level 2 ; orig_coord_info "chr8,124371854,124372157,-" ; protein_id "ENSP00000297632.6" ; tag 3_standard_supported_extension basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMEM65--ANXA13^ENST00000297632.8" ; transcript_name "TMEM65-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMEM65--ANXA13 HAVANA mRNA 1001 16038 . + . FI_gene_label "TMEM65^ENSG00000164983.8" ; ID "TMEM65--ANXA13^ENST00000297632.8" ; Parent "TMEM65--ANXA13^TMEM65^ENSG00000164983.8" ; ccdsid "CCDS6348.1" ; exon_id "ENSE00001314522.7" ; exon_number 1 ; gene_id "TMEM65--ANXA13^TMEM65^ENSG00000164983.8" ; gene_name TMEM65 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165021.2" ; havana_transcript "OTTHUMT00000381464.2" ; hgnc_id "HGNC:25203" ; level 2 ; orig_coord_info "chr8,124371854,124372157,-" ; protein_id "ENSP00000297632.6" ; tag 3_standard_supported_extension basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMEM65--ANXA13^ENST00000297632.8" ; transcript_name "TMEM65-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TPTE--BAGE2 HAVANA gene 1023 23850 . + . FI_gene_label "TPTE^ENSG00000274391.5" ; ID "TPTE--BAGE2^TPTE^ENSG00000274391.5" ; ccdsid "CCDS74773.1" ; exon_id "ENSE00003735534.1" ; exon_number 4 ; gene_id "TPTE--BAGE2^TPTE^ENSG00000274391.5" ; gene_name TPTE ; gene_type protein_coding ; havana_gene "OTTHUMG00000074127.15" ; havana_transcript "OTTHUMT00000157414.2" ; hgnc_id "HGNC:12023" ; level 2 ; orig_coord_info "chr21,10538724,10538734,+" ; protein_id "ENSP00000482488.1" ; tag basic appris_alternative_2 CCDS ; transcript_id "TPTE--BAGE2^ENST00000427445.6" ; transcript_name "TPTE-201" ; transcript_support_level 1 ; transcript_type protein_coding
TPTE--BAGE2 HAVANA mRNA 1023 23850 . + . FI_gene_label "TPTE^ENSG00000274391.5" ; ID "TPTE--BAGE2^ENST00000427445.6" ; Parent "TPTE--BAGE2^TPTE^ENSG00000274391.5" ; ccdsid "CCDS74773.1" ; exon_id "ENSE00003735534.1" ; exon_number 4 ; gene_id "TPTE--BAGE2^TPTE^ENSG00000274391.5" ; gene_name TPTE ; gene_type protein_coding ; havana_gene "OTTHUMG00000074127.15" ; havana_transcript "OTTHUMT00000157414.2" ; hgnc_id "HGNC:12023" ; level 2 ; orig_coord_info "chr21,10538724,10538734,+" ; protein_id "ENSP00000482488.1" ; tag basic appris_alternative_2 CCDS ; transcript_id "TPTE--BAGE2^ENST00000427445.6" ; transcript_name "TPTE-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TVP23C--CDRT4 HAVANA gene 1052 15760 . + . FI_gene_label "TVP23C^ENSG00000175106.17" ; ID "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; ccdsid "CCDS11170.1" ; exon_id "ENSE00001105678.2" ; exon_number 1 ; gene_id "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; gene_name TVP23C ; gene_type protein_coding ; havana_gene "OTTHUMG00000171461.10" ; havana_transcript "OTTHUMT00000130705.3" ; hgnc_id "HGNC:30453" ; level 2 ; orig_coord_info "chr17,15563437,15563448,-" ; protein_id "ENSP00000225576.3" ; tag basic CCDS ; transcript_id "TVP23C--CDRT4^ENST00000225576.7" ; transcript_name "TVP23C-201" ; transcript_support_level 1 ; transcript_type protein_coding
TVP23C--CDRT4 HAVANA mRNA 1052 15760 . + . FI_gene_label "TVP23C^ENSG00000175106.17" ; ID "TVP23C--CDRT4^ENST00000225576.7" ; Parent "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; ccdsid "CCDS11170.1" ; exon_id "ENSE00001105678.2" ; exon_number 1 ; gene_id "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; gene_name TVP23C ; gene_type protein_coding ; havana_gene "OTTHUMG00000171461.10" ; havana_transcript "OTTHUMT00000130705.3" ; hgnc_id "HGNC:30453" ; level 2 ; orig_coord_info "chr17,15563437,15563448,-" ; protein_id "ENSP00000225576.3" ; tag basic CCDS ; transcript_id "TVP23C--CDRT4^ENST00000225576.7" ; transcript_name "TVP23C-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TVP23C--CDRT4 HAVANA gene 19889 25887 . + . FI_gene_label "CDRT4^ENSG00000239704.11" ; ID "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; ccdsid "CCDS73995.1" ; exon_id "ENSE00003735347.1" ; exon_number 3 ; gene_id "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; gene_name CDRT4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059070.14" ; havana_transcript "OTTHUMT00000130383.9" ; hgnc_id "HGNC:14383" ; level 2 ; orig_coord_info "chr17,15440208,15440238,-" ; protein_id "ENSP00000482523.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TVP23C--CDRT4^ENST00000619038.5" ; transcript_name "CDRT4-204" ; transcript_support_level 1 ; transcript_type protein_coding
TVP23C--CDRT4 HAVANA mRNA 19889 25887 . + . FI_gene_label "CDRT4^ENSG00000239704.11" ; ID "TVP23C--CDRT4^ENST00000619038.5" ; Parent "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; ccdsid "CCDS73995.1" ; exon_id "ENSE00003735347.1" ; exon_number 3 ; gene_id "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; gene_name CDRT4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059070.14" ; havana_transcript "OTTHUMT00000130383.9" ; hgnc_id "HGNC:14383" ; level 2 ; orig_coord_info "chr17,15440208,15440238,-" ; protein_id "ENSP00000482523.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TVP23C--CDRT4^ENST00000619038.5" ; transcript_name "CDRT4-204" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
YAP1--MUC12 HAVANA gene 1001 16696 . + . FI_gene_label "YAP1^ENSG00000137693.14" ; ID "YAP1--MUC12^YAP1^ENSG00000137693.14" ; ccdsid "CCDS44716.1" ; exon_id "ENSE00003850849.1" ; exon_number 1 ; gene_id "YAP1--MUC12^YAP1^ENSG00000137693.14" ; gene_name YAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167322.4" ; havana_transcript "OTTHUMT00000394151.2" ; hgnc_id "HGNC:16262" ; level 2 ; orig_coord_info "chr11,102110849,102111169,+" ; protein_id "ENSP00000282441.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "YAP1--MUC12^ENST00000282441.10" ; transcript_name "YAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
YAP1--MUC12 HAVANA mRNA 1001 16696 . + . FI_gene_label "YAP1^ENSG00000137693.14" ; ID "YAP1--MUC12^ENST00000282441.10" ; Parent "YAP1--MUC12^YAP1^ENSG00000137693.14" ; ccdsid "CCDS44716.1" ; exon_id "ENSE00003850849.1" ; exon_number 1 ; gene_id "YAP1--MUC12^YAP1^ENSG00000137693.14" ; gene_name YAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167322.4" ; havana_transcript "OTTHUMT00000394151.2" ; hgnc_id "HGNC:16262" ; level 2 ; orig_coord_info "chr11,102110849,102111169,+" ; protein_id "ENSP00000282441.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "YAP1--MUC12^ENST00000282441.10" ; transcript_name "YAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
YAP1--MUC12 HAVANA gene 43125 48179 . + . FI_gene_label "MUC12^ENSG00000205277.9" ; ID "YAP1--MUC12^MUC12^ENSG00000205277.9" ; exon_id "ENSE00001718648.1" ; exon_number 1 ; gene_id "YAP1--MUC12^MUC12^ENSG00000205277.9" ; gene_name MUC12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157042.1" ; havana_transcript "OTTHUMT00000347237.1" ; hgnc_id "HGNC:7510" ; level 2 ; orig_coord_info "chr7,101013054,101013142,+" ; protein_id "ENSP00000306919.3" ; tag mRNA_start_NF cds_start_NF ; transcript_id "YAP1--MUC12^ENST00000305119.3" ; transcript_name "MUC12-201" ; transcript_support_level 3 ; transcript_type nonsense_mediated_decay
YAP1--MUC12 HAVANA mRNA 43125 48179 . + . FI_gene_label "MUC12^ENSG00000205277.9" ; ID "YAP1--MUC12^ENST00000305119.3" ; Parent "YAP1--MUC12^MUC12^ENSG00000205277.9" ; exon_id "ENSE00001718648.1" ; exon_number 1 ; gene_id "YAP1--MUC12^MUC12^ENSG00000205277.9" ; gene_name MUC12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157042.1" ; havana_transcript "OTTHUMT00000347237.1" ; hgnc_id "HGNC:7510" ; level 2 ; orig_coord_info "chr7,101013054,101013142,+" ; protein_id "ENSP00000306919.3" ; tag mRNA_start_NF cds_start_NF ; transcript_id "YAP1--MUC12^ENST00000305119.3" ; transcript_name "MUC12-201" ; transcript_support_level 3 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
YAP1--PDGFD HAVANA gene 1001 16696 . + . FI_gene_label "YAP1^ENSG00000137693.14" ; ID "YAP1--PDGFD^YAP1^ENSG00000137693.14" ; ccdsid "CCDS44716.1" ; exon_id "ENSE00003850849.1" ; exon_number 1 ; gene_id "YAP1--PDGFD^YAP1^ENSG00000137693.14" ; gene_name YAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167322.4" ; havana_transcript "OTTHUMT00000394151.2" ; hgnc_id "HGNC:16262" ; level 2 ; orig_coord_info "chr11,102110849,102111169,+" ; protein_id "ENSP00000282441.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "YAP1--PDGFD^ENST00000282441.10" ; transcript_name "YAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
YAP1--PDGFD HAVANA mRNA 1001 16696 . + . FI_gene_label "YAP1^ENSG00000137693.14" ; ID "YAP1--PDGFD^ENST00000282441.10" ; Parent "YAP1--PDGFD^YAP1^ENSG00000137693.14" ; ccdsid "CCDS44716.1" ; exon_id "ENSE00003850849.1" ; exon_number 1 ; gene_id "YAP1--PDGFD^YAP1^ENSG00000137693.14" ; gene_name YAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167322.4" ; havana_transcript "OTTHUMT00000394151.2" ; hgnc_id "HGNC:16262" ; level 2 ; orig_coord_info "chr11,102110849,102111169,+" ; protein_id "ENSP00000282441.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "YAP1--PDGFD^ENST00000282441.10" ; transcript_name "YAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
YAP1--PDGFD HAVANA gene 19697 30959 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "YAP1--PDGFD^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "YAP1--PDGFD^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "YAP1--PDGFD^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
YAP1--PDGFD HAVANA mRNA 19697 30959 . + . FI_gene_label "PDGFD^ENSG00000170962.13" ; ID "YAP1--PDGFD^ENST00000302251.9" ; Parent "YAP1--PDGFD^PDGFD^ENSG00000170962.13" ; ccdsid "CCDS8326.1" ; exon_id "ENSE00001369905.4" ; exon_number 1 ; gene_id "YAP1--PDGFD^PDGFD^ENSG00000170962.13" ; gene_name PDGFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000165953.4" ; havana_transcript "OTTHUMT00000387322.1" ; hgnc_id "HGNC:30620" ; level 2 ; orig_coord_info "chr11,104163804,104163927,-" ; protein_id "ENSP00000302193.5" ; tag basic CCDS ; transcript_id "YAP1--PDGFD^ENST00000302251.9" ; transcript_name "PDGFD-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC015911.9--SLFN12L HAVANA gene 1001 1691 . + . FI_gene_label "AC015911.9^ENSG00000286030.2" ; ID "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; exon_id "ENSE00003850003.2" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; gene_name "AC015911.9" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000193507.2" ; havana_transcript "OTTHUMT00000502481.2" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr17,35522279,35522969,-" ; tag basic ; transcript_id "AC015911.9--SLFN12L^ENST00000650652.2" ; transcript_name "AC015911.9-201" ; transcript_type transcribed_unprocessed_pseudogene
AC015911.9--SLFN12L HAVANA RNA 1001 1691 . + . FI_gene_label "AC015911.9^ENSG00000286030.2" ; ID "AC015911.9--SLFN12L^ENST00000650652.2" ; Parent "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; exon_id "ENSE00003850003.2" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; gene_name "AC015911.9" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000193507.2" ; havana_transcript "OTTHUMT00000502481.2" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr17,35522279,35522969,-" ; tag basic ; transcript_id "AC015911.9--SLFN12L^ENST00000650652.2" ; transcript_name "AC015911.9-201" ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
AC015911.9--SLFN12L ENSEMBL gene 5824 9825 . + . FI_gene_label "SLFN12L^ENSG00000286065.2" ; ID "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; exon_id "ENSE00003899764.1" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; gene_name SLFN12L ; gene_type lncRNA ; havana_gene "OTTHUMG00000167707.2" ; hgnc_id "HGNC:33920" ; level 3 ; orig_coord_info "chr17,35480502,35480513,-" ; transcript_id "AC015911.9--SLFN12L^ENST00000675965.1" ; transcript_name "SLFN12L-206" ; transcript_type lncRNA
AC015911.9--SLFN12L ENSEMBL RNA 5824 9825 . + . FI_gene_label "SLFN12L^ENSG00000286065.2" ; ID "AC015911.9--SLFN12L^ENST00000675965.1" ; Parent "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; exon_id "ENSE00003899764.1" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; gene_name SLFN12L ; gene_type lncRNA ; havana_gene "OTTHUMG00000167707.2" ; hgnc_id "HGNC:33920" ; level 3 ; orig_coord_info "chr17,35480502,35480513,-" ; transcript_id "AC015911.9--SLFN12L^ENST00000675965.1" ; transcript_name "SLFN12L-206" ; transcript_type lncRNA
L1 and L2 created:
AC092807.3--DDAH1 HAVANA gene 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA
AC092807.3--DDAH1 HAVANA RNA 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^ENST00000467530.5" ; Parent "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
AC093815.1--UGT8 HAVANA gene 1001 1288 . + . FI_gene_label "AC093815.1^ENSG00000248716.2" ; ID "AC093815.1--UGT8^AC093815.1^ENSG00000248716.2" ; exon_id "ENSE00002072353.1" ; exon_number 1 ; gene_id "AC093815.1--UGT8^AC093815.1^ENSG00000248716.2" ; gene_name "AC093815.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000161082.2" ; havana_transcript "OTTHUMT00000363684.2" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr4,114103938,114103980,+" ; tag basic ; transcript_id "AC093815.1--UGT8^ENST00000508637.2" ; transcript_name "AC093815.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
AC093815.1--UGT8 HAVANA RNA 1001 1288 . + . FI_gene_label "AC093815.1^ENSG00000248716.2" ; ID "AC093815.1--UGT8^ENST00000508637.2" ; Parent "AC093815.1--UGT8^AC093815.1^ENSG00000248716.2" ; exon_id "ENSE00002072353.1" ; exon_number 1 ; gene_id "AC093815.1--UGT8^AC093815.1^ENSG00000248716.2" ; gene_name "AC093815.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000161082.2" ; havana_transcript "OTTHUMT00000363684.2" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr4,114103938,114103980,+" ; tag basic ; transcript_id "AC093815.1--UGT8^ENST00000508637.2" ; transcript_name "AC093815.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
AC239859.5--AC013734.1 HAVANA gene 4584 4694 . + . FI_gene_label "AC013734.1^ENSG00000277146.1" ; ID "AC239859.5--AC013734.1^AC013734.1^ENSG00000277146.1" ; exon_id "ENSE00003713380.1" ; exon_number 1 ; gene_id "AC239859.5--AC013734.1^AC013734.1^ENSG00000277146.1" ; gene_name "AC013734.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188106.1" ; havana_transcript "OTTHUMT00000475889.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chrY,26453982,26454092,+" ; tag basic ; transcript_id "AC239859.5--AC013734.1^ENST00000619329.1" ; transcript_name "AC013734.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
AC239859.5--AC013734.1 HAVANA RNA 4584 4694 . + . FI_gene_label "AC013734.1^ENSG00000277146.1" ; ID "AC239859.5--AC013734.1^ENST00000619329.1" ; Parent "AC239859.5--AC013734.1^AC013734.1^ENSG00000277146.1" ; exon_id "ENSE00003713380.1" ; exon_number 1 ; gene_id "AC239859.5--AC013734.1^AC013734.1^ENSG00000277146.1" ; gene_name "AC013734.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188106.1" ; havana_transcript "OTTHUMT00000475889.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chrY,26453982,26454092,+" ; tag basic ; transcript_id "AC239859.5--AC013734.1^ENST00000619329.1" ; transcript_name "AC013734.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
AC239859.5--AC013734.1 HAVANA gene 1001 1583 . + . FI_gene_label "AC239859.5^ENSG00000277702.1" ; ID "AC239859.5--AC013734.1^AC239859.5^ENSG00000277702.1" ; exon_id "ENSE00003729917.1" ; exon_number 1 ; gene_id "AC239859.5--AC013734.1^AC239859.5^ENSG00000277702.1" ; gene_name "AC239859.5" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000188681.1" ; havana_transcript "OTTHUMT00000477888.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,143420073,143420207,-" ; tag basic ; transcript_id "AC239859.5--AC013734.1^ENST00000622095.1" ; transcript_name "AC239859.5-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
AC239859.5--AC013734.1 HAVANA RNA 1001 1583 . + . FI_gene_label "AC239859.5^ENSG00000277702.1" ; ID "AC239859.5--AC013734.1^ENST00000622095.1" ; Parent "AC239859.5--AC013734.1^AC239859.5^ENSG00000277702.1" ; exon_id "ENSE00003729917.1" ; exon_number 1 ; gene_id "AC239859.5--AC013734.1^AC239859.5^ENSG00000277702.1" ; gene_name "AC239859.5" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000188681.1" ; havana_transcript "OTTHUMT00000477888.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,143420073,143420207,-" ; tag basic ; transcript_id "AC239859.5--AC013734.1^ENST00000622095.1" ; transcript_name "AC239859.5-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
L1 and L2 created:
AC245297.3--SEC22B3P HAVANA gene 1275 9406 . + . FI_gene_label "AC245297.3^ENSG00000274265.5" ; ID "AC245297.3--SEC22B3P^AC245297.3^ENSG00000274265.5" ; exon_id "ENSE00003727374.1" ; exon_number 1 ; gene_id "AC245297.3--SEC22B3P^AC245297.3^ENSG00000274265.5" ; gene_name "AC245297.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000188629.8" ; havana_transcript "OTTHUMT00000477763.1" ; level 2 ; orig_coord_info "chr1,149176022,149176250,+" ; tag basic ; transcript_id "AC245297.3--SEC22B3P^ENST00000611769.4" ; transcript_name "AC245297.3-201" ; transcript_support_level 5 ; transcript_type lncRNA
AC245297.3--SEC22B3P HAVANA RNA 1275 9406 . + . FI_gene_label "AC245297.3^ENSG00000274265.5" ; ID "AC245297.3--SEC22B3P^ENST00000611769.4" ; Parent "AC245297.3--SEC22B3P^AC245297.3^ENSG00000274265.5" ; exon_id "ENSE00003727374.1" ; exon_number 1 ; gene_id "AC245297.3--SEC22B3P^AC245297.3^ENSG00000274265.5" ; gene_name "AC245297.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000188629.8" ; havana_transcript "OTTHUMT00000477763.1" ; level 2 ; orig_coord_info "chr1,149176022,149176250,+" ; tag basic ; transcript_id "AC245297.3--SEC22B3P^ENST00000611769.4" ; transcript_name "AC245297.3-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
AC245297.3--SEC22B3P HAVANA gene 13949 17524 . + . FI_gene_label "SEC22B3P^ENSG00000275140.1" ; ID "AC245297.3--SEC22B3P^SEC22B3P^ENSG00000275140.1" ; exon_id "ENSE00003747856.1" ; exon_number 1 ; gene_id "AC245297.3--SEC22B3P^SEC22B3P^ENSG00000275140.1" ; gene_name SEC22B3P ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000188674.1" ; havana_transcript "OTTHUMT00000477871.1" ; hgnc_id "HGNC:53891" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,148784482,148784594,-" ; tag basic ; transcript_id "AC245297.3--SEC22B3P^ENST00000616023.1" ; transcript_name "SEC22B3P-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
AC245297.3--SEC22B3P HAVANA RNA 13949 17524 . + . FI_gene_label "SEC22B3P^ENSG00000275140.1" ; ID "AC245297.3--SEC22B3P^ENST00000616023.1" ; Parent "AC245297.3--SEC22B3P^SEC22B3P^ENSG00000275140.1" ; exon_id "ENSE00003747856.1" ; exon_number 1 ; gene_id "AC245297.3--SEC22B3P^SEC22B3P^ENSG00000275140.1" ; gene_name SEC22B3P ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000188674.1" ; havana_transcript "OTTHUMT00000477871.1" ; hgnc_id "HGNC:53891" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,148784482,148784594,-" ; tag basic ; transcript_id "AC245297.3--SEC22B3P^ENST00000616023.1" ; transcript_name "SEC22B3P-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
L1 and L2 created:
AL033504.1--SASH1 HAVANA gene 1001 8267 . + . FI_gene_label "AL033504.1^ENSG00000227681.5" ; ID "AL033504.1--SASH1^AL033504.1^ENSG00000227681.5" ; exon_id "ENSE00001779070.1" ; exon_number 1 ; gene_id "AL033504.1--SASH1^AL033504.1^ENSG00000227681.5" ; gene_name "AL033504.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000015769.1" ; havana_transcript "OTTHUMT00000042615.1" ; level 2 ; orig_coord_info "chr6,147660703,147660819,+" ; tag basic ; transcript_id "AL033504.1--SASH1^ENST00000427015.1" ; transcript_name "AL033504.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
AL033504.1--SASH1 HAVANA RNA 1001 8267 . + . FI_gene_label "AL033504.1^ENSG00000227681.5" ; ID "AL033504.1--SASH1^ENST00000427015.1" ; Parent "AL033504.1--SASH1^AL033504.1^ENSG00000227681.5" ; exon_id "ENSE00001779070.1" ; exon_number 1 ; gene_id "AL033504.1--SASH1^AL033504.1^ENSG00000227681.5" ; gene_name "AL033504.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000015769.1" ; havana_transcript "OTTHUMT00000042615.1" ; level 2 ; orig_coord_info "chr6,147660703,147660819,+" ; tag basic ; transcript_id "AL033504.1--SASH1^ENST00000427015.1" ; transcript_name "AL033504.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
AP001021.1--YAP1 HAVANA gene 1132 5178 . + . FI_gene_label "AP001021.1^ENSG00000264449.6" ; ID "AP001021.1--YAP1^AP001021.1^ENSG00000264449.6" ; exon_id "ENSE00002731992.1" ; exon_number 1 ; gene_id "AP001021.1--YAP1^AP001021.1^ENSG00000264449.6" ; gene_name "AP001021.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000178433.3" ; havana_transcript "OTTHUMT00000442052.1" ; level 2 ; orig_coord_info "chr18,5887618,5887722,+" ; transcript_id "AP001021.1--YAP1^ENST00000577694.1" ; transcript_name "AP001021.1-203" ; transcript_support_level 3 ; transcript_type lncRNA
AP001021.1--YAP1 HAVANA RNA 1132 5178 . + . FI_gene_label "AP001021.1^ENSG00000264449.6" ; ID "AP001021.1--YAP1^ENST00000577694.1" ; Parent "AP001021.1--YAP1^AP001021.1^ENSG00000264449.6" ; exon_id "ENSE00002731992.1" ; exon_number 1 ; gene_id "AP001021.1--YAP1^AP001021.1^ENSG00000264449.6" ; gene_name "AP001021.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000178433.3" ; havana_transcript "OTTHUMT00000442052.1" ; level 2 ; orig_coord_info "chr18,5887618,5887722,+" ; transcript_id "AP001021.1--YAP1^ENST00000577694.1" ; transcript_name "AP001021.1-203" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
AP001347.1--ANKRD20A11P HAVANA gene 8798 22852 . + . FI_gene_label "ANKRD20A11P^ENSG00000215559.8" ; ID "AP001347.1--ANKRD20A11P^ANKRD20A11P^ENSG00000215559.8" ; exon_id "ENSE00002284794.1" ; exon_number 1 ; gene_id "AP001347.1--ANKRD20A11P^ANKRD20A11P^ENSG00000215559.8" ; gene_name ANKRD20A11P ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000074237.2" ; havana_transcript "OTTHUMT00000157750.1" ; hgnc_id "HGNC:42024" ; level 2 ; orig_coord_info "chr21,13979702,13980437,-" ; tag basic ; transcript_id "AP001347.1--ANKRD20A11P^ENST00000344693.5" ; transcript_name "ANKRD20A11P-201" ; transcript_support_level 1 ; transcript_type processed_transcript
AP001347.1--ANKRD20A11P HAVANA RNA 8798 22852 . + . FI_gene_label "ANKRD20A11P^ENSG00000215559.8" ; ID "AP001347.1--ANKRD20A11P^ENST00000344693.5" ; Parent "AP001347.1--ANKRD20A11P^ANKRD20A11P^ENSG00000215559.8" ; exon_id "ENSE00002284794.1" ; exon_number 1 ; gene_id "AP001347.1--ANKRD20A11P^ANKRD20A11P^ENSG00000215559.8" ; gene_name ANKRD20A11P ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000074237.2" ; havana_transcript "OTTHUMT00000157750.1" ; hgnc_id "HGNC:42024" ; level 2 ; orig_coord_info "chr21,13979702,13980437,-" ; tag basic ; transcript_id "AP001347.1--ANKRD20A11P^ENST00000344693.5" ; transcript_name "ANKRD20A11P-201" ; transcript_support_level 1 ; transcript_type processed_transcript
L1 and L2 created:
AP001347.1--ANKRD20A11P HAVANA gene 1003 5797 . + . FI_gene_label "AP001347.1^ENSG00000224905.7" ; ID "AP001347.1--ANKRD20A11P^AP001347.1^ENSG00000224905.7" ; exon_id "ENSE00001608016.1" ; exon_number 1 ; gene_id "AP001347.1--ANKRD20A11P^AP001347.1^ENSG00000224905.7" ; gene_name "AP001347.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000074260.3" ; havana_transcript "OTTHUMT00000157812.1" ; level 2 ; orig_coord_info "chr21,14027421,14027597,+" ; tag basic ; transcript_id "AP001347.1--ANKRD20A11P^ENST00000428809.5" ; transcript_name "AP001347.1-202" ; transcript_support_level 1 ; transcript_type lncRNA
AP001347.1--ANKRD20A11P HAVANA RNA 1003 5797 . + . FI_gene_label "AP001347.1^ENSG00000224905.7" ; ID "AP001347.1--ANKRD20A11P^ENST00000428809.5" ; Parent "AP001347.1--ANKRD20A11P^AP001347.1^ENSG00000224905.7" ; exon_id "ENSE00001608016.1" ; exon_number 1 ; gene_id "AP001347.1--ANKRD20A11P^AP001347.1^ENSG00000224905.7" ; gene_name "AP001347.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000074260.3" ; havana_transcript "OTTHUMT00000157812.1" ; level 2 ; orig_coord_info "chr21,14027421,14027597,+" ; tag basic ; transcript_id "AP001347.1--ANKRD20A11P^ENST00000428809.5" ; transcript_name "AP001347.1-202" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
CDV3--MT-RNR2 ENSEMBL gene 11279 12837 . + . FI_gene_label "MT-RNR2^ENSG00000210082.2" ; ID "CDV3--MT-RNR2^MT-RNR2^ENSG00000210082.2" ; exon_id "ENSE00001544497.2" ; exon_number 1 ; gene_id "CDV3--MT-RNR2^MT-RNR2^ENSG00000210082.2" ; gene_name "MT-RNR2" ; gene_type Mt_rRNA ; hgnc_id "HGNC:7471" ; level 3 ; orig_coord_info "chrM,1671,3229,+" ; tag basic ; transcript_id "CDV3--MT-RNR2^ENST00000387347.2" ; transcript_name "MT-RNR2-201" ; transcript_support_level NA ; transcript_type Mt_rRNA
CDV3--MT-RNR2 ENSEMBL RNA 11279 12837 . + . FI_gene_label "MT-RNR2^ENSG00000210082.2" ; ID "CDV3--MT-RNR2^ENST00000387347.2" ; Parent "CDV3--MT-RNR2^MT-RNR2^ENSG00000210082.2" ; exon_id "ENSE00001544497.2" ; exon_number 1 ; gene_id "CDV3--MT-RNR2^MT-RNR2^ENSG00000210082.2" ; gene_name "MT-RNR2" ; gene_type Mt_rRNA ; hgnc_id "HGNC:7471" ; level 3 ; orig_coord_info "chrM,1671,3229,+" ; tag basic ; transcript_id "CDV3--MT-RNR2^ENST00000387347.2" ; transcript_name "MT-RNR2-201" ; transcript_support_level NA ; transcript_type Mt_rRNA
L1 and L2 created:
FLG-AS1--ARHGAP32 HAVANA gene 3758 7551 . + . FI_gene_label "FLG-AS1^ENSG00000237975.7" ; ID "FLG-AS1--ARHGAP32^FLG-AS1^ENSG00000237975.7" ; exon_id "ENSE00001805770.1" ; exon_number 1 ; gene_id "FLG-AS1--ARHGAP32^FLG-AS1^ENSG00000237975.7" ; gene_name "FLG-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000012203.6" ; havana_transcript "OTTHUMT00000034014.1" ; hgnc_id "HGNC:27913" ; level 2 ; orig_coord_info "chr1,152249003,152249012,+" ; transcript_id "FLG-AS1--ARHGAP32^ENST00000382265.3" ; transcript_name "FLG-AS1-201" ; transcript_support_level 5 ; transcript_type lncRNA
FLG-AS1--ARHGAP32 HAVANA RNA 3758 7551 . + . FI_gene_label "FLG-AS1^ENSG00000237975.7" ; ID "FLG-AS1--ARHGAP32^ENST00000382265.3" ; Parent "FLG-AS1--ARHGAP32^FLG-AS1^ENSG00000237975.7" ; exon_id "ENSE00001805770.1" ; exon_number 1 ; gene_id "FLG-AS1--ARHGAP32^FLG-AS1^ENSG00000237975.7" ; gene_name "FLG-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000012203.6" ; havana_transcript "OTTHUMT00000034014.1" ; hgnc_id "HGNC:27913" ; level 2 ; orig_coord_info "chr1,152249003,152249012,+" ; transcript_id "FLG-AS1--ARHGAP32^ENST00000382265.3" ; transcript_name "FLG-AS1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
GLIS3--AP003304.1 ENSEMBL gene 39923 39983 . + . FI_gene_label "AP003304.1^ENSG00000280773.2" ; ID "GLIS3--AP003304.1^AP003304.1^ENSG00000280773.2" ; exon_id "ENSE00003769628.2" ; exon_number 1 ; gene_id "GLIS3--AP003304.1^AP003304.1^ENSG00000280773.2" ; gene_name "AP003304.1" ; gene_type miRNA ; level 3 ; orig_coord_info "chr11,104252591,104252651,+" ; tag basic ; transcript_id "GLIS3--AP003304.1^ENST00000627518.2" ; transcript_name "AP003304.1-201" ; transcript_support_level NA ; transcript_type miRNA
GLIS3--AP003304.1 ENSEMBL RNA 39923 39983 . + . FI_gene_label "AP003304.1^ENSG00000280773.2" ; ID "GLIS3--AP003304.1^ENST00000627518.2" ; Parent "GLIS3--AP003304.1^AP003304.1^ENSG00000280773.2" ; exon_id "ENSE00003769628.2" ; exon_number 1 ; gene_id "GLIS3--AP003304.1^AP003304.1^ENSG00000280773.2" ; gene_name "AP003304.1" ; gene_type miRNA ; level 3 ; orig_coord_info "chr11,104252591,104252651,+" ; tag basic ; transcript_id "GLIS3--AP003304.1^ENST00000627518.2" ; transcript_name "AP003304.1-201" ; transcript_support_level NA ; transcript_type miRNA
L1 and L2 created:
LINC01429--SALL4 HAVANA gene 1001 5326 . + . FI_gene_label "LINC01429^ENSG00000227964.1" ; ID "LINC01429--SALL4^LINC01429^ENSG00000227964.1" ; exon_id "ENSE00001798217.1" ; exon_number 1 ; gene_id "LINC01429--SALL4^LINC01429^ENSG00000227964.1" ; gene_name LINC01429 ; gene_type lncRNA ; havana_gene "OTTHUMG00000134283.1" ; havana_transcript "OTTHUMT00000258921.1" ; hgnc_id "HGNC:50741" ; level 2 ; orig_coord_info "chr20,51862825,51862912,-" ; tag basic ; transcript_id "LINC01429--SALL4^ENST00000438154.1" ; transcript_name "LINC01429-201" ; transcript_support_level 2 ; transcript_type lncRNA
LINC01429--SALL4 HAVANA RNA 1001 5326 . + . FI_gene_label "LINC01429^ENSG00000227964.1" ; ID "LINC01429--SALL4^ENST00000438154.1" ; Parent "LINC01429--SALL4^LINC01429^ENSG00000227964.1" ; exon_id "ENSE00001798217.1" ; exon_number 1 ; gene_id "LINC01429--SALL4^LINC01429^ENSG00000227964.1" ; gene_name LINC01429 ; gene_type lncRNA ; havana_gene "OTTHUMG00000134283.1" ; havana_transcript "OTTHUMT00000258921.1" ; hgnc_id "HGNC:50741" ; level 2 ; orig_coord_info "chr20,51862825,51862912,-" ; tag basic ; transcript_id "LINC01429--SALL4^ENST00000438154.1" ; transcript_name "LINC01429-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
MTAP--CDKN2B-AS1 HAVANA gene 30652 68565 . + . FI_gene_label "CDKN2B-AS1^ENSG00000240498.9" ; ID "MTAP--CDKN2B-AS1^CDKN2B-AS1^ENSG00000240498.9" ; exon_id "ENSE00002699013.1" ; exon_number 1 ; gene_id "MTAP--CDKN2B-AS1^CDKN2B-AS1^ENSG00000240498.9" ; gene_name "CDKN2B-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019689.7" ; havana_transcript "OTTHUMT00000502865.1" ; hgnc_id "HGNC:34341" ; level 2 ; orig_coord_info "chr9,21995095,21995161,+" ; tag RNA_Seq_supported_only ; transcript_id "MTAP--CDKN2B-AS1^ENST00000421632.2" ; transcript_name "CDKN2B-AS1-201" ; transcript_support_level 3 ; transcript_type lncRNA
MTAP--CDKN2B-AS1 HAVANA RNA 30652 68565 . + . FI_gene_label "CDKN2B-AS1^ENSG00000240498.9" ; ID "MTAP--CDKN2B-AS1^ENST00000421632.2" ; Parent "MTAP--CDKN2B-AS1^CDKN2B-AS1^ENSG00000240498.9" ; exon_id "ENSE00002699013.1" ; exon_number 1 ; gene_id "MTAP--CDKN2B-AS1^CDKN2B-AS1^ENSG00000240498.9" ; gene_name "CDKN2B-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019689.7" ; havana_transcript "OTTHUMT00000502865.1" ; hgnc_id "HGNC:34341" ; level 2 ; orig_coord_info "chr9,21995095,21995161,+" ; tag RNA_Seq_supported_only ; transcript_id "MTAP--CDKN2B-AS1^ENST00000421632.2" ; transcript_name "CDKN2B-AS1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
NUP214--AP000851.1 HAVANA gene 49267 52434 . + . FI_gene_label "AP000851.1^ENSG00000256916.1" ; ID "NUP214--AP000851.1^AP000851.1^ENSG00000256916.1" ; exon_id "ENSE00002232033.1" ; exon_number 1 ; gene_id "NUP214--AP000851.1^AP000851.1^ENSG00000256916.1" ; gene_name "AP000851.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000168097.1" ; havana_transcript "OTTHUMT00000398126.1" ; level 2 ; orig_coord_info "chr11,102607367,102607452,+" ; tag basic ; transcript_id "NUP214--AP000851.1^ENST00000542119.1" ; transcript_name "AP000851.1-202" ; transcript_support_level 3 ; transcript_type lncRNA
NUP214--AP000851.1 HAVANA RNA 49267 52434 . + . FI_gene_label "AP000851.1^ENSG00000256916.1" ; ID "NUP214--AP000851.1^ENST00000542119.1" ; Parent "NUP214--AP000851.1^AP000851.1^ENSG00000256916.1" ; exon_id "ENSE00002232033.1" ; exon_number 1 ; gene_id "NUP214--AP000851.1^AP000851.1^ENSG00000256916.1" ; gene_name "AP000851.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000168097.1" ; havana_transcript "OTTHUMT00000398126.1" ; level 2 ; orig_coord_info "chr11,102607367,102607452,+" ; tag basic ; transcript_id "NUP214--AP000851.1^ENST00000542119.1" ; transcript_name "AP000851.1-202" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
NUP214--AP000851.2 HAVANA gene 48816 50983 . + . FI_gene_label "AP000851.2^ENSG00000281655.1" ; ID "NUP214--AP000851.2^AP000851.2^ENSG00000281655.1" ; exon_id "ENSE00003773665.1" ; exon_number 1 ; gene_id "NUP214--AP000851.2^AP000851.2^ENSG00000281655.1" ; gene_name "AP000851.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000168098.2" ; havana_transcript "OTTHUMT00000398127.2" ; level 2 ; orig_coord_info "chr11,102681310,102681374,+" ; tag basic ; transcript_id "NUP214--AP000851.2^ENST00000629499.1" ; transcript_name "AP000851.2-201" ; transcript_support_level 3 ; transcript_type lncRNA
NUP214--AP000851.2 HAVANA RNA 48816 50983 . + . FI_gene_label "AP000851.2^ENSG00000281655.1" ; ID "NUP214--AP000851.2^ENST00000629499.1" ; Parent "NUP214--AP000851.2^AP000851.2^ENSG00000281655.1" ; exon_id "ENSE00003773665.1" ; exon_number 1 ; gene_id "NUP214--AP000851.2^AP000851.2^ENSG00000281655.1" ; gene_name "AP000851.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000168098.2" ; havana_transcript "OTTHUMT00000398127.2" ; level 2 ; orig_coord_info "chr11,102681310,102681374,+" ; tag basic ; transcript_id "NUP214--AP000851.2^ENST00000629499.1" ; transcript_name "AP000851.2-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
PDCD1LG2--AP001830.2 HAVANA gene 12433 14926 . + . FI_gene_label "AP001830.2^ENSG00000255482.1" ; ID "PDCD1LG2--AP001830.2^AP001830.2^ENSG00000255482.1" ; exon_id "ENSE00002158774.1" ; exon_number 1 ; gene_id "PDCD1LG2--AP001830.2^AP001830.2^ENSG00000255482.1" ; gene_name "AP001830.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000167328.1" ; havana_transcript "OTTHUMT00000394186.1" ; level 1 ; orig_coord_info "chr11,102467255,102467368,+" ; tag basic exp_conf ; transcript_id "PDCD1LG2--AP001830.2^ENST00000529278.1" ; transcript_name "AP001830.2-201" ; transcript_support_level 2 ; transcript_type lncRNA
PDCD1LG2--AP001830.2 HAVANA RNA 12433 14926 . + . FI_gene_label "AP001830.2^ENSG00000255482.1" ; ID "PDCD1LG2--AP001830.2^ENST00000529278.1" ; Parent "PDCD1LG2--AP001830.2^AP001830.2^ENSG00000255482.1" ; exon_id "ENSE00002158774.1" ; exon_number 1 ; gene_id "PDCD1LG2--AP001830.2^AP001830.2^ENSG00000255482.1" ; gene_name "AP001830.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000167328.1" ; havana_transcript "OTTHUMT00000394186.1" ; level 1 ; orig_coord_info "chr11,102467255,102467368,+" ; tag basic exp_conf ; transcript_id "PDCD1LG2--AP001830.2^ENST00000529278.1" ; transcript_name "AP001830.2-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
RCC2--AC012491.1 HAVANA gene 18491 19289 . + . FI_gene_label "AC012491.1^ENSG00000271074.1" ; ID "RCC2--AC012491.1^AC012491.1^ENSG00000271074.1" ; exon_id "ENSE00003643713.1" ; exon_number 1 ; gene_id "RCC2--AC012491.1^AC012491.1^ENSG00000271074.1" ; gene_name "AC012491.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000184258.1" ; havana_transcript "OTTHUMT00000468504.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr2,211104934,211105732,+" ; tag pseudo_consens basic ; transcript_id "RCC2--AC012491.1^ENST00000605674.1" ; transcript_name "AC012491.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
RCC2--AC012491.1 HAVANA RNA 18491 19289 . + . FI_gene_label "AC012491.1^ENSG00000271074.1" ; ID "RCC2--AC012491.1^ENST00000605674.1" ; Parent "RCC2--AC012491.1^AC012491.1^ENSG00000271074.1" ; exon_id "ENSE00003643713.1" ; exon_number 1 ; gene_id "RCC2--AC012491.1^AC012491.1^ENSG00000271074.1" ; gene_name "AC012491.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000184258.1" ; havana_transcript "OTTHUMT00000468504.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr2,211104934,211105732,+" ; tag pseudo_consens basic ; transcript_id "RCC2--AC012491.1^ENST00000605674.1" ; transcript_name "AC012491.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
RPSAP52--HMGA2 HAVANA gene 1024 4035 . + . FI_gene_label "RPSAP52^ENSG00000241749.4" ; ID "RPSAP52--HMGA2^RPSAP52^ENSG00000241749.4" ; exon_id "ENSE00001887935.1" ; exon_number 1 ; gene_id "RPSAP52--HMGA2^RPSAP52^ENSG00000241749.4" ; gene_name RPSAP52 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000157608.3" ; havana_transcript "OTTHUMT00000349256.2" ; hgnc_id "HGNC:35752" ; level 2 ; orig_coord_info "chr12,65826843,65826974,-" ; tag basic ; transcript_id "RPSAP52--HMGA2^ENST00000489520.2" ; transcript_name "RPSAP52-201" ; transcript_support_level 1 ; transcript_type processed_transcript
RPSAP52--HMGA2 HAVANA RNA 1024 4035 . + . FI_gene_label "RPSAP52^ENSG00000241749.4" ; ID "RPSAP52--HMGA2^ENST00000489520.2" ; Parent "RPSAP52--HMGA2^RPSAP52^ENSG00000241749.4" ; exon_id "ENSE00001887935.1" ; exon_number 1 ; gene_id "RPSAP52--HMGA2^RPSAP52^ENSG00000241749.4" ; gene_name RPSAP52 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000157608.3" ; havana_transcript "OTTHUMT00000349256.2" ; hgnc_id "HGNC:35752" ; level 2 ; orig_coord_info "chr12,65826843,65826974,-" ; tag basic ; transcript_id "RPSAP52--HMGA2^ENST00000489520.2" ; transcript_name "RPSAP52-201" ; transcript_support_level 1 ; transcript_type processed_transcript
L1 and L2 created:
SH3BP5--AC002074.1 HAVANA gene 21653 29262 . + . FI_gene_label "AC002074.1^ENSG00000285090.1" ; ID "SH3BP5--AC002074.1^AC002074.1^ENSG00000285090.1" ; exon_id "ENSE00003818661.1" ; exon_number 1 ; gene_id "SH3BP5--AC002074.1^AC002074.1^ENSG00000285090.1" ; gene_name "AC002074.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000192620.1" ; havana_transcript "OTTHUMT00000497577.1" ; level 2 ; orig_coord_info "chr7,94392118,94392196,-" ; tag RNA_Seq_supported_partial basic ; transcript_id "SH3BP5--AC002074.1^ENST00000642601.1" ; transcript_name "AC002074.1-201" ; transcript_type lncRNA
SH3BP5--AC002074.1 HAVANA RNA 21653 29262 . + . FI_gene_label "AC002074.1^ENSG00000285090.1" ; ID "SH3BP5--AC002074.1^ENST00000642601.1" ; Parent "SH3BP5--AC002074.1^AC002074.1^ENSG00000285090.1" ; exon_id "ENSE00003818661.1" ; exon_number 1 ; gene_id "SH3BP5--AC002074.1^AC002074.1^ENSG00000285090.1" ; gene_name "AC002074.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000192620.1" ; havana_transcript "OTTHUMT00000497577.1" ; level 2 ; orig_coord_info "chr7,94392118,94392196,-" ; tag RNA_Seq_supported_partial basic ; transcript_id "SH3BP5--AC002074.1^ENST00000642601.1" ; transcript_name "AC002074.1-201" ; transcript_type lncRNA
L1 and L2 created:
TBC1D13--AL442224.1 HAVANA gene 16957 22428 . + . FI_gene_label "AL442224.1^ENSG00000231990.2" ; ID "TBC1D13--AL442224.1^AL442224.1^ENSG00000231990.2" ; exon_id "ENSE00003867276.1" ; exon_number 1 ; gene_id "TBC1D13--AL442224.1^AL442224.1^ENSG00000231990.2" ; gene_name "AL442224.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000020254.4" ; havana_transcript "OTTHUMT00000515803.1" ; level 1 ; orig_coord_info "chr9,93808347,93808564,+" ; tag TAGENE exp_conf ; transcript_id "TBC1D13--AL442224.1^ENST00000443771.2" ; transcript_name "AL442224.1-203" ; transcript_support_level 2 ; transcript_type lncRNA
TBC1D13--AL442224.1 HAVANA RNA 16957 22428 . + . FI_gene_label "AL442224.1^ENSG00000231990.2" ; ID "TBC1D13--AL442224.1^ENST00000443771.2" ; Parent "TBC1D13--AL442224.1^AL442224.1^ENSG00000231990.2" ; exon_id "ENSE00003867276.1" ; exon_number 1 ; gene_id "TBC1D13--AL442224.1^AL442224.1^ENSG00000231990.2" ; gene_name "AL442224.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000020254.4" ; havana_transcript "OTTHUMT00000515803.1" ; level 1 ; orig_coord_info "chr9,93808347,93808564,+" ; tag TAGENE exp_conf ; transcript_id "TBC1D13--AL442224.1^ENST00000443771.2" ; transcript_name "AL442224.1-203" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
TLK2P1--AC110079.1 HAVANA RNA 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^ENST00000530992.1" ; Parent "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
TLK2P1--AC110079.1 HAVANA RNA 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^ENST00000567913.2" ; Parent "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
TMEFF2--TEX41 HAVANA gene 57838 89633 . + . FI_gene_label "TEX41^ENSG00000226674.11" ; ID "TMEFF2--TEX41^TEX41^ENSG00000226674.11" ; exon_id "ENSE00003194788.1" ; exon_number 1 ; gene_id "TMEFF2--TEX41^TEX41^ENSG00000226674.11" ; gene_name TEX41 ; gene_type lncRNA ; havana_gene "OTTHUMG00000153701.105" ; havana_transcript "OTTHUMT00000332164.3" ; hgnc_id "HGNC:48667" ; level 2 ; orig_coord_info "chr2,145023228,145023273,+" ; tag mRNA_start_NF ; transcript_id "TMEFF2--TEX41^ENST00000414195.6" ; transcript_name "TEX41-201" ; transcript_support_level 3 ; transcript_type lncRNA
TMEFF2--TEX41 HAVANA RNA 57838 89633 . + . FI_gene_label "TEX41^ENSG00000226674.11" ; ID "TMEFF2--TEX41^ENST00000414195.6" ; Parent "TMEFF2--TEX41^TEX41^ENSG00000226674.11" ; exon_id "ENSE00003194788.1" ; exon_number 1 ; gene_id "TMEFF2--TEX41^TEX41^ENSG00000226674.11" ; gene_name TEX41 ; gene_type lncRNA ; havana_gene "OTTHUMG00000153701.105" ; havana_transcript "OTTHUMT00000332164.3" ; hgnc_id "HGNC:48667" ; level 2 ; orig_coord_info "chr2,145023228,145023273,+" ; tag mRNA_start_NF ; transcript_id "TMEFF2--TEX41^ENST00000414195.6" ; transcript_name "TEX41-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
TPTE--BAGE2 HAVANA gene 27330 39533 . + . FI_gene_label "BAGE2^ENSG00000187172.15" ; ID "TPTE--BAGE2^BAGE2^ENSG00000187172.15" ; exon_id "ENSE00001647801.1" ; exon_number 1 ; gene_id "TPTE--BAGE2^BAGE2^ENSG00000187172.15" ; gene_name BAGE2 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000074128.5" ; havana_transcript "OTTHUMT00000157417.3" ; hgnc_id "HGNC:15723" ; level 2 ; orig_coord_info "chr21,10413532,10413754,+" ; tag mRNA_end_NF ; transcript_id "TPTE--BAGE2^ENST00000470054.5" ; transcript_name "BAGE2-201" ; transcript_support_level 1 ; transcript_type processed_transcript
TPTE--BAGE2 HAVANA RNA 27330 39533 . + . FI_gene_label "BAGE2^ENSG00000187172.15" ; ID "TPTE--BAGE2^ENST00000470054.5" ; Parent "TPTE--BAGE2^BAGE2^ENSG00000187172.15" ; exon_id "ENSE00001647801.1" ; exon_number 1 ; gene_id "TPTE--BAGE2^BAGE2^ENSG00000187172.15" ; gene_name BAGE2 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000074128.5" ; havana_transcript "OTTHUMT00000157417.3" ; hgnc_id "HGNC:15723" ; level 2 ; orig_coord_info "chr21,10413532,10413754,+" ; tag mRNA_end_NF ; transcript_id "TPTE--BAGE2^ENST00000470054.5" ; transcript_name "BAGE2-201" ; transcript_support_level 1 ; transcript_type processed_transcript
837 cases fixed where L3 features have parent feature(s) missing
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--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
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--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
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------------------------- Check7: all level3 locations -------------------------
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check8: check cds -------------------------------
No problem found
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----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
------------------------------ done in 1 seconds -------------------------------
----------------------------- Check10: check utrs ------------------------------
978 UTRs created that were missing
No UTRs locations modified
No supernumerary UTRs removed
------------------------------ done in 0 seconds -------------------------------
------------------------ Check11: all level2 locations -------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
------------------------ Check12: all level1 locations -------------------------
We fixed 51 wrong level1 location cases
------------------------------ done in 0 seconds -------------------------------
---------------------- Check13: remove identical isoforms ----------------------
None found
------------------------------ done in 0 seconds -------------------------------
------ End checks (done in 1 second) ------
GFF3 file parsed