Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/15243de82f0e52b70253de2eb303e7/fi_workdir/659_dHy-T1-TRNA-1_B23MHV2LT4_1.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/7d1a3d2dbb2860128ca2f4f62911c4/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/7d1a3d2dbb2860128ca2f4f62911c4/.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: 10135
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 10135
=> Number of feature type (3rd column): 2
* Level1: 0 =>
* level2: 0 =>
* level3: 2 => exon CDS
* unknown: 0 =>
=>Check because only level3 features:
* Number of feature with Parent attribute:0
* Number of feature with a common attribute:10135
=> 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 3 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:
AC007064.2--XKR3 HAVANA gene 5501 10190 . + . FI_gene_label "XKR3^ENSG00000172967.7" ; ID "AC007064.2--XKR3^XKR3^ENSG00000172967.7" ; ccdsid "CCDS42975.1" ; exon_id "ENSE00001303813.1" ; exon_number 2 ; gene_id "AC007064.2--XKR3^XKR3^ENSG00000172967.7" ; gene_name XKR3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000143726.1" ; havana_transcript "OTTHUMT00000289789.1" ; hgnc_id "HGNC:28778" ; level 2 ; orig_coord_info "chr22,16807739,16808073,-" ; protein_id "ENSP00000331704.5" ; tag basic appris_principal_1 CCDS ; transcript_id "AC007064.2--XKR3^ENST00000331428.5" ; transcript_name "XKR3-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC007064.2--XKR3 HAVANA mRNA 5501 10190 . + . FI_gene_label "XKR3^ENSG00000172967.7" ; ID "AC007064.2--XKR3^ENST00000331428.5" ; Parent "AC007064.2--XKR3^XKR3^ENSG00000172967.7" ; ccdsid "CCDS42975.1" ; exon_id "ENSE00001303813.1" ; exon_number 2 ; gene_id "AC007064.2--XKR3^XKR3^ENSG00000172967.7" ; gene_name XKR3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000143726.1" ; havana_transcript "OTTHUMT00000289789.1" ; hgnc_id "HGNC:28778" ; level 2 ; orig_coord_info "chr22,16807739,16808073,-" ; protein_id "ENSP00000331704.5" ; tag basic appris_principal_1 CCDS ; transcript_id "AC007064.2--XKR3^ENST00000331428.5" ; transcript_name "XKR3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC010789.2--FBXW4 HAVANA gene 6029 17689 . + . FI_gene_label "FBXW4^ENSG00000107829.15" ; ID "AC010789.2--FBXW4^FBXW4^ENSG00000107829.15" ; exon_id "ENSE00001333590.6" ; exon_number 1 ; gene_id "AC010789.2--FBXW4^FBXW4^ENSG00000107829.15" ; gene_name FBXW4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018938.6" ; havana_transcript "OTTHUMT00000049979.4" ; hgnc_id "HGNC:10847" ; level 2 ; orig_coord_info "chr10,101694381,101695105,-" ; protein_id "ENSP00000359149.3" ; tag basic MANE_Select appris_principal_4 ; transcript_id "AC010789.2--FBXW4^ENST00000331272.9" ; transcript_name "FBXW4-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC010789.2--FBXW4 HAVANA mRNA 6029 17689 . + . FI_gene_label "FBXW4^ENSG00000107829.15" ; ID "AC010789.2--FBXW4^ENST00000331272.9" ; Parent "AC010789.2--FBXW4^FBXW4^ENSG00000107829.15" ; exon_id "ENSE00001333590.6" ; exon_number 1 ; gene_id "AC010789.2--FBXW4^FBXW4^ENSG00000107829.15" ; gene_name FBXW4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018938.6" ; havana_transcript "OTTHUMT00000049979.4" ; hgnc_id "HGNC:10847" ; level 2 ; orig_coord_info "chr10,101694381,101695105,-" ; protein_id "ENSP00000359149.3" ; tag basic MANE_Select appris_principal_4 ; transcript_id "AC010789.2--FBXW4^ENST00000331272.9" ; transcript_name "FBXW4-201" ; transcript_support_level 1 ; transcript_type protein_coding
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:
AC092123.1--ANKRD11 HAVANA gene 7032 51903 . + . FI_gene_label "ANKRD11^ENSG00000167522.16" ; ID "AC092123.1--ANKRD11^ANKRD11^ENSG00000167522.16" ; ccdsid "CCDS32513.1" ; exon_id "ENSE00003537320.1" ; exon_number 3 ; gene_id "AC092123.1--ANKRD11^ANKRD11^ENSG00000167522.16" ; gene_name ANKRD11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000175548.14" ; havana_transcript "OTTHUMT00000430462.6" ; hgnc_id "HGNC:21316" ; level 2 ; orig_coord_info "chr16,89316933,89317019,-" ; protein_id "ENSP00000301030.4" ; tag basic MANE_Select CCDS ; transcript_id "AC092123.1--ANKRD11^ENST00000301030.10" ; transcript_name "ANKRD11-201" ; transcript_support_level 5 ; transcript_type protein_coding
AC092123.1--ANKRD11 HAVANA mRNA 7032 51903 . + . FI_gene_label "ANKRD11^ENSG00000167522.16" ; ID "AC092123.1--ANKRD11^ENST00000301030.10" ; Parent "AC092123.1--ANKRD11^ANKRD11^ENSG00000167522.16" ; ccdsid "CCDS32513.1" ; exon_id "ENSE00003537320.1" ; exon_number 3 ; gene_id "AC092123.1--ANKRD11^ANKRD11^ENSG00000167522.16" ; gene_name ANKRD11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000175548.14" ; havana_transcript "OTTHUMT00000430462.6" ; hgnc_id "HGNC:21316" ; level 2 ; orig_coord_info "chr16,89316933,89317019,-" ; protein_id "ENSP00000301030.4" ; tag basic MANE_Select CCDS ; transcript_id "AC092123.1--ANKRD11^ENST00000301030.10" ; transcript_name "ANKRD11-201" ; 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:
ARHGEF35-AS1--ARHGEF35 HAVANA gene 22872 26480 . + . FI_gene_label "ARHGEF35^ENSG00000213214.5" ; ID "ARHGEF35-AS1--ARHGEF35^ARHGEF35^ENSG00000213214.5" ; ccdsid "CCDS34770.1" ; exon_id "ENSE00001476332.3" ; exon_number 2 ; gene_id "ARHGEF35-AS1--ARHGEF35^ARHGEF35^ENSG00000213214.5" ; gene_name ARHGEF35 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158010.1" ; havana_transcript "OTTHUMT00000349997.1" ; hgnc_id "HGNC:33846" ; level 2 ; orig_coord_info "chr7,144186932,144188383,-" ; protein_id "ENSP00000367355.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARHGEF35-AS1--ARHGEF35^ENST00000378115.3" ; transcript_name "ARHGEF35-201" ; transcript_support_level 1 ; transcript_type protein_coding
ARHGEF35-AS1--ARHGEF35 HAVANA mRNA 22872 26480 . + . FI_gene_label "ARHGEF35^ENSG00000213214.5" ; ID "ARHGEF35-AS1--ARHGEF35^ENST00000378115.3" ; Parent "ARHGEF35-AS1--ARHGEF35^ARHGEF35^ENSG00000213214.5" ; ccdsid "CCDS34770.1" ; exon_id "ENSE00001476332.3" ; exon_number 2 ; gene_id "ARHGEF35-AS1--ARHGEF35^ARHGEF35^ENSG00000213214.5" ; gene_name ARHGEF35 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158010.1" ; havana_transcript "OTTHUMT00000349997.1" ; hgnc_id "HGNC:33846" ; level 2 ; orig_coord_info "chr7,144186932,144188383,-" ; protein_id "ENSP00000367355.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARHGEF35-AS1--ARHGEF35^ENST00000378115.3" ; transcript_name "ARHGEF35-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CACNB2--RFX3-AS1 HAVANA gene 1535 29886 . + . FI_gene_label "CACNB2^ENSG00000165995.22" ; ID "CACNB2--RFX3-AS1^CACNB2^ENSG00000165995.22" ; ccdsid "CCDS7127.1" ; exon_id "ENSE00001563168.1" ; exon_number 1 ; gene_id "CACNB2--RFX3-AS1^CACNB2^ENSG00000165995.22" ; gene_name CACNB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017764.9" ; havana_transcript "OTTHUMT00000047073.2" ; hgnc_id "HGNC:1402" ; level 2 ; orig_coord_info "chr10,18141180,18141215,+" ; protein_id "ENSP00000282343.8" ; tag basic CCDS ; transcript_id "CACNB2--RFX3-AS1^ENST00000282343.13" ; transcript_name "CACNB2-201" ; transcript_support_level 1 ; transcript_type protein_coding
CACNB2--RFX3-AS1 HAVANA mRNA 1535 29886 . + . FI_gene_label "CACNB2^ENSG00000165995.22" ; ID "CACNB2--RFX3-AS1^ENST00000282343.13" ; Parent "CACNB2--RFX3-AS1^CACNB2^ENSG00000165995.22" ; ccdsid "CCDS7127.1" ; exon_id "ENSE00001563168.1" ; exon_number 1 ; gene_id "CACNB2--RFX3-AS1^CACNB2^ENSG00000165995.22" ; gene_name CACNB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017764.9" ; havana_transcript "OTTHUMT00000047073.2" ; hgnc_id "HGNC:1402" ; level 2 ; orig_coord_info "chr10,18141180,18141215,+" ; protein_id "ENSP00000282343.8" ; tag basic CCDS ; transcript_id "CACNB2--RFX3-AS1^ENST00000282343.13" ; transcript_name "CACNB2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COX16--ADAM20 HAVANA gene 11090 14873 . + . FI_gene_label "ADAM20^ENSG00000134007.5" ; ID "COX16--ADAM20^ADAM20^ENSG00000134007.5" ; exon_id "ENSE00000911696.5" ; exon_number 2 ; gene_id "COX16--ADAM20^ADAM20^ENSG00000134007.5" ; gene_name ADAM20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167548.4" ; havana_transcript "OTTHUMT00000395004.4" ; hgnc_id "HGNC:199" ; level 2 ; orig_coord_info "chr14,70522580,70524757,-" ; protein_id "ENSP00000256389.3" ; tag upstream_ATG basic MANE_Select appris_principal_4 ; transcript_id "COX16--ADAM20^ENST00000256389.5" ; transcript_name "ADAM20-201" ; transcript_support_level 1 ; transcript_type protein_coding
COX16--ADAM20 HAVANA mRNA 11090 14873 . + . FI_gene_label "ADAM20^ENSG00000134007.5" ; ID "COX16--ADAM20^ENST00000256389.5" ; Parent "COX16--ADAM20^ADAM20^ENSG00000134007.5" ; exon_id "ENSE00000911696.5" ; exon_number 2 ; gene_id "COX16--ADAM20^ADAM20^ENSG00000134007.5" ; gene_name ADAM20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167548.4" ; havana_transcript "OTTHUMT00000395004.4" ; hgnc_id "HGNC:199" ; level 2 ; orig_coord_info "chr14,70522580,70524757,-" ; protein_id "ENSP00000256389.3" ; tag upstream_ATG basic MANE_Select appris_principal_4 ; transcript_id "COX16--ADAM20^ENST00000256389.5" ; transcript_name "ADAM20-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COX16--ADAM20 HAVANA gene 2103 8078 . + . FI_gene_label "COX16^ENSG00000133983.16" ; ID "COX16--ADAM20^COX16^ENSG00000133983.16" ; ccdsid "CCDS9802.1" ; exon_id "ENSE00001518105.5" ; exon_number 1 ; gene_id "COX16--ADAM20^COX16^ENSG00000133983.16" ; gene_name COX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000171238.5" ; havana_transcript "OTTHUMT00000412470.3" ; hgnc_id "HGNC:20213" ; level 2 ; orig_coord_info "chr14,70359519,70359587,-" ; protein_id "ENSP00000374562.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COX16--ADAM20^ENST00000389912.7" ; transcript_name "COX16-201" ; transcript_support_level 1 ; transcript_type protein_coding
COX16--ADAM20 HAVANA mRNA 2103 8078 . + . FI_gene_label "COX16^ENSG00000133983.16" ; ID "COX16--ADAM20^ENST00000389912.7" ; Parent "COX16--ADAM20^COX16^ENSG00000133983.16" ; ccdsid "CCDS9802.1" ; exon_id "ENSE00001518105.5" ; exon_number 1 ; gene_id "COX16--ADAM20^COX16^ENSG00000133983.16" ; gene_name COX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000171238.5" ; havana_transcript "OTTHUMT00000412470.3" ; hgnc_id "HGNC:20213" ; level 2 ; orig_coord_info "chr14,70359519,70359587,-" ; protein_id "ENSP00000374562.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COX16--ADAM20^ENST00000389912.7" ; transcript_name "COX16-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COX16--ADAM20P1 HAVANA gene 2103 8078 . + . FI_gene_label "COX16^ENSG00000133983.16" ; ID "COX16--ADAM20P1^COX16^ENSG00000133983.16" ; ccdsid "CCDS9802.1" ; exon_id "ENSE00001518105.5" ; exon_number 1 ; gene_id "COX16--ADAM20P1^COX16^ENSG00000133983.16" ; gene_name COX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000171238.5" ; havana_transcript "OTTHUMT00000412470.3" ; hgnc_id "HGNC:20213" ; level 2 ; orig_coord_info "chr14,70359519,70359587,-" ; protein_id "ENSP00000374562.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COX16--ADAM20P1^ENST00000389912.7" ; transcript_name "COX16-201" ; transcript_support_level 1 ; transcript_type protein_coding
COX16--ADAM20P1 HAVANA mRNA 2103 8078 . + . FI_gene_label "COX16^ENSG00000133983.16" ; ID "COX16--ADAM20P1^ENST00000389912.7" ; Parent "COX16--ADAM20P1^COX16^ENSG00000133983.16" ; ccdsid "CCDS9802.1" ; exon_id "ENSE00001518105.5" ; exon_number 1 ; gene_id "COX16--ADAM20P1^COX16^ENSG00000133983.16" ; gene_name COX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000171238.5" ; havana_transcript "OTTHUMT00000412470.3" ; hgnc_id "HGNC:20213" ; level 2 ; orig_coord_info "chr14,70359519,70359587,-" ; protein_id "ENSP00000374562.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COX16--ADAM20P1^ENST00000389912.7" ; transcript_name "COX16-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CSTF3--RAD23B HAVANA gene 1892 22999 . + . FI_gene_label "CSTF3^ENSG00000176102.13" ; ID "CSTF3--RAD23B^CSTF3^ENSG00000176102.13" ; ccdsid "CCDS7883.1" ; exon_id "ENSE00002157535.2" ; exon_number 1 ; gene_id "CSTF3--RAD23B^CSTF3^ENSG00000176102.13" ; gene_name CSTF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166268.5" ; havana_transcript "OTTHUMT00000388801.2" ; hgnc_id "HGNC:2485" ; level 2 ; orig_coord_info "chr11,33161299,33161325,-" ; protein_id "ENSP00000315791.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CSTF3--RAD23B^ENST00000323959.9" ; transcript_name "CSTF3-201" ; transcript_support_level 1 ; transcript_type protein_coding
CSTF3--RAD23B HAVANA mRNA 1892 22999 . + . FI_gene_label "CSTF3^ENSG00000176102.13" ; ID "CSTF3--RAD23B^ENST00000323959.9" ; Parent "CSTF3--RAD23B^CSTF3^ENSG00000176102.13" ; ccdsid "CCDS7883.1" ; exon_id "ENSE00002157535.2" ; exon_number 1 ; gene_id "CSTF3--RAD23B^CSTF3^ENSG00000176102.13" ; gene_name CSTF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166268.5" ; havana_transcript "OTTHUMT00000388801.2" ; hgnc_id "HGNC:2485" ; level 2 ; orig_coord_info "chr11,33161299,33161325,-" ; protein_id "ENSP00000315791.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CSTF3--RAD23B^ENST00000323959.9" ; transcript_name "CSTF3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CSTF3--RAD23B HAVANA gene 27405 41552 . + . FI_gene_label "RAD23B^ENSG00000119318.13" ; ID "CSTF3--RAD23B^RAD23B^ENSG00000119318.13" ; ccdsid "CCDS6769.1" ; exon_id "ENSE00001861528.1" ; exon_number 1 ; gene_id "CSTF3--RAD23B^RAD23B^ENSG00000119318.13" ; gene_name RAD23B ; gene_type protein_coding ; havana_gene "OTTHUMG00000020446.3" ; havana_transcript "OTTHUMT00000053548.2" ; hgnc_id "HGNC:9813" ; level 2 ; orig_coord_info "chr9,107283630,107283695,+" ; protein_id "ENSP00000350708.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CSTF3--RAD23B^ENST00000358015.8" ; transcript_name "RAD23B-201" ; transcript_support_level 1 ; transcript_type protein_coding
CSTF3--RAD23B HAVANA mRNA 27405 41552 . + . FI_gene_label "RAD23B^ENSG00000119318.13" ; ID "CSTF3--RAD23B^ENST00000358015.8" ; Parent "CSTF3--RAD23B^RAD23B^ENSG00000119318.13" ; ccdsid "CCDS6769.1" ; exon_id "ENSE00001861528.1" ; exon_number 1 ; gene_id "CSTF3--RAD23B^RAD23B^ENSG00000119318.13" ; gene_name RAD23B ; gene_type protein_coding ; havana_gene "OTTHUMG00000020446.3" ; havana_transcript "OTTHUMT00000053548.2" ; hgnc_id "HGNC:9813" ; level 2 ; orig_coord_info "chr9,107283630,107283695,+" ; protein_id "ENSP00000350708.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CSTF3--RAD23B^ENST00000358015.8" ; transcript_name "RAD23B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ETV6--LINC01252 HAVANA gene 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--LINC01252^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--LINC01252^ETV6^ENSG00000139083.11" ; gene_name ETV6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168538.3" ; havana_transcript "OTTHUMT00000400134.1" ; hgnc_id "HGNC:3495" ; level 2 ; orig_coord_info "chr12,11885937,11886026,+" ; protein_id "ENSP00000266427.3" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ETV6--LINC01252^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
ETV6--LINC01252 HAVANA mRNA 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--LINC01252^ENST00000266427.3" ; Parent "ETV6--LINC01252^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--LINC01252^ETV6^ENSG00000139083.11" ; gene_name ETV6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168538.3" ; havana_transcript "OTTHUMT00000400134.1" ; hgnc_id "HGNC:3495" ; level 2 ; orig_coord_info "chr12,11885937,11886026,+" ; protein_id "ENSP00000266427.3" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ETV6--LINC01252^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
GCLC--ABBA01045074.1 HAVANA gene 5023 15840 . + . FI_gene_label "GCLC^ENSG00000001084.13" ; ID "GCLC--ABBA01045074.1^GCLC^ENSG00000001084.13" ; exon_id "ENSE00002021972.1" ; exon_number 1 ; gene_id "GCLC--ABBA01045074.1^GCLC^ENSG00000001084.13" ; gene_name GCLC ; gene_type protein_coding ; havana_gene "OTTHUMG00000160220.13" ; havana_transcript "OTTHUMT00000359953.1" ; hgnc_id "HGNC:4311" ; level 2 ; orig_coord_info "chr6,53544496,53544645,-" ; protein_id "ENSP00000421228.1" ; transcript_id "GCLC--ABBA01045074.1^ENST00000504525.1" ; transcript_name "GCLC-202" ; transcript_support_level 3 ; transcript_type nonsense_mediated_decay
GCLC--ABBA01045074.1 HAVANA mRNA 5023 15840 . + . FI_gene_label "GCLC^ENSG00000001084.13" ; ID "GCLC--ABBA01045074.1^ENST00000504525.1" ; Parent "GCLC--ABBA01045074.1^GCLC^ENSG00000001084.13" ; exon_id "ENSE00002021972.1" ; exon_number 1 ; gene_id "GCLC--ABBA01045074.1^GCLC^ENSG00000001084.13" ; gene_name GCLC ; gene_type protein_coding ; havana_gene "OTTHUMG00000160220.13" ; havana_transcript "OTTHUMT00000359953.1" ; hgnc_id "HGNC:4311" ; level 2 ; orig_coord_info "chr6,53544496,53544645,-" ; protein_id "ENSP00000421228.1" ; transcript_id "GCLC--ABBA01045074.1^ENST00000504525.1" ; transcript_name "GCLC-202" ; transcript_support_level 3 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
GCLC--BX088702.1 HAVANA gene 5023 15840 . + . FI_gene_label "GCLC^ENSG00000001084.13" ; ID "GCLC--BX088702.1^GCLC^ENSG00000001084.13" ; exon_id "ENSE00002021972.1" ; exon_number 1 ; gene_id "GCLC--BX088702.1^GCLC^ENSG00000001084.13" ; gene_name GCLC ; gene_type protein_coding ; havana_gene "OTTHUMG00000160220.13" ; havana_transcript "OTTHUMT00000359953.1" ; hgnc_id "HGNC:4311" ; level 2 ; orig_coord_info "chr6,53544496,53544645,-" ; protein_id "ENSP00000421228.1" ; transcript_id "GCLC--BX088702.1^ENST00000504525.1" ; transcript_name "GCLC-202" ; transcript_support_level 3 ; transcript_type nonsense_mediated_decay
GCLC--BX088702.1 HAVANA mRNA 5023 15840 . + . FI_gene_label "GCLC^ENSG00000001084.13" ; ID "GCLC--BX088702.1^ENST00000504525.1" ; Parent "GCLC--BX088702.1^GCLC^ENSG00000001084.13" ; exon_id "ENSE00002021972.1" ; exon_number 1 ; gene_id "GCLC--BX088702.1^GCLC^ENSG00000001084.13" ; gene_name GCLC ; gene_type protein_coding ; havana_gene "OTTHUMG00000160220.13" ; havana_transcript "OTTHUMT00000359953.1" ; hgnc_id "HGNC:4311" ; level 2 ; orig_coord_info "chr6,53544496,53544645,-" ; protein_id "ENSP00000421228.1" ; transcript_id "GCLC--BX088702.1^ENST00000504525.1" ; transcript_name "GCLC-202" ; transcript_support_level 3 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
GDA--CD24 ENSEMBL gene 2240 24983 . + . FI_gene_label "GDA^ENSG00000119125.17" ; ID "GDA--CD24^GDA^ENSG00000119125.17" ; ccdsid "CCDS56576.1" ; exon_id "ENSE00002176037.2" ; exon_number 1 ; gene_id "GDA--CD24^GDA^ENSG00000119125.17" ; gene_name GDA ; gene_type protein_coding ; havana_gene "OTTHUMG00000020005.4" ; hgnc_id "HGNC:4212" ; level 3 ; orig_coord_info "chr9,72149560,72149682,+" ; protein_id "ENSP00000238018.4" ; tag basic CCDS ; transcript_id "GDA--CD24^ENST00000238018.8" ; transcript_name "GDA-201" ; transcript_support_level 1 ; transcript_type protein_coding
GDA--CD24 ENSEMBL mRNA 2240 24983 . + . FI_gene_label "GDA^ENSG00000119125.17" ; ID "GDA--CD24^ENST00000238018.8" ; Parent "GDA--CD24^GDA^ENSG00000119125.17" ; ccdsid "CCDS56576.1" ; exon_id "ENSE00002176037.2" ; exon_number 1 ; gene_id "GDA--CD24^GDA^ENSG00000119125.17" ; gene_name GDA ; gene_type protein_coding ; havana_gene "OTTHUMG00000020005.4" ; hgnc_id "HGNC:4212" ; level 3 ; orig_coord_info "chr9,72149560,72149682,+" ; protein_id "ENSP00000238018.4" ; tag basic CCDS ; transcript_id "GDA--CD24^ENST00000238018.8" ; transcript_name "GDA-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GDA--CD24 HAVANA gene 31408 35754 . + . FI_gene_label "CD24^ENSG00000272398.6" ; ID "GDA--CD24^CD24^ENSG00000272398.6" ; ccdsid "CCDS75499.1" ; exon_id "ENSE00003696480.2" ; exon_number 1 ; gene_id "GDA--CD24^CD24^ENSG00000272398.6" ; gene_name CD24 ; gene_type protein_coding ; havana_gene "OTTHUMG00000188439.3" ; havana_transcript "OTTHUMT00000504375.2" ; hgnc_id "HGNC:1645" ; level 2 ; orig_coord_info "chr6,106974578,106974646,-" ; protein_id "ENSP00000475625.1" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "GDA--CD24^ENST00000606017.2" ; transcript_name "CD24-201" ; transcript_support_level 1 ; transcript_type protein_coding
GDA--CD24 HAVANA mRNA 31408 35754 . + . FI_gene_label "CD24^ENSG00000272398.6" ; ID "GDA--CD24^ENST00000606017.2" ; Parent "GDA--CD24^CD24^ENSG00000272398.6" ; ccdsid "CCDS75499.1" ; exon_id "ENSE00003696480.2" ; exon_number 1 ; gene_id "GDA--CD24^CD24^ENSG00000272398.6" ; gene_name CD24 ; gene_type protein_coding ; havana_gene "OTTHUMG00000188439.3" ; havana_transcript "OTTHUMT00000504375.2" ; hgnc_id "HGNC:1645" ; level 2 ; orig_coord_info "chr6,106974578,106974646,-" ; protein_id "ENSP00000475625.1" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "GDA--CD24^ENST00000606017.2" ; transcript_name "CD24-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GTF3C1--FBH1 HAVANA gene 1001 39419 . + . FI_gene_label "GTF3C1^ENSG00000077235.18" ; ID "GTF3C1--FBH1^GTF3C1^ENSG00000077235.18" ; ccdsid "CCDS32414.1" ; exon_id "ENSE00002592016.1" ; exon_number 1 ; gene_id "GTF3C1--FBH1^GTF3C1^ENSG00000077235.18" ; gene_name GTF3C1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000176805.8" ; havana_transcript "OTTHUMT00000433856.1" ; hgnc_id "HGNC:4664" ; level 2 ; orig_coord_info "chr16,27549670,27549890,-" ; protein_id "ENSP00000348510.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "GTF3C1--FBH1^ENST00000356183.9" ; transcript_name "GTF3C1-201" ; transcript_support_level 1 ; transcript_type protein_coding
GTF3C1--FBH1 HAVANA mRNA 1001 39419 . + . FI_gene_label "GTF3C1^ENSG00000077235.18" ; ID "GTF3C1--FBH1^ENST00000356183.9" ; Parent "GTF3C1--FBH1^GTF3C1^ENSG00000077235.18" ; ccdsid "CCDS32414.1" ; exon_id "ENSE00002592016.1" ; exon_number 1 ; gene_id "GTF3C1--FBH1^GTF3C1^ENSG00000077235.18" ; gene_name GTF3C1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000176805.8" ; havana_transcript "OTTHUMT00000433856.1" ; hgnc_id "HGNC:4664" ; level 2 ; orig_coord_info "chr16,27549670,27549890,-" ; protein_id "ENSP00000348510.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "GTF3C1--FBH1^ENST00000356183.9" ; transcript_name "GTF3C1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GTF3C1--FBH1 HAVANA gene 43518 67912 . + . FI_gene_label "FBH1^ENSG00000134452.20" ; ID "GTF3C1--FBH1^FBH1^ENSG00000134452.20" ; ccdsid "CCDS7072.1" ; exon_id "ENSE00002725711.2" ; exon_number 1 ; gene_id "GTF3C1--FBH1^FBH1^ENSG00000134452.20" ; gene_name FBH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017609.5" ; havana_transcript "OTTHUMT00000046596.1" ; hgnc_id "HGNC:13620" ; level 2 ; orig_coord_info "chr10,5890346,5890346,+" ; protein_id "ENSP00000355415.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "GTF3C1--FBH1^ENST00000362091.9" ; transcript_name "FBH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
GTF3C1--FBH1 HAVANA mRNA 43518 67912 . + . FI_gene_label "FBH1^ENSG00000134452.20" ; ID "GTF3C1--FBH1^ENST00000362091.9" ; Parent "GTF3C1--FBH1^FBH1^ENSG00000134452.20" ; ccdsid "CCDS7072.1" ; exon_id "ENSE00002725711.2" ; exon_number 1 ; gene_id "GTF3C1--FBH1^FBH1^ENSG00000134452.20" ; gene_name FBH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017609.5" ; havana_transcript "OTTHUMT00000046596.1" ; hgnc_id "HGNC:13620" ; level 2 ; orig_coord_info "chr10,5890346,5890346,+" ; protein_id "ENSP00000355415.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "GTF3C1--FBH1^ENST00000362091.9" ; transcript_name "FBH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KALRN--CDV3 HAVANA gene 3729 51943 . + . FI_gene_label "KALRN^ENSG00000160145.15" ; ID "KALRN--CDV3^KALRN^ENSG00000160145.15" ; ccdsid "CCDS3027.1" ; exon_id "ENSE00001813225.1" ; exon_number 1 ; gene_id "KALRN--CDV3^KALRN^ENSG00000160145.15" ; gene_name KALRN ; gene_type protein_coding ; havana_gene "OTTHUMG00000125545.14" ; havana_transcript "OTTHUMT00000258843.4" ; hgnc_id "HGNC:4814" ; level 2 ; orig_coord_info "chr3,124094838,124094904,+" ; protein_id "ENSP00000240874.3" ; tag basic CCDS ; transcript_id "KALRN--CDV3^ENST00000240874.7" ; transcript_name "KALRN-201" ; transcript_support_level 1 ; transcript_type protein_coding
KALRN--CDV3 HAVANA mRNA 3729 51943 . + . FI_gene_label "KALRN^ENSG00000160145.15" ; ID "KALRN--CDV3^ENST00000240874.7" ; Parent "KALRN--CDV3^KALRN^ENSG00000160145.15" ; ccdsid "CCDS3027.1" ; exon_id "ENSE00001813225.1" ; exon_number 1 ; gene_id "KALRN--CDV3^KALRN^ENSG00000160145.15" ; gene_name KALRN ; gene_type protein_coding ; havana_gene "OTTHUMG00000125545.14" ; havana_transcript "OTTHUMT00000258843.4" ; hgnc_id "HGNC:4814" ; level 2 ; orig_coord_info "chr3,124094838,124094904,+" ; protein_id "ENSP00000240874.3" ; tag basic CCDS ; transcript_id "KALRN--CDV3^ENST00000240874.7" ; transcript_name "KALRN-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KALRN--CDV3 HAVANA gene 93782 101059 . + . FI_gene_label "CDV3^ENSG00000091527.16" ; ID "KALRN--CDV3^CDV3^ENSG00000091527.16" ; ccdsid "CCDS3079.1" ; exon_id "ENSE00001346369.4" ; exon_number 1 ; gene_id "KALRN--CDV3^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 "KALRN--CDV3^ENST00000264993.8" ; transcript_name "CDV3-201" ; transcript_support_level 1 ; transcript_type protein_coding
KALRN--CDV3 HAVANA mRNA 93782 101059 . + . FI_gene_label "CDV3^ENSG00000091527.16" ; ID "KALRN--CDV3^ENST00000264993.8" ; Parent "KALRN--CDV3^CDV3^ENSG00000091527.16" ; ccdsid "CCDS3079.1" ; exon_id "ENSE00001346369.4" ; exon_number 1 ; gene_id "KALRN--CDV3^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 "KALRN--CDV3^ENST00000264993.8" ; transcript_name "CDV3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KDM2A--AP002498.1 ENSEMBL gene 2823 29156 . + . FI_gene_label "KDM2A^ENSG00000173120.15" ; ID "KDM2A--AP002498.1^KDM2A^ENSG00000173120.15" ; exon_id "ENSE00003741868.1" ; exon_number 3 ; gene_id "KDM2A--AP002498.1^KDM2A^ENSG00000173120.15" ; gene_name KDM2A ; gene_type protein_coding ; havana_gene "OTTHUMG00000167103.3" ; hgnc_id "HGNC:13606" ; level 3 ; orig_coord_info "chr11,67180088,67180217,+" ; protein_id "ENSP00000309302.6" ; tag basic ; transcript_id "KDM2A--AP002498.1^ENST00000308783.9" ; transcript_name "KDM2A-201" ; transcript_support_level 1 ; transcript_type protein_coding
KDM2A--AP002498.1 ENSEMBL mRNA 2823 29156 . + . FI_gene_label "KDM2A^ENSG00000173120.15" ; ID "KDM2A--AP002498.1^ENST00000308783.9" ; Parent "KDM2A--AP002498.1^KDM2A^ENSG00000173120.15" ; exon_id "ENSE00003741868.1" ; exon_number 3 ; gene_id "KDM2A--AP002498.1^KDM2A^ENSG00000173120.15" ; gene_name KDM2A ; gene_type protein_coding ; havana_gene "OTTHUMG00000167103.3" ; hgnc_id "HGNC:13606" ; level 3 ; orig_coord_info "chr11,67180088,67180217,+" ; protein_id "ENSP00000309302.6" ; tag basic ; transcript_id "KDM2A--AP002498.1^ENST00000308783.9" ; transcript_name "KDM2A-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KLRC4--KLRK1 HAVANA gene 7417 15704 . + . FI_gene_label "KLRK1^ENSG00000213809.9" ; ID "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; ccdsid "CCDS8623.1" ; exon_id "ENSE00003640305.1" ; exon_number 2 ; gene_id "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; gene_name KLRK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168574.3" ; havana_transcript "OTTHUMT00000400269.2" ; hgnc_id "HGNC:18788" ; level 2 ; orig_coord_info "chr12,10388771,10388810,-" ; protein_id "ENSP00000240618.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000240618.11" ; transcript_name "KLRK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
KLRC4--KLRK1 HAVANA mRNA 7417 15704 . + . FI_gene_label "KLRK1^ENSG00000213809.9" ; ID "KLRC4--KLRK1^ENST00000240618.11" ; Parent "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; ccdsid "CCDS8623.1" ; exon_id "ENSE00003640305.1" ; exon_number 2 ; gene_id "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; gene_name KLRK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168574.3" ; havana_transcript "OTTHUMT00000400269.2" ; hgnc_id "HGNC:18788" ; level 2 ; orig_coord_info "chr12,10388771,10388810,-" ; protein_id "ENSP00000240618.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000240618.11" ; transcript_name "KLRK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KLRC4--KLRK1 HAVANA gene 1001 3376 . + . FI_gene_label "KLRC4^ENSG00000183542.5" ; ID "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; ccdsid "CCDS8624.1" ; exon_id "ENSE00001145174.1" ; exon_number 1 ; gene_id "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; gene_name KLRC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168575.2" ; havana_transcript "OTTHUMT00000400108.2" ; hgnc_id "HGNC:6377" ; level 2 ; orig_coord_info "chr12,10409389,10409575,-" ; protein_id "ENSP00000310216.1" ; tag basic appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000309384.2" ; transcript_name "KLRC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
KLRC4--KLRK1 HAVANA mRNA 1001 3376 . + . FI_gene_label "KLRC4^ENSG00000183542.5" ; ID "KLRC4--KLRK1^ENST00000309384.2" ; Parent "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; ccdsid "CCDS8624.1" ; exon_id "ENSE00001145174.1" ; exon_number 1 ; gene_id "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; gene_name KLRC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168575.2" ; havana_transcript "OTTHUMT00000400108.2" ; hgnc_id "HGNC:6377" ; level 2 ; orig_coord_info "chr12,10409389,10409575,-" ; protein_id "ENSP00000310216.1" ; tag basic appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000309384.2" ; transcript_name "KLRC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MTND1P17--XKR3 HAVANA gene 4205 8894 . + . FI_gene_label "XKR3^ENSG00000172967.7" ; ID "MTND1P17--XKR3^XKR3^ENSG00000172967.7" ; ccdsid "CCDS42975.1" ; exon_id "ENSE00001303813.1" ; exon_number 2 ; gene_id "MTND1P17--XKR3^XKR3^ENSG00000172967.7" ; gene_name XKR3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000143726.1" ; havana_transcript "OTTHUMT00000289789.1" ; hgnc_id "HGNC:28778" ; level 2 ; orig_coord_info "chr22,16807739,16808073,-" ; protein_id "ENSP00000331704.5" ; tag basic appris_principal_1 CCDS ; transcript_id "MTND1P17--XKR3^ENST00000331428.5" ; transcript_name "XKR3-201" ; transcript_support_level 1 ; transcript_type protein_coding
MTND1P17--XKR3 HAVANA mRNA 4205 8894 . + . FI_gene_label "XKR3^ENSG00000172967.7" ; ID "MTND1P17--XKR3^ENST00000331428.5" ; Parent "MTND1P17--XKR3^XKR3^ENSG00000172967.7" ; ccdsid "CCDS42975.1" ; exon_id "ENSE00001303813.1" ; exon_number 2 ; gene_id "MTND1P17--XKR3^XKR3^ENSG00000172967.7" ; gene_name XKR3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000143726.1" ; havana_transcript "OTTHUMT00000289789.1" ; hgnc_id "HGNC:28778" ; level 2 ; orig_coord_info "chr22,16807739,16808073,-" ; protein_id "ENSP00000331704.5" ; tag basic appris_principal_1 CCDS ; transcript_id "MTND1P17--XKR3^ENST00000331428.5" ; transcript_name "XKR3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NBEA--HNRNPA3P5 HAVANA gene 1001 66546 . + . FI_gene_label "NBEA^ENSG00000172915.19" ; ID "NBEA--HNRNPA3P5^NBEA^ENSG00000172915.19" ; exon_id "ENSE00002704235.2" ; exon_number 1 ; gene_id "NBEA--HNRNPA3P5^NBEA^ENSG00000172915.19" ; gene_name NBEA ; gene_type protein_coding ; havana_gene "OTTHUMG00000016724.2" ; hgnc_id "HGNC:7648" ; level 2 ; orig_coord_info "chr13,34942821,34943114,+" ; protein_id "ENSP00000369271.2" ; tag CAGE_supported_TSS inferred_exon_combination RNA_Seq_supported_partial basic MANE_Select ; transcript_id "NBEA--HNRNPA3P5^ENST00000379939.7" ; transcript_name "NBEA-202" ; transcript_support_level 5 ; transcript_type protein_coding
NBEA--HNRNPA3P5 HAVANA mRNA 1001 66546 . + . FI_gene_label "NBEA^ENSG00000172915.19" ; ID "NBEA--HNRNPA3P5^ENST00000379939.7" ; Parent "NBEA--HNRNPA3P5^NBEA^ENSG00000172915.19" ; exon_id "ENSE00002704235.2" ; exon_number 1 ; gene_id "NBEA--HNRNPA3P5^NBEA^ENSG00000172915.19" ; gene_name NBEA ; gene_type protein_coding ; havana_gene "OTTHUMG00000016724.2" ; hgnc_id "HGNC:7648" ; level 2 ; orig_coord_info "chr13,34942821,34943114,+" ; protein_id "ENSP00000369271.2" ; tag CAGE_supported_TSS inferred_exon_combination RNA_Seq_supported_partial basic MANE_Select ; transcript_id "NBEA--HNRNPA3P5^ENST00000379939.7" ; transcript_name "NBEA-202" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
NBEA--STARP1 HAVANA gene 1001 66546 . + . FI_gene_label "NBEA^ENSG00000172915.19" ; ID "NBEA--STARP1^NBEA^ENSG00000172915.19" ; exon_id "ENSE00002704235.2" ; exon_number 1 ; gene_id "NBEA--STARP1^NBEA^ENSG00000172915.19" ; gene_name NBEA ; gene_type protein_coding ; havana_gene "OTTHUMG00000016724.2" ; hgnc_id "HGNC:7648" ; level 2 ; orig_coord_info "chr13,34942821,34943114,+" ; protein_id "ENSP00000369271.2" ; tag CAGE_supported_TSS inferred_exon_combination RNA_Seq_supported_partial basic MANE_Select ; transcript_id "NBEA--STARP1^ENST00000379939.7" ; transcript_name "NBEA-202" ; transcript_support_level 5 ; transcript_type protein_coding
NBEA--STARP1 HAVANA mRNA 1001 66546 . + . FI_gene_label "NBEA^ENSG00000172915.19" ; ID "NBEA--STARP1^ENST00000379939.7" ; Parent "NBEA--STARP1^NBEA^ENSG00000172915.19" ; exon_id "ENSE00002704235.2" ; exon_number 1 ; gene_id "NBEA--STARP1^NBEA^ENSG00000172915.19" ; gene_name NBEA ; gene_type protein_coding ; havana_gene "OTTHUMG00000016724.2" ; hgnc_id "HGNC:7648" ; level 2 ; orig_coord_info "chr13,34942821,34943114,+" ; protein_id "ENSP00000369271.2" ; tag CAGE_supported_TSS inferred_exon_combination RNA_Seq_supported_partial basic MANE_Select ; transcript_id "NBEA--STARP1^ENST00000379939.7" ; transcript_name "NBEA-202" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHA13 HAVANA gene 14666 23106 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHA13 HAVANA mRNA 14666 23106 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA4--PCDHA13^ENST00000289272.3" ; Parent "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHA13 ENSEMBL gene 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHA13^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHA13 ENSEMBL mRNA 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHA13^ENST00000378125.4" ; Parent "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHA13^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC1 HAVANA gene 14666 24681 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHAC1 HAVANA mRNA 14666 24681 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA4--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC1 ENSEMBL gene 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC1^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHAC1 ENSEMBL mRNA 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC1^ENST00000378125.4" ; Parent "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC1^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC2 HAVANA gene 14672 25407 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHAC2 HAVANA mRNA 14672 25407 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA4--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC2 ENSEMBL gene 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC2^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHAC2 ENSEMBL mRNA 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC2^ENST00000378125.4" ; Parent "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC2^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PDHX--EHF HAVANA gene 1790 14782 . + . FI_gene_label "PDHX^ENSG00000110435.12" ; ID "PDHX--EHF^PDHX^ENSG00000110435.12" ; ccdsid "CCDS7896.1" ; exon_id "ENSE00000824440.5" ; exon_number 1 ; gene_id "PDHX--EHF^PDHX^ENSG00000110435.12" ; gene_name PDHX ; gene_type protein_coding ; havana_gene "OTTHUMG00000166491.4" ; havana_transcript "OTTHUMT00000390017.2" ; hgnc_id "HGNC:21350" ; level 2 ; orig_coord_info "chr11,34916656,34916815,+" ; protein_id "ENSP00000227868.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDHX--EHF^ENST00000227868.9" ; transcript_name "PDHX-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDHX--EHF HAVANA mRNA 1790 14782 . + . FI_gene_label "PDHX^ENSG00000110435.12" ; ID "PDHX--EHF^ENST00000227868.9" ; Parent "PDHX--EHF^PDHX^ENSG00000110435.12" ; ccdsid "CCDS7896.1" ; exon_id "ENSE00000824440.5" ; exon_number 1 ; gene_id "PDHX--EHF^PDHX^ENSG00000110435.12" ; gene_name PDHX ; gene_type protein_coding ; havana_gene "OTTHUMG00000166491.4" ; havana_transcript "OTTHUMT00000390017.2" ; hgnc_id "HGNC:21350" ; level 2 ; orig_coord_info "chr11,34916656,34916815,+" ; protein_id "ENSP00000227868.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDHX--EHF^ENST00000227868.9" ; transcript_name "PDHX-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDHX--EHF HAVANA gene 19167 35059 . + . FI_gene_label "EHF^ENSG00000135373.13" ; ID "PDHX--EHF^EHF^ENSG00000135373.13" ; ccdsid "CCDS7894.1" ; exon_id "ENSE00003651425.1" ; exon_number 2 ; gene_id "PDHX--EHF^EHF^ENSG00000135373.13" ; gene_name EHF ; gene_type protein_coding ; havana_gene "OTTHUMG00000166454.2" ; havana_transcript "OTTHUMT00000389852.1" ; hgnc_id "HGNC:3246" ; level 2 ; orig_coord_info "chr11,34642631,34642727,+" ; protein_id "ENSP00000257831.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDHX--EHF^ENST00000257831.8" ; transcript_name "EHF-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDHX--EHF HAVANA mRNA 19167 35059 . + . FI_gene_label "EHF^ENSG00000135373.13" ; ID "PDHX--EHF^ENST00000257831.8" ; Parent "PDHX--EHF^EHF^ENSG00000135373.13" ; ccdsid "CCDS7894.1" ; exon_id "ENSE00003651425.1" ; exon_number 2 ; gene_id "PDHX--EHF^EHF^ENSG00000135373.13" ; gene_name EHF ; gene_type protein_coding ; havana_gene "OTTHUMG00000166454.2" ; havana_transcript "OTTHUMT00000389852.1" ; hgnc_id "HGNC:3246" ; level 2 ; orig_coord_info "chr11,34642631,34642727,+" ; protein_id "ENSP00000257831.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDHX--EHF^ENST00000257831.8" ; transcript_name "EHF-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PPP6R2--RPL22 HAVANA gene 2300 24449 . + . FI_gene_label "PPP6R2^ENSG00000100239.16" ; ID "PPP6R2--RPL22^PPP6R2^ENSG00000100239.16" ; exon_id "ENSE00003893516.1" ; exon_number 4 ; gene_id "PPP6R2--RPL22^PPP6R2^ENSG00000100239.16" ; gene_name PPP6R2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150199.6" ; havana_transcript "OTTHUMT00000316809.1" ; hgnc_id "HGNC:19253" ; level 2 ; orig_coord_info "chr22,50393909,50394135,+" ; protein_id "ENSP00000216061.5" ; tag basic appris_alternative_2 ; transcript_id "PPP6R2--RPL22^ENST00000216061.9" ; transcript_name "PPP6R2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PPP6R2--RPL22 HAVANA mRNA 2300 24449 . + . FI_gene_label "PPP6R2^ENSG00000100239.16" ; ID "PPP6R2--RPL22^ENST00000216061.9" ; Parent "PPP6R2--RPL22^PPP6R2^ENSG00000100239.16" ; exon_id "ENSE00003893516.1" ; exon_number 4 ; gene_id "PPP6R2--RPL22^PPP6R2^ENSG00000100239.16" ; gene_name PPP6R2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150199.6" ; havana_transcript "OTTHUMT00000316809.1" ; hgnc_id "HGNC:19253" ; level 2 ; orig_coord_info "chr22,50393909,50394135,+" ; protein_id "ENSP00000216061.5" ; tag basic appris_alternative_2 ; transcript_id "PPP6R2--RPL22^ENST00000216061.9" ; transcript_name "PPP6R2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PPP6R2--RPL22 HAVANA gene 32233 38101 . + . FI_gene_label "RPL22^ENSG00000116251.11" ; ID "PPP6R2--RPL22^RPL22^ENSG00000116251.11" ; ccdsid "CCDS58.1" ; exon_id "ENSE00001064718.5" ; exon_number 1 ; gene_id "PPP6R2--RPL22^RPL22^ENSG00000116251.11" ; gene_name RPL22 ; gene_type protein_coding ; havana_gene "OTTHUMG00000193375.2" ; havana_transcript "OTTHUMT00000002830.2" ; hgnc_id "HGNC:10315" ; level 2 ; orig_coord_info "chr1,6199562,6199573,-" ; protein_id "ENSP00000346088.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPP6R2--RPL22^ENST00000234875.9" ; transcript_name "RPL22-201" ; transcript_support_level 1 ; transcript_type protein_coding
PPP6R2--RPL22 HAVANA mRNA 32233 38101 . + . FI_gene_label "RPL22^ENSG00000116251.11" ; ID "PPP6R2--RPL22^ENST00000234875.9" ; Parent "PPP6R2--RPL22^RPL22^ENSG00000116251.11" ; ccdsid "CCDS58.1" ; exon_id "ENSE00001064718.5" ; exon_number 1 ; gene_id "PPP6R2--RPL22^RPL22^ENSG00000116251.11" ; gene_name RPL22 ; gene_type protein_coding ; havana_gene "OTTHUMG00000193375.2" ; havana_transcript "OTTHUMT00000002830.2" ; hgnc_id "HGNC:10315" ; level 2 ; orig_coord_info "chr1,6199562,6199573,-" ; protein_id "ENSP00000346088.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPP6R2--RPL22^ENST00000234875.9" ; transcript_name "RPL22-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PSMD6--PRICKLE2-AS1 HAVANA gene 1517 12584 . + . FI_gene_label "PSMD6^ENSG00000163636.11" ; ID "PSMD6--PRICKLE2-AS1^PSMD6^ENSG00000163636.11" ; ccdsid "CCDS2901.1" ; exon_id "ENSE00001958661.2" ; exon_number 1 ; gene_id "PSMD6--PRICKLE2-AS1^PSMD6^ENSG00000163636.11" ; gene_name PSMD6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158765.2" ; havana_transcript "OTTHUMT00000352082.1" ; hgnc_id "HGNC:9564" ; level 2 ; orig_coord_info "chr3,64023275,64023419,-" ; protein_id "ENSP00000295901.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PSMD6--PRICKLE2-AS1^ENST00000295901.9" ; transcript_name "PSMD6-201" ; transcript_support_level 1 ; transcript_type protein_coding
PSMD6--PRICKLE2-AS1 HAVANA mRNA 1517 12584 . + . FI_gene_label "PSMD6^ENSG00000163636.11" ; ID "PSMD6--PRICKLE2-AS1^ENST00000295901.9" ; Parent "PSMD6--PRICKLE2-AS1^PSMD6^ENSG00000163636.11" ; ccdsid "CCDS2901.1" ; exon_id "ENSE00001958661.2" ; exon_number 1 ; gene_id "PSMD6--PRICKLE2-AS1^PSMD6^ENSG00000163636.11" ; gene_name PSMD6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158765.2" ; havana_transcript "OTTHUMT00000352082.1" ; hgnc_id "HGNC:9564" ; level 2 ; orig_coord_info "chr3,64023275,64023419,-" ; protein_id "ENSP00000295901.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PSMD6--PRICKLE2-AS1^ENST00000295901.9" ; transcript_name "PSMD6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RIC1--GLDC HAVANA gene 1001 25077 . + . FI_gene_label "RIC1^ENSG00000107036.12" ; ID "RIC1--GLDC^RIC1^ENSG00000107036.12" ; ccdsid "CCDS47949.2" ; exon_id "ENSE00001626901.2" ; exon_number 1 ; gene_id "RIC1--GLDC^RIC1^ENSG00000107036.12" ; gene_name RIC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019505.5" ; havana_transcript "OTTHUMT00000051635.3" ; hgnc_id "HGNC:17686" ; level 2 ; orig_coord_info "chr9,5629310,5629453,+" ; protein_id "ENSP00000251879.6" ; tag basic CCDS ; transcript_id "RIC1--GLDC^ENST00000251879.10" ; transcript_name "RIC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
RIC1--GLDC HAVANA mRNA 1001 25077 . + . FI_gene_label "RIC1^ENSG00000107036.12" ; ID "RIC1--GLDC^ENST00000251879.10" ; Parent "RIC1--GLDC^RIC1^ENSG00000107036.12" ; ccdsid "CCDS47949.2" ; exon_id "ENSE00001626901.2" ; exon_number 1 ; gene_id "RIC1--GLDC^RIC1^ENSG00000107036.12" ; gene_name RIC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019505.5" ; havana_transcript "OTTHUMT00000051635.3" ; hgnc_id "HGNC:17686" ; level 2 ; orig_coord_info "chr9,5629310,5629453,+" ; protein_id "ENSP00000251879.6" ; tag basic CCDS ; transcript_id "RIC1--GLDC^ENST00000251879.10" ; transcript_name "RIC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RIC1--GLDC HAVANA gene 33676 67248 . + . FI_gene_label "GLDC^ENSG00000178445.10" ; ID "RIC1--GLDC^GLDC^ENSG00000178445.10" ; ccdsid "CCDS34987.1" ; exon_id "ENSE00001529698.4" ; exon_number 1 ; gene_id "RIC1--GLDC^GLDC^ENSG00000178445.10" ; gene_name GLDC ; gene_type protein_coding ; havana_gene "OTTHUMG00000019524.4" ; havana_transcript "OTTHUMT00000051674.3" ; hgnc_id "HGNC:4313" ; level 2 ; orig_coord_info "chr9,6645245,6645499,-" ; protein_id "ENSP00000370737.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RIC1--GLDC^ENST00000321612.8" ; transcript_name "GLDC-201" ; transcript_support_level 1 ; transcript_type protein_coding
RIC1--GLDC HAVANA mRNA 33676 67248 . + . FI_gene_label "GLDC^ENSG00000178445.10" ; ID "RIC1--GLDC^ENST00000321612.8" ; Parent "RIC1--GLDC^GLDC^ENSG00000178445.10" ; ccdsid "CCDS34987.1" ; exon_id "ENSE00001529698.4" ; exon_number 1 ; gene_id "RIC1--GLDC^GLDC^ENSG00000178445.10" ; gene_name GLDC ; gene_type protein_coding ; havana_gene "OTTHUMG00000019524.4" ; havana_transcript "OTTHUMT00000051674.3" ; hgnc_id "HGNC:4313" ; level 2 ; orig_coord_info "chr9,6645245,6645499,-" ; protein_id "ENSP00000370737.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RIC1--GLDC^ENST00000321612.8" ; transcript_name "GLDC-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ROPN1--CDV3 HAVANA gene 1827 11558 . + . FI_gene_label "ROPN1^ENSG00000065371.17" ; ID "ROPN1--CDV3^ROPN1^ENSG00000065371.17" ; ccdsid "CCDS3026.1" ; exon_id "ENSE00001212442.7" ; exon_number 3 ; gene_id "ROPN1--CDV3^ROPN1^ENSG00000065371.17" ; gene_name ROPN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159556.9" ; havana_transcript "OTTHUMT00000356188.2" ; hgnc_id "HGNC:17692" ; level 2 ; orig_coord_info "chr3,123980366,123980481,-" ; protein_id "ENSP00000184183.4" ; tag basic appris_principal_1 CCDS ; transcript_id "ROPN1--CDV3^ENST00000184183.8" ; transcript_name "ROPN1-201" ; transcript_support_level 1 ; transcript_type protein_coding
ROPN1--CDV3 HAVANA mRNA 1827 11558 . + . FI_gene_label "ROPN1^ENSG00000065371.17" ; ID "ROPN1--CDV3^ENST00000184183.8" ; Parent "ROPN1--CDV3^ROPN1^ENSG00000065371.17" ; ccdsid "CCDS3026.1" ; exon_id "ENSE00001212442.7" ; exon_number 3 ; gene_id "ROPN1--CDV3^ROPN1^ENSG00000065371.17" ; gene_name ROPN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159556.9" ; havana_transcript "OTTHUMT00000356188.2" ; hgnc_id "HGNC:17692" ; level 2 ; orig_coord_info "chr3,123980366,123980481,-" ; protein_id "ENSP00000184183.4" ; tag basic appris_principal_1 CCDS ; transcript_id "ROPN1--CDV3^ENST00000184183.8" ; transcript_name "ROPN1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ROPN1--CDV3 HAVANA gene 14559 21836 . + . FI_gene_label "CDV3^ENSG00000091527.16" ; ID "ROPN1--CDV3^CDV3^ENSG00000091527.16" ; ccdsid "CCDS3079.1" ; exon_id "ENSE00001346369.4" ; exon_number 1 ; gene_id "ROPN1--CDV3^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 "ROPN1--CDV3^ENST00000264993.8" ; transcript_name "CDV3-201" ; transcript_support_level 1 ; transcript_type protein_coding
ROPN1--CDV3 HAVANA mRNA 14559 21836 . + . FI_gene_label "CDV3^ENSG00000091527.16" ; ID "ROPN1--CDV3^ENST00000264993.8" ; Parent "ROPN1--CDV3^CDV3^ENSG00000091527.16" ; ccdsid "CCDS3079.1" ; exon_id "ENSE00001346369.4" ; exon_number 1 ; gene_id "ROPN1--CDV3^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 "ROPN1--CDV3^ENST00000264993.8" ; transcript_name "CDV3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SHQ1--TBC1D5 HAVANA gene 25107 72668 . + . FI_gene_label "TBC1D5^ENSG00000131374.14" ; ID "SHQ1--TBC1D5^TBC1D5^ENSG00000131374.14" ; ccdsid "CCDS33714.1" ; exon_id "ENSE00003799360.1" ; exon_number 3 ; gene_id "SHQ1--TBC1D5^TBC1D5^ENSG00000131374.14" ; gene_name TBC1D5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155488.20" ; havana_transcript "OTTHUMT00000340301.3" ; hgnc_id "HGNC:19166" ; level 2 ; orig_coord_info "chr3,17508474,17508570,-" ; protein_id "ENSP00000253692.6" ; tag basic appris_principal_4 CCDS ; transcript_id "SHQ1--TBC1D5^ENST00000253692.11" ; transcript_name "TBC1D5-201" ; transcript_support_level 1 ; transcript_type protein_coding
SHQ1--TBC1D5 HAVANA mRNA 25107 72668 . + . FI_gene_label "TBC1D5^ENSG00000131374.14" ; ID "SHQ1--TBC1D5^ENST00000253692.11" ; Parent "SHQ1--TBC1D5^TBC1D5^ENSG00000131374.14" ; ccdsid "CCDS33714.1" ; exon_id "ENSE00003799360.1" ; exon_number 3 ; gene_id "SHQ1--TBC1D5^TBC1D5^ENSG00000131374.14" ; gene_name TBC1D5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155488.20" ; havana_transcript "OTTHUMT00000340301.3" ; hgnc_id "HGNC:19166" ; level 2 ; orig_coord_info "chr3,17508474,17508570,-" ; protein_id "ENSP00000253692.6" ; tag basic appris_principal_4 CCDS ; transcript_id "SHQ1--TBC1D5^ENST00000253692.11" ; transcript_name "TBC1D5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SHQ1--TBC1D5 HAVANA gene 2074 20838 . + . FI_gene_label "SHQ1^ENSG00000144736.14" ; ID "SHQ1--TBC1D5^SHQ1^ENSG00000144736.14" ; ccdsid "CCDS33788.1" ; exon_id "ENSE00001951098.2" ; exon_number 1 ; gene_id "SHQ1--TBC1D5^SHQ1^ENSG00000144736.14" ; gene_name SHQ1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158814.3" ; havana_transcript "OTTHUMT00000352310.2" ; hgnc_id "HGNC:25543" ; level 2 ; orig_coord_info "chr3,72848198,72848340,-" ; protein_id "ENSP00000315182.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SHQ1--TBC1D5^ENST00000325599.13" ; transcript_name "SHQ1-201" ; transcript_support_level 1 ; transcript_type protein_coding
SHQ1--TBC1D5 HAVANA mRNA 2074 20838 . + . FI_gene_label "SHQ1^ENSG00000144736.14" ; ID "SHQ1--TBC1D5^ENST00000325599.13" ; Parent "SHQ1--TBC1D5^SHQ1^ENSG00000144736.14" ; ccdsid "CCDS33788.1" ; exon_id "ENSE00001951098.2" ; exon_number 1 ; gene_id "SHQ1--TBC1D5^SHQ1^ENSG00000144736.14" ; gene_name SHQ1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158814.3" ; havana_transcript "OTTHUMT00000352310.2" ; hgnc_id "HGNC:25543" ; level 2 ; orig_coord_info "chr3,72848198,72848340,-" ; protein_id "ENSP00000315182.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SHQ1--TBC1D5^ENST00000325599.13" ; transcript_name "SHQ1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SOGA1--DSN1 HAVANA gene 1001 30474 . + . FI_gene_label "SOGA1^ENSG00000149639.15" ; ID "SOGA1--DSN1^SOGA1^ENSG00000149639.15" ; ccdsid "CCDS54459.1" ; exon_id "ENSE00000800452.3" ; exon_number 1 ; gene_id "SOGA1--DSN1^SOGA1^ENSG00000149639.15" ; gene_name SOGA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032395.8" ; havana_transcript "OTTHUMT00000276635.2" ; hgnc_id "HGNC:16111" ; level 1 ; orig_coord_info "chr20,36862658,36863344,-" ; protein_id "ENSP00000237536.4" ; tag basic MANE_Select appris_principal_2 exp_conf CCDS ; transcript_id "SOGA1--DSN1^ENST00000237536.9" ; transcript_name "SOGA1-201" ; transcript_support_level 5 ; transcript_type protein_coding
SOGA1--DSN1 HAVANA mRNA 1001 30474 . + . FI_gene_label "SOGA1^ENSG00000149639.15" ; ID "SOGA1--DSN1^ENST00000237536.9" ; Parent "SOGA1--DSN1^SOGA1^ENSG00000149639.15" ; ccdsid "CCDS54459.1" ; exon_id "ENSE00000800452.3" ; exon_number 1 ; gene_id "SOGA1--DSN1^SOGA1^ENSG00000149639.15" ; gene_name SOGA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032395.8" ; havana_transcript "OTTHUMT00000276635.2" ; hgnc_id "HGNC:16111" ; level 1 ; orig_coord_info "chr20,36862658,36863344,-" ; protein_id "ENSP00000237536.4" ; tag basic MANE_Select appris_principal_2 exp_conf CCDS ; transcript_id "SOGA1--DSN1^ENST00000237536.9" ; transcript_name "SOGA1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
SOGA1--DSN1 HAVANA gene 33475 44436 . + . FI_gene_label "DSN1^ENSG00000149636.16" ; ID "SOGA1--DSN1^DSN1^ENSG00000149636.16" ; ccdsid "CCDS46596.1" ; exon_id "ENSE00003558030.1" ; exon_number 2 ; gene_id "SOGA1--DSN1^DSN1^ENSG00000149636.16" ; gene_name DSN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032396.5" ; havana_transcript "OTTHUMT00000079051.2" ; hgnc_id "HGNC:16165" ; level 2 ; orig_coord_info "chr20,36771425,36771458,-" ; protein_id "ENSP00000362839.4" ; tag basic CCDS ; transcript_id "SOGA1--DSN1^ENST00000373734.8" ; transcript_name "DSN1-201" ; transcript_support_level 2 ; transcript_type protein_coding
SOGA1--DSN1 HAVANA mRNA 33475 44436 . + . FI_gene_label "DSN1^ENSG00000149636.16" ; ID "SOGA1--DSN1^ENST00000373734.8" ; Parent "SOGA1--DSN1^DSN1^ENSG00000149636.16" ; ccdsid "CCDS46596.1" ; exon_id "ENSE00003558030.1" ; exon_number 2 ; gene_id "SOGA1--DSN1^DSN1^ENSG00000149636.16" ; gene_name DSN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032396.5" ; havana_transcript "OTTHUMT00000079051.2" ; hgnc_id "HGNC:16165" ; level 2 ; orig_coord_info "chr20,36771425,36771458,-" ; protein_id "ENSP00000362839.4" ; tag basic CCDS ; transcript_id "SOGA1--DSN1^ENST00000373734.8" ; transcript_name "DSN1-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
SREK1--LINC02229 HAVANA gene 2124 27091 . + . FI_gene_label "SREK1^ENSG00000153914.16" ; ID "SREK1--LINC02229^SREK1^ENSG00000153914.16" ; ccdsid "CCDS43323.1" ; exon_id "ENSE00003843436.1" ; exon_number 1 ; gene_id "SREK1--LINC02229^SREK1^ENSG00000153914.16" ; gene_name SREK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000097809.5" ; havana_transcript "OTTHUMT00000215071.2" ; hgnc_id "HGNC:17882" ; level 2 ; orig_coord_info "chr5,66144377,66144537,+" ; protein_id "ENSP00000334538.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SREK1--LINC02229^ENST00000334121.11" ; transcript_name "SREK1-202" ; transcript_support_level 2 ; transcript_type protein_coding
SREK1--LINC02229 HAVANA mRNA 2124 27091 . + . FI_gene_label "SREK1^ENSG00000153914.16" ; ID "SREK1--LINC02229^ENST00000334121.11" ; Parent "SREK1--LINC02229^SREK1^ENSG00000153914.16" ; ccdsid "CCDS43323.1" ; exon_id "ENSE00003843436.1" ; exon_number 1 ; gene_id "SREK1--LINC02229^SREK1^ENSG00000153914.16" ; gene_name SREK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000097809.5" ; havana_transcript "OTTHUMT00000215071.2" ; hgnc_id "HGNC:17882" ; level 2 ; orig_coord_info "chr5,66144377,66144537,+" ; protein_id "ENSP00000334538.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SREK1--LINC02229^ENST00000334121.11" ; transcript_name "SREK1-202" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
SREK1--MAST4 HAVANA gene 48430 80829 . + . FI_gene_label "MAST4^ENSG00000069020.18" ; ID "SREK1--MAST4^MAST4^ENSG00000069020.18" ; ccdsid "CCDS75254.1" ; exon_id "ENSE00001861469.1" ; exon_number 1 ; gene_id "SREK1--MAST4^MAST4^ENSG00000069020.18" ; gene_name MAST4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152471.6" ; havana_transcript "OTTHUMT00000326330.1" ; hgnc_id "HGNC:19037" ; level 2 ; orig_coord_info "chr5,67004994,67005085,+" ; protein_id "ENSP00000261569.7" ; tag basic appris_alternative_2 CCDS ; transcript_id "SREK1--MAST4^ENST00000261569.11" ; transcript_name "MAST4-201" ; transcript_support_level 5 ; transcript_type protein_coding
SREK1--MAST4 HAVANA mRNA 48430 80829 . + . FI_gene_label "MAST4^ENSG00000069020.18" ; ID "SREK1--MAST4^ENST00000261569.11" ; Parent "SREK1--MAST4^MAST4^ENSG00000069020.18" ; ccdsid "CCDS75254.1" ; exon_id "ENSE00001861469.1" ; exon_number 1 ; gene_id "SREK1--MAST4^MAST4^ENSG00000069020.18" ; gene_name MAST4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152471.6" ; havana_transcript "OTTHUMT00000326330.1" ; hgnc_id "HGNC:19037" ; level 2 ; orig_coord_info "chr5,67004994,67005085,+" ; protein_id "ENSP00000261569.7" ; tag basic appris_alternative_2 CCDS ; transcript_id "SREK1--MAST4^ENST00000261569.11" ; transcript_name "MAST4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
SREK1--MAST4 HAVANA gene 2124 27091 . + . FI_gene_label "SREK1^ENSG00000153914.16" ; ID "SREK1--MAST4^SREK1^ENSG00000153914.16" ; ccdsid "CCDS43323.1" ; exon_id "ENSE00003843436.1" ; exon_number 1 ; gene_id "SREK1--MAST4^SREK1^ENSG00000153914.16" ; gene_name SREK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000097809.5" ; havana_transcript "OTTHUMT00000215071.2" ; hgnc_id "HGNC:17882" ; level 2 ; orig_coord_info "chr5,66144377,66144537,+" ; protein_id "ENSP00000334538.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SREK1--MAST4^ENST00000334121.11" ; transcript_name "SREK1-202" ; transcript_support_level 2 ; transcript_type protein_coding
SREK1--MAST4 HAVANA mRNA 2124 27091 . + . FI_gene_label "SREK1^ENSG00000153914.16" ; ID "SREK1--MAST4^ENST00000334121.11" ; Parent "SREK1--MAST4^SREK1^ENSG00000153914.16" ; ccdsid "CCDS43323.1" ; exon_id "ENSE00003843436.1" ; exon_number 1 ; gene_id "SREK1--MAST4^SREK1^ENSG00000153914.16" ; gene_name SREK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000097809.5" ; havana_transcript "OTTHUMT00000215071.2" ; hgnc_id "HGNC:17882" ; level 2 ; orig_coord_info "chr5,66144377,66144537,+" ; protein_id "ENSP00000334538.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SREK1--MAST4^ENST00000334121.11" ; transcript_name "SREK1-202" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
SREK1--PPIAP78 HAVANA gene 2124 27091 . + . FI_gene_label "SREK1^ENSG00000153914.16" ; ID "SREK1--PPIAP78^SREK1^ENSG00000153914.16" ; ccdsid "CCDS43323.1" ; exon_id "ENSE00003843436.1" ; exon_number 1 ; gene_id "SREK1--PPIAP78^SREK1^ENSG00000153914.16" ; gene_name SREK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000097809.5" ; havana_transcript "OTTHUMT00000215071.2" ; hgnc_id "HGNC:17882" ; level 2 ; orig_coord_info "chr5,66144377,66144537,+" ; protein_id "ENSP00000334538.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SREK1--PPIAP78^ENST00000334121.11" ; transcript_name "SREK1-202" ; transcript_support_level 2 ; transcript_type protein_coding
SREK1--PPIAP78 HAVANA mRNA 2124 27091 . + . FI_gene_label "SREK1^ENSG00000153914.16" ; ID "SREK1--PPIAP78^ENST00000334121.11" ; Parent "SREK1--PPIAP78^SREK1^ENSG00000153914.16" ; ccdsid "CCDS43323.1" ; exon_id "ENSE00003843436.1" ; exon_number 1 ; gene_id "SREK1--PPIAP78^SREK1^ENSG00000153914.16" ; gene_name SREK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000097809.5" ; havana_transcript "OTTHUMT00000215071.2" ; hgnc_id "HGNC:17882" ; level 2 ; orig_coord_info "chr5,66144377,66144537,+" ; protein_id "ENSP00000334538.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SREK1--PPIAP78^ENST00000334121.11" ; transcript_name "SREK1-202" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
STX12--WDTC1 HAVANA gene 15904 34630 . + . FI_gene_label "WDTC1^ENSG00000142784.16" ; ID "STX12--WDTC1^WDTC1^ENSG00000142784.16" ; ccdsid "CCDS60044.1" ; exon_id "ENSE00003889785.1" ; exon_number 2 ; gene_id "STX12--WDTC1^WDTC1^ENSG00000142784.16" ; gene_name WDTC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000004273.8" ; havana_transcript "OTTHUMT00000504236.2" ; hgnc_id "HGNC:29175" ; level 2 ; orig_coord_info "chr1,27261055,27261102,+" ; protein_id "ENSP00000317971.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "STX12--WDTC1^ENST00000319394.8" ; transcript_name "WDTC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
STX12--WDTC1 HAVANA mRNA 15904 34630 . + . FI_gene_label "WDTC1^ENSG00000142784.16" ; ID "STX12--WDTC1^ENST00000319394.8" ; Parent "STX12--WDTC1^WDTC1^ENSG00000142784.16" ; ccdsid "CCDS60044.1" ; exon_id "ENSE00003889785.1" ; exon_number 2 ; gene_id "STX12--WDTC1^WDTC1^ENSG00000142784.16" ; gene_name WDTC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000004273.8" ; havana_transcript "OTTHUMT00000504236.2" ; hgnc_id "HGNC:29175" ; level 2 ; orig_coord_info "chr1,27261055,27261102,+" ; protein_id "ENSP00000317971.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "STX12--WDTC1^ENST00000319394.8" ; transcript_name "WDTC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
STX12--WDTC1 HAVANA gene 1001 12903 . + . FI_gene_label "STX12^ENSG00000117758.14" ; ID "STX12--WDTC1^STX12^ENSG00000117758.14" ; ccdsid "CCDS310.1" ; exon_id "ENSE00001153614.5" ; exon_number 1 ; gene_id "STX12--WDTC1^STX12^ENSG00000117758.14" ; gene_name STX12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000003730.3" ; havana_transcript "OTTHUMT00000010519.2" ; hgnc_id "HGNC:11430" ; level 2 ; orig_coord_info "chr1,27773308,27773425,+" ; protein_id "ENSP00000363054.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX12--WDTC1^ENST00000373943.9" ; transcript_name "STX12-201" ; transcript_support_level 1 ; transcript_type protein_coding
STX12--WDTC1 HAVANA mRNA 1001 12903 . + . FI_gene_label "STX12^ENSG00000117758.14" ; ID "STX12--WDTC1^ENST00000373943.9" ; Parent "STX12--WDTC1^STX12^ENSG00000117758.14" ; ccdsid "CCDS310.1" ; exon_id "ENSE00001153614.5" ; exon_number 1 ; gene_id "STX12--WDTC1^STX12^ENSG00000117758.14" ; gene_name STX12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000003730.3" ; havana_transcript "OTTHUMT00000010519.2" ; hgnc_id "HGNC:11430" ; level 2 ; orig_coord_info "chr1,27773308,27773425,+" ; protein_id "ENSP00000363054.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX12--WDTC1^ENST00000373943.9" ; transcript_name "STX12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
STX16--NPEPL1 HAVANA gene 1021 7754 . + . FI_gene_label "STX16^ENSG00000124222.22" ; ID "STX16--NPEPL1^STX16^ENSG00000124222.22" ; exon_id "ENSE00003459479.1" ; exon_number 3 ; gene_id "STX16--NPEPL1^STX16^ENSG00000124222.22" ; gene_name STX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033084.8" ; havana_transcript "OTTHUMT00000267911.2" ; hgnc_id "HGNC:11431" ; level 2 ; orig_coord_info "chr20,58667505,58667597,+" ; protein_id "ENSP00000312086.8" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "STX16--NPEPL1^ENST00000312283.12" ; transcript_name "STX16-201" ; transcript_support_level 3 ; transcript_type protein_coding
STX16--NPEPL1 HAVANA mRNA 1021 7754 . + . FI_gene_label "STX16^ENSG00000124222.22" ; ID "STX16--NPEPL1^ENST00000312283.12" ; Parent "STX16--NPEPL1^STX16^ENSG00000124222.22" ; exon_id "ENSE00003459479.1" ; exon_number 3 ; gene_id "STX16--NPEPL1^STX16^ENSG00000124222.22" ; gene_name STX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033084.8" ; havana_transcript "OTTHUMT00000267911.2" ; hgnc_id "HGNC:11431" ; level 2 ; orig_coord_info "chr20,58667505,58667597,+" ; protein_id "ENSP00000312086.8" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "STX16--NPEPL1^ENST00000312283.12" ; transcript_name "STX16-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
STX16--NPEPL1 HAVANA gene 18353 29399 . + . FI_gene_label "NPEPL1^ENSG00000215440.12" ; ID "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; ccdsid "CCDS46621.1" ; exon_id "ENSE00001408052.7" ; exon_number 1 ; gene_id "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; gene_name NPEPL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033060.8" ; havana_transcript "OTTHUMT00000080402.7" ; hgnc_id "HGNC:16244" ; level 2 ; orig_coord_info "chr20,58692901,58693050,+" ; protein_id "ENSP00000348395.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX16--NPEPL1^ENST00000356091.11" ; transcript_name "NPEPL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
STX16--NPEPL1 HAVANA mRNA 18353 29399 . + . FI_gene_label "NPEPL1^ENSG00000215440.12" ; ID "STX16--NPEPL1^ENST00000356091.11" ; Parent "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; ccdsid "CCDS46621.1" ; exon_id "ENSE00001408052.7" ; exon_number 1 ; gene_id "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; gene_name NPEPL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033060.8" ; havana_transcript "OTTHUMT00000080402.7" ; hgnc_id "HGNC:16244" ; level 2 ; orig_coord_info "chr20,58692901,58693050,+" ; protein_id "ENSP00000348395.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX16--NPEPL1^ENST00000356091.11" ; transcript_name "NPEPL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SYNJ2BP--ADAM20 HAVANA gene 1001 11057 . + . FI_gene_label "SYNJ2BP^ENSG00000213463.5" ; ID "SYNJ2BP--ADAM20^SYNJ2BP^ENSG00000213463.5" ; ccdsid "CCDS9803.1" ; exon_id "ENSE00002533202.2" ; exon_number 1 ; gene_id "SYNJ2BP--ADAM20^SYNJ2BP^ENSG00000213463.5" ; gene_name SYNJ2BP ; gene_type protein_coding ; havana_gene "OTTHUMG00000171240.3" ; havana_transcript "OTTHUMT00000412472.3" ; hgnc_id "HGNC:18955" ; level 2 ; orig_coord_info "chr14,70416900,70416963,-" ; protein_id "ENSP00000256366.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SYNJ2BP--ADAM20^ENST00000256366.6" ; transcript_name "SYNJ2BP-201" ; transcript_support_level 1 ; transcript_type protein_coding
SYNJ2BP--ADAM20 HAVANA mRNA 1001 11057 . + . FI_gene_label "SYNJ2BP^ENSG00000213463.5" ; ID "SYNJ2BP--ADAM20^ENST00000256366.6" ; Parent "SYNJ2BP--ADAM20^SYNJ2BP^ENSG00000213463.5" ; ccdsid "CCDS9803.1" ; exon_id "ENSE00002533202.2" ; exon_number 1 ; gene_id "SYNJ2BP--ADAM20^SYNJ2BP^ENSG00000213463.5" ; gene_name SYNJ2BP ; gene_type protein_coding ; havana_gene "OTTHUMG00000171240.3" ; havana_transcript "OTTHUMT00000412472.3" ; hgnc_id "HGNC:18955" ; level 2 ; orig_coord_info "chr14,70416900,70416963,-" ; protein_id "ENSP00000256366.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SYNJ2BP--ADAM20^ENST00000256366.6" ; transcript_name "SYNJ2BP-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SYNJ2BP--ADAM20 HAVANA gene 14069 17852 . + . FI_gene_label "ADAM20^ENSG00000134007.5" ; ID "SYNJ2BP--ADAM20^ADAM20^ENSG00000134007.5" ; exon_id "ENSE00000911696.5" ; exon_number 2 ; gene_id "SYNJ2BP--ADAM20^ADAM20^ENSG00000134007.5" ; gene_name ADAM20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167548.4" ; havana_transcript "OTTHUMT00000395004.4" ; hgnc_id "HGNC:199" ; level 2 ; orig_coord_info "chr14,70522580,70524757,-" ; protein_id "ENSP00000256389.3" ; tag upstream_ATG basic MANE_Select appris_principal_4 ; transcript_id "SYNJ2BP--ADAM20^ENST00000256389.5" ; transcript_name "ADAM20-201" ; transcript_support_level 1 ; transcript_type protein_coding
SYNJ2BP--ADAM20 HAVANA mRNA 14069 17852 . + . FI_gene_label "ADAM20^ENSG00000134007.5" ; ID "SYNJ2BP--ADAM20^ENST00000256389.5" ; Parent "SYNJ2BP--ADAM20^ADAM20^ENSG00000134007.5" ; exon_id "ENSE00000911696.5" ; exon_number 2 ; gene_id "SYNJ2BP--ADAM20^ADAM20^ENSG00000134007.5" ; gene_name ADAM20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167548.4" ; havana_transcript "OTTHUMT00000395004.4" ; hgnc_id "HGNC:199" ; level 2 ; orig_coord_info "chr14,70522580,70524757,-" ; protein_id "ENSP00000256389.3" ; tag upstream_ATG basic MANE_Select appris_principal_4 ; transcript_id "SYNJ2BP--ADAM20^ENST00000256389.5" ; transcript_name "ADAM20-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TAF2--AC021733.2 HAVANA gene 1001 32668 . + . FI_gene_label "TAF2^ENSG00000064313.12" ; ID "TAF2--AC021733.2^TAF2^ENSG00000064313.12" ; ccdsid "CCDS34937.1" ; exon_id "ENSE00002108893.2" ; exon_number 1 ; gene_id "TAF2--AC021733.2^TAF2^ENSG00000064313.12" ; gene_name TAF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165009.5" ; havana_transcript "OTTHUMT00000381436.2" ; hgnc_id "HGNC:11536" ; level 2 ; orig_coord_info "chr8,119832482,119832564,-" ; protein_id "ENSP00000367406.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TAF2--AC021733.2^ENST00000378164.7" ; transcript_name "TAF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TAF2--AC021733.2 HAVANA mRNA 1001 32668 . + . FI_gene_label "TAF2^ENSG00000064313.12" ; ID "TAF2--AC021733.2^ENST00000378164.7" ; Parent "TAF2--AC021733.2^TAF2^ENSG00000064313.12" ; ccdsid "CCDS34937.1" ; exon_id "ENSE00002108893.2" ; exon_number 1 ; gene_id "TAF2--AC021733.2^TAF2^ENSG00000064313.12" ; gene_name TAF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165009.5" ; havana_transcript "OTTHUMT00000381436.2" ; hgnc_id "HGNC:11536" ; level 2 ; orig_coord_info "chr8,119832482,119832564,-" ; protein_id "ENSP00000367406.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TAF2--AC021733.2^ENST00000378164.7" ; transcript_name "TAF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TEX2--PECAM1 HAVANA gene 1034 24053 . + . FI_gene_label "TEX2^ENSG00000136478.8" ; ID "TEX2--PECAM1^TEX2^ENSG00000136478.8" ; ccdsid "CCDS11658.1" ; exon_id "ENSE00001324420.1" ; exon_number 2 ; gene_id "TEX2--PECAM1^TEX2^ENSG00000136478.8" ; gene_name TEX2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178881.2" ; havana_transcript "OTTHUMT00000443743.1" ; hgnc_id "HGNC:30884" ; level 2 ; orig_coord_info "chr17,64212574,64214217,-" ; protein_id "ENSP00000258991.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "TEX2--PECAM1^ENST00000258991.7" ; transcript_name "TEX2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TEX2--PECAM1 HAVANA mRNA 1034 24053 . + . FI_gene_label "TEX2^ENSG00000136478.8" ; ID "TEX2--PECAM1^ENST00000258991.7" ; Parent "TEX2--PECAM1^TEX2^ENSG00000136478.8" ; ccdsid "CCDS11658.1" ; exon_id "ENSE00001324420.1" ; exon_number 2 ; gene_id "TEX2--PECAM1^TEX2^ENSG00000136478.8" ; gene_name TEX2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178881.2" ; havana_transcript "OTTHUMT00000443743.1" ; hgnc_id "HGNC:30884" ; level 2 ; orig_coord_info "chr17,64212574,64214217,-" ; protein_id "ENSP00000258991.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "TEX2--PECAM1^ENST00000258991.7" ; transcript_name "TEX2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TEX2--PECAM1 HAVANA gene 29463 33266 . + . FI_gene_label "PECAM1^ENSG00000261371.6" ; ID "TEX2--PECAM1^PECAM1^ENSG00000261371.6" ; exon_id "ENSE00002623571.1" ; exon_number 1 ; gene_id "TEX2--PECAM1^PECAM1^ENSG00000261371.6" ; gene_name PECAM1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000175829.4" ; havana_transcript "OTTHUMT00000431146.2" ; hgnc_id "HGNC:8823" ; level 2 ; orig_coord_info "chr17,64390489,64390564,-" ; protein_id "ENSP00000455931.1" ; tag mRNA_end_NF cds_end_NF ; transcript_id "TEX2--PECAM1^ENST00000563523.5" ; transcript_name "PECAM1-202" ; transcript_support_level 3 ; transcript_type protein_coding
TEX2--PECAM1 HAVANA mRNA 29463 33266 . + . FI_gene_label "PECAM1^ENSG00000261371.6" ; ID "TEX2--PECAM1^ENST00000563523.5" ; Parent "TEX2--PECAM1^PECAM1^ENSG00000261371.6" ; exon_id "ENSE00002623571.1" ; exon_number 1 ; gene_id "TEX2--PECAM1^PECAM1^ENSG00000261371.6" ; gene_name PECAM1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000175829.4" ; havana_transcript "OTTHUMT00000431146.2" ; hgnc_id "HGNC:8823" ; level 2 ; orig_coord_info "chr17,64390489,64390564,-" ; protein_id "ENSP00000455931.1" ; tag mRNA_end_NF cds_end_NF ; transcript_id "TEX2--PECAM1^ENST00000563523.5" ; transcript_name "PECAM1-202" ; transcript_support_level 3 ; 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:
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:
WWP2--NFAT5 HAVANA gene 38809 68137 . + . FI_gene_label "NFAT5^ENSG00000102908.22" ; ID "WWP2--NFAT5^NFAT5^ENSG00000102908.22" ; ccdsid "CCDS45518.1" ; exon_id "ENSE00003462067.2" ; exon_number 1 ; gene_id "WWP2--NFAT5^NFAT5^ENSG00000102908.22" ; gene_name NFAT5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137572.7" ; havana_transcript "OTTHUMT00000481777.3" ; hgnc_id "HGNC:7774" ; level 2 ; orig_coord_info "chr16,69566302,69566374,+" ; protein_id "ENSP00000338806.3" ; tag CAGE_supported_TSS NAGNAG_splice_site basic MANE_Select appris_alternative_2 CCDS ; transcript_id "WWP2--NFAT5^ENST00000349945.7" ; transcript_name "NFAT5-201" ; transcript_support_level 1 ; transcript_type protein_coding
WWP2--NFAT5 HAVANA mRNA 38809 68137 . + . FI_gene_label "NFAT5^ENSG00000102908.22" ; ID "WWP2--NFAT5^ENST00000349945.7" ; Parent "WWP2--NFAT5^NFAT5^ENSG00000102908.22" ; ccdsid "CCDS45518.1" ; exon_id "ENSE00003462067.2" ; exon_number 1 ; gene_id "WWP2--NFAT5^NFAT5^ENSG00000102908.22" ; gene_name NFAT5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137572.7" ; havana_transcript "OTTHUMT00000481777.3" ; hgnc_id "HGNC:7774" ; level 2 ; orig_coord_info "chr16,69566302,69566374,+" ; protein_id "ENSP00000338806.3" ; tag CAGE_supported_TSS NAGNAG_splice_site basic MANE_Select appris_alternative_2 CCDS ; transcript_id "WWP2--NFAT5^ENST00000349945.7" ; transcript_name "NFAT5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
WWP2--NFAT5 ENSEMBL gene 10833 34936 . + . FI_gene_label "WWP2^ENSG00000198373.13" ; ID "WWP2--NFAT5^WWP2^ENSG00000198373.13" ; ccdsid "CCDS58476.1" ; exon_id "ENSE00003538515.1" ; exon_number 2 ; gene_id "WWP2--NFAT5^WWP2^ENSG00000198373.13" ; gene_name WWP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137573.3" ; hgnc_id "HGNC:16804" ; level 3 ; orig_coord_info "chr16,69840134,69840263,+" ; protein_id "ENSP00000348283.3" ; tag basic CCDS ; transcript_id "WWP2--NFAT5^ENST00000356003.6" ; transcript_name "WWP2-201" ; transcript_support_level 2 ; transcript_type protein_coding
WWP2--NFAT5 ENSEMBL mRNA 10833 34936 . + . FI_gene_label "WWP2^ENSG00000198373.13" ; ID "WWP2--NFAT5^ENST00000356003.6" ; Parent "WWP2--NFAT5^WWP2^ENSG00000198373.13" ; ccdsid "CCDS58476.1" ; exon_id "ENSE00003538515.1" ; exon_number 2 ; gene_id "WWP2--NFAT5^WWP2^ENSG00000198373.13" ; gene_name WWP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137573.3" ; hgnc_id "HGNC:16804" ; level 3 ; orig_coord_info "chr16,69840134,69840263,+" ; protein_id "ENSP00000348283.3" ; tag basic CCDS ; transcript_id "WWP2--NFAT5^ENST00000356003.6" ; transcript_name "WWP2-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
ZFX--KDM6A HAVANA gene 1557 21399 . + . FI_gene_label "ZFX^ENSG00000005889.16" ; ID "ZFX--KDM6A^ZFX^ENSG00000005889.16" ; ccdsid "CCDS14211.1" ; exon_id "ENSE00002688681.1" ; exon_number 4 ; gene_id "ZFX--KDM6A^ZFX^ENSG00000005889.16" ; gene_name ZFX ; gene_type protein_coding ; havana_gene "OTTHUMG00000021264.2" ; havana_transcript "OTTHUMT00000056085.1" ; hgnc_id "HGNC:12869" ; level 2 ; orig_coord_info "chrX,24172743,24172800,+" ; protein_id "ENSP00000304985.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ZFX--KDM6A^ENST00000304543.10" ; transcript_name "ZFX-201" ; transcript_support_level 5 ; transcript_type protein_coding
ZFX--KDM6A HAVANA mRNA 1557 21399 . + . FI_gene_label "ZFX^ENSG00000005889.16" ; ID "ZFX--KDM6A^ENST00000304543.10" ; Parent "ZFX--KDM6A^ZFX^ENSG00000005889.16" ; ccdsid "CCDS14211.1" ; exon_id "ENSE00002688681.1" ; exon_number 4 ; gene_id "ZFX--KDM6A^ZFX^ENSG00000005889.16" ; gene_name ZFX ; gene_type protein_coding ; havana_gene "OTTHUMG00000021264.2" ; havana_transcript "OTTHUMT00000056085.1" ; hgnc_id "HGNC:12869" ; level 2 ; orig_coord_info "chrX,24172743,24172800,+" ; protein_id "ENSP00000304985.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ZFX--KDM6A^ENST00000304543.10" ; transcript_name "ZFX-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
ZFX--KDM6A HAVANA gene 24400 69322 . + . FI_gene_label "KDM6A^ENSG00000147050.16" ; ID "ZFX--KDM6A^KDM6A^ENSG00000147050.16" ; ccdsid "CCDS14265.1" ; exon_id "ENSE00003898088.1" ; exon_number 1 ; gene_id "ZFX--KDM6A^KDM6A^ENSG00000147050.16" ; gene_name KDM6A ; gene_type protein_coding ; havana_gene "OTTHUMG00000021402.3" ; havana_transcript "OTTHUMT00000056324.2" ; hgnc_id "HGNC:12637" ; level 2 ; orig_coord_info "chrX,44873552,44873712,+" ; protein_id "ENSP00000367203.4" ; tag basic appris_principal_4 CCDS ; transcript_id "ZFX--KDM6A^ENST00000377967.9" ; transcript_name "KDM6A-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZFX--KDM6A HAVANA mRNA 24400 69322 . + . FI_gene_label "KDM6A^ENSG00000147050.16" ; ID "ZFX--KDM6A^ENST00000377967.9" ; Parent "ZFX--KDM6A^KDM6A^ENSG00000147050.16" ; ccdsid "CCDS14265.1" ; exon_id "ENSE00003898088.1" ; exon_number 1 ; gene_id "ZFX--KDM6A^KDM6A^ENSG00000147050.16" ; gene_name KDM6A ; gene_type protein_coding ; havana_gene "OTTHUMG00000021402.3" ; havana_transcript "OTTHUMT00000056324.2" ; hgnc_id "HGNC:12637" ; level 2 ; orig_coord_info "chrX,44873552,44873712,+" ; protein_id "ENSP00000367203.4" ; tag basic appris_principal_4 CCDS ; transcript_id "ZFX--KDM6A^ENST00000377967.9" ; transcript_name "KDM6A-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF121--SAXO1 HAVANA gene 1001 11073 . + . FI_gene_label "ZNF121^ENSG00000197961.12" ; ID "ZNF121--SAXO1^ZNF121^ENSG00000197961.12" ; ccdsid "CCDS32902.1" ; exon_id "ENSE00003631073.1" ; exon_number 3 ; gene_id "ZNF121--SAXO1^ZNF121^ENSG00000197961.12" ; gene_name ZNF121 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180134.4" ; havana_transcript "OTTHUMT00000449911.2" ; hgnc_id "HGNC:12904" ; level 2 ; orig_coord_info "chr19,9568095,9568097,-" ; protein_id "ENSP00000326967.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF121--SAXO1^ENST00000320451.7" ; transcript_name "ZNF121-201" ; transcript_support_level 3 ; transcript_type protein_coding
ZNF121--SAXO1 HAVANA mRNA 1001 11073 . + . FI_gene_label "ZNF121^ENSG00000197961.12" ; ID "ZNF121--SAXO1^ENST00000320451.7" ; Parent "ZNF121--SAXO1^ZNF121^ENSG00000197961.12" ; ccdsid "CCDS32902.1" ; exon_id "ENSE00003631073.1" ; exon_number 3 ; gene_id "ZNF121--SAXO1^ZNF121^ENSG00000197961.12" ; gene_name ZNF121 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180134.4" ; havana_transcript "OTTHUMT00000449911.2" ; hgnc_id "HGNC:12904" ; level 2 ; orig_coord_info "chr19,9568095,9568097,-" ; protein_id "ENSP00000326967.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF121--SAXO1^ENST00000320451.7" ; transcript_name "ZNF121-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
ZNF121--SAXO1 HAVANA gene 15224 21208 . + . FI_gene_label "SAXO1^ENSG00000155875.15" ; ID "ZNF121--SAXO1^SAXO1^ENSG00000155875.15" ; ccdsid "CCDS75820.1" ; exon_id "ENSE00003471508.1" ; exon_number 1 ; gene_id "ZNF121--SAXO1^SAXO1^ENSG00000155875.15" ; gene_name SAXO1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019609.6" ; havana_transcript "OTTHUMT00000051812.2" ; hgnc_id "HGNC:28566" ; level 1 ; orig_coord_info "chr9,19032871,19032908,-" ; protein_id "ENSP00000369902.1" ; tag basic exp_conf CCDS ; transcript_id "ZNF121--SAXO1^ENST00000380530.1" ; transcript_name "SAXO1-201" ; transcript_support_level 2 ; transcript_type protein_coding
ZNF121--SAXO1 HAVANA mRNA 15224 21208 . + . FI_gene_label "SAXO1^ENSG00000155875.15" ; ID "ZNF121--SAXO1^ENST00000380530.1" ; Parent "ZNF121--SAXO1^SAXO1^ENSG00000155875.15" ; ccdsid "CCDS75820.1" ; exon_id "ENSE00003471508.1" ; exon_number 1 ; gene_id "ZNF121--SAXO1^SAXO1^ENSG00000155875.15" ; gene_name SAXO1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019609.6" ; havana_transcript "OTTHUMT00000051812.2" ; hgnc_id "HGNC:28566" ; level 1 ; orig_coord_info "chr9,19032871,19032908,-" ; protein_id "ENSP00000369902.1" ; tag basic exp_conf CCDS ; transcript_id "ZNF121--SAXO1^ENST00000380530.1" ; transcript_name "SAXO1-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
ZNF318--KLC4 HAVANA gene 29508 41552 . + . FI_gene_label "KLC4^ENSG00000137171.15" ; ID "ZNF318--KLC4^KLC4^ENSG00000137171.15" ; ccdsid "CCDS4882.1" ; exon_id "ENSE00001381428.2" ; exon_number 1 ; gene_id "ZNF318--KLC4^KLC4^ENSG00000137171.15" ; gene_name KLC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014720.8" ; havana_transcript "OTTHUMT00000358144.2" ; hgnc_id "HGNC:21624" ; level 2 ; orig_coord_info "chr6,43060210,43060238,+" ; protein_id "ENSP00000259708.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ZNF318--KLC4^ENST00000259708.7" ; transcript_name "KLC4-201" ; transcript_support_level 2 ; transcript_type protein_coding
ZNF318--KLC4 HAVANA mRNA 29508 41552 . + . FI_gene_label "KLC4^ENSG00000137171.15" ; ID "ZNF318--KLC4^ENST00000259708.7" ; Parent "ZNF318--KLC4^KLC4^ENSG00000137171.15" ; ccdsid "CCDS4882.1" ; exon_id "ENSE00001381428.2" ; exon_number 1 ; gene_id "ZNF318--KLC4^KLC4^ENSG00000137171.15" ; gene_name KLC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014720.8" ; havana_transcript "OTTHUMT00000358144.2" ; hgnc_id "HGNC:21624" ; level 2 ; orig_coord_info "chr6,43060210,43060238,+" ; protein_id "ENSP00000259708.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ZNF318--KLC4^ENST00000259708.7" ; transcript_name "KLC4-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
ZNF318--KLC4 HAVANA gene 1001 16941 . + . FI_gene_label "ZNF318^ENSG00000171467.16" ; ID "ZNF318--KLC4^ZNF318^ENSG00000171467.16" ; ccdsid "CCDS4895.2" ; exon_id "ENSE00001612696.2" ; exon_number 1 ; gene_id "ZNF318--KLC4^ZNF318^ENSG00000171467.16" ; gene_name ZNF318 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014732.4" ; havana_transcript "OTTHUMT00000040601.3" ; hgnc_id "HGNC:13578" ; level 2 ; orig_coord_info "chr6,43368967,43369365,-" ; protein_id "ENSP00000354964.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF318--KLC4^ENST00000361428.3" ; transcript_name "ZNF318-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF318--KLC4 HAVANA mRNA 1001 16941 . + . FI_gene_label "ZNF318^ENSG00000171467.16" ; ID "ZNF318--KLC4^ENST00000361428.3" ; Parent "ZNF318--KLC4^ZNF318^ENSG00000171467.16" ; ccdsid "CCDS4895.2" ; exon_id "ENSE00001612696.2" ; exon_number 1 ; gene_id "ZNF318--KLC4^ZNF318^ENSG00000171467.16" ; gene_name ZNF318 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014732.4" ; havana_transcript "OTTHUMT00000040601.3" ; hgnc_id "HGNC:13578" ; level 2 ; orig_coord_info "chr6,43368967,43369365,-" ; protein_id "ENSP00000354964.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF318--KLC4^ENST00000361428.3" ; transcript_name "ZNF318-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC007064.2--XKR3 HAVANA gene 1001 2500 . + . FI_gene_label "AC007064.2^ENSG00000237689.1" ; ID "AC007064.2--XKR3^AC007064.2^ENSG00000237689.1" ; exon_id "ENSE00001639792.1" ; exon_number 1 ; gene_id "AC007064.2--XKR3^AC007064.2^ENSG00000237689.1" ; gene_name "AC007064.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000147348.1" ; havana_transcript "OTTHUMT00000303966.1" ; level 1 ; orig_coord_info "chr22,16869478,16869626,+" ; tag basic exp_conf ; transcript_id "AC007064.2--XKR3^ENST00000442403.1" ; transcript_name "AC007064.2-201" ; transcript_support_level 5 ; transcript_type lncRNA
AC007064.2--XKR3 HAVANA RNA 1001 2500 . + . FI_gene_label "AC007064.2^ENSG00000237689.1" ; ID "AC007064.2--XKR3^ENST00000442403.1" ; Parent "AC007064.2--XKR3^AC007064.2^ENSG00000237689.1" ; exon_id "ENSE00001639792.1" ; exon_number 1 ; gene_id "AC007064.2--XKR3^AC007064.2^ENSG00000237689.1" ; gene_name "AC007064.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000147348.1" ; havana_transcript "OTTHUMT00000303966.1" ; level 1 ; orig_coord_info "chr22,16869478,16869626,+" ; tag basic exp_conf ; transcript_id "AC007064.2--XKR3^ENST00000442403.1" ; transcript_name "AC007064.2-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
AC010789.2--FBXW4 HAVANA gene 1001 2903 . + . FI_gene_label "AC010789.2^ENSG00000286489.1" ; ID "AC010789.2--FBXW4^AC010789.2^ENSG00000286489.1" ; exon_id "ENSE00003853982.1" ; exon_number 1 ; gene_id "AC010789.2--FBXW4^AC010789.2^ENSG00000286489.1" ; gene_name "AC010789.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000194296.1" ; havana_transcript "OTTHUMT00000514026.1" ; level 2 ; orig_coord_info "chr10,101694401,101694514,+" ; tag basic TAGENE ; transcript_id "AC010789.2--FBXW4^ENST00000663752.1" ; transcript_name "AC010789.2-201" ; transcript_type lncRNA
AC010789.2--FBXW4 HAVANA RNA 1001 2903 . + . FI_gene_label "AC010789.2^ENSG00000286489.1" ; ID "AC010789.2--FBXW4^ENST00000663752.1" ; Parent "AC010789.2--FBXW4^AC010789.2^ENSG00000286489.1" ; exon_id "ENSE00003853982.1" ; exon_number 1 ; gene_id "AC010789.2--FBXW4^AC010789.2^ENSG00000286489.1" ; gene_name "AC010789.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000194296.1" ; havana_transcript "OTTHUMT00000514026.1" ; level 2 ; orig_coord_info "chr10,101694401,101694514,+" ; tag basic TAGENE ; transcript_id "AC010789.2--FBXW4^ENST00000663752.1" ; transcript_name "AC010789.2-201" ; transcript_type lncRNA
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:
AC092123.1--ANKRD11 HAVANA gene 2255 3645 . + . FI_gene_label "AC092123.1^ENSG00000261118.1" ; ID "AC092123.1--ANKRD11^AC092123.1^ENSG00000261118.1" ; exon_id "ENSE00002588997.1" ; exon_number 1 ; gene_id "AC092123.1--ANKRD11^AC092123.1^ENSG00000261118.1" ; gene_name "AC092123.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000175513.3" ; havana_transcript "OTTHUMT00000430341.2" ; level 2 ; orig_coord_info "chr16,89493720,89493793,-" ; tag non_canonical_conserved basic ; transcript_id "AC092123.1--ANKRD11^ENST00000565310.1" ; transcript_name "AC092123.1-202" ; transcript_support_level 3 ; transcript_type lncRNA
AC092123.1--ANKRD11 HAVANA RNA 2255 3645 . + . FI_gene_label "AC092123.1^ENSG00000261118.1" ; ID "AC092123.1--ANKRD11^ENST00000565310.1" ; Parent "AC092123.1--ANKRD11^AC092123.1^ENSG00000261118.1" ; exon_id "ENSE00002588997.1" ; exon_number 1 ; gene_id "AC092123.1--ANKRD11^AC092123.1^ENSG00000261118.1" ; gene_name "AC092123.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000175513.3" ; havana_transcript "OTTHUMT00000430341.2" ; level 2 ; orig_coord_info "chr16,89493720,89493793,-" ; tag non_canonical_conserved basic ; transcript_id "AC092123.1--ANKRD11^ENST00000565310.1" ; transcript_name "AC092123.1-202" ; transcript_support_level 3 ; 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:
ARHGEF35-AS1--ARHGEF35 HAVANA gene 1464 19871 . + . FI_gene_label "ARHGEF35-AS1^ENSG00000244198.7" ; ID "ARHGEF35-AS1--ARHGEF35^ARHGEF35-AS1^ENSG00000244198.7" ; exon_id "ENSE00001810867.1" ; exon_number 1 ; gene_id "ARHGEF35-AS1--ARHGEF35^ARHGEF35-AS1^ENSG00000244198.7" ; gene_name "ARHGEF35-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000158007.3" ; havana_transcript "OTTHUMT00000349987.1" ; hgnc_id "HGNC:41292" ; level 2 ; orig_coord_info "chr7,144195321,144195701,+" ; transcript_id "ARHGEF35-AS1--ARHGEF35^ENST00000460955.5" ; transcript_name "ARHGEF35-AS1-201" ; transcript_support_level 4 ; transcript_type lncRNA
ARHGEF35-AS1--ARHGEF35 HAVANA RNA 1464 19871 . + . FI_gene_label "ARHGEF35-AS1^ENSG00000244198.7" ; ID "ARHGEF35-AS1--ARHGEF35^ENST00000460955.5" ; Parent "ARHGEF35-AS1--ARHGEF35^ARHGEF35-AS1^ENSG00000244198.7" ; exon_id "ENSE00001810867.1" ; exon_number 1 ; gene_id "ARHGEF35-AS1--ARHGEF35^ARHGEF35-AS1^ENSG00000244198.7" ; gene_name "ARHGEF35-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000158007.3" ; havana_transcript "OTTHUMT00000349987.1" ; hgnc_id "HGNC:41292" ; level 2 ; orig_coord_info "chr7,144195321,144195701,+" ; transcript_id "ARHGEF35-AS1--ARHGEF35^ENST00000460955.5" ; transcript_name "ARHGEF35-AS1-201" ; transcript_support_level 4 ; transcript_type lncRNA
L1 and L2 created:
CACNB2--RFX3-AS1 HAVANA gene 35681 42558 . + . FI_gene_label "RFX3-AS1^ENSG00000232104.3" ; ID "CACNB2--RFX3-AS1^RFX3-AS1^ENSG00000232104.3" ; exon_id "ENSE00001760854.1" ; exon_number 1 ; gene_id "CACNB2--RFX3-AS1^RFX3-AS1^ENSG00000232104.3" ; gene_name "RFX3-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019457.4" ; havana_transcript "OTTHUMT00000051550.2" ; hgnc_id "HGNC:51197" ; level 2 ; orig_coord_info "chr9,3526723,3526777,+" ; tag basic ; transcript_id "CACNB2--RFX3-AS1^ENST00000423112.2" ; transcript_name "RFX3-AS1-201" ; transcript_support_level 3 ; transcript_type lncRNA
CACNB2--RFX3-AS1 HAVANA RNA 35681 42558 . + . FI_gene_label "RFX3-AS1^ENSG00000232104.3" ; ID "CACNB2--RFX3-AS1^ENST00000423112.2" ; Parent "CACNB2--RFX3-AS1^RFX3-AS1^ENSG00000232104.3" ; exon_id "ENSE00001760854.1" ; exon_number 1 ; gene_id "CACNB2--RFX3-AS1^RFX3-AS1^ENSG00000232104.3" ; gene_name "RFX3-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019457.4" ; havana_transcript "OTTHUMT00000051550.2" ; hgnc_id "HGNC:51197" ; level 2 ; orig_coord_info "chr9,3526723,3526777,+" ; tag basic ; transcript_id "CACNB2--RFX3-AS1^ENST00000423112.2" ; transcript_name "RFX3-AS1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
COX16--ADAM20P1 HAVANA gene 12806 15131 . + . FI_gene_label "ADAM20P1^ENSG00000259158.4" ; ID "COX16--ADAM20P1^ADAM20P1^ENSG00000259158.4" ; exon_id "ENSE00001298182.6" ; exon_number 1 ; gene_id "COX16--ADAM20P1^ADAM20P1^ENSG00000259158.4" ; gene_name ADAM20P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000171329.4" ; havana_transcript "OTTHUMT00000488898.1" ; hgnc_id "HGNC:20102" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr14,70468881,70471206,-" ; tag basic ; transcript_id "COX16--ADAM20P1^ENST00000320746.6" ; transcript_name "ADAM20P1-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
COX16--ADAM20P1 HAVANA RNA 12806 15131 . + . FI_gene_label "ADAM20P1^ENSG00000259158.4" ; ID "COX16--ADAM20P1^ENST00000320746.6" ; Parent "COX16--ADAM20P1^ADAM20P1^ENSG00000259158.4" ; exon_id "ENSE00001298182.6" ; exon_number 1 ; gene_id "COX16--ADAM20P1^ADAM20P1^ENSG00000259158.4" ; gene_name ADAM20P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000171329.4" ; havana_transcript "OTTHUMT00000488898.1" ; hgnc_id "HGNC:20102" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr14,70468881,70471206,-" ; tag basic ; transcript_id "COX16--ADAM20P1^ENST00000320746.6" ; transcript_name "ADAM20P1-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
ETV6--LINC01252 HAVANA gene 21919 31712 . + . FI_gene_label "LINC01252^ENSG00000247157.7" ; ID "ETV6--LINC01252^LINC01252^ENSG00000247157.7" ; exon_id "ENSE00001970124.1" ; exon_number 1 ; gene_id "ETV6--LINC01252^LINC01252^ENSG00000247157.7" ; gene_name LINC01252 ; gene_type lncRNA ; havana_gene "OTTHUMG00000168537.4" ; havana_transcript "OTTHUMT00000400127.1" ; hgnc_id "HGNC:27888" ; level 2 ; orig_coord_info "chr12,11548030,11548360,+" ; tag basic ; transcript_id "ETV6--LINC01252^ENST00000499291.6" ; transcript_name "LINC01252-201" ; transcript_support_level 1 ; transcript_type lncRNA
ETV6--LINC01252 HAVANA RNA 21919 31712 . + . FI_gene_label "LINC01252^ENSG00000247157.7" ; ID "ETV6--LINC01252^ENST00000499291.6" ; Parent "ETV6--LINC01252^LINC01252^ENSG00000247157.7" ; exon_id "ENSE00001970124.1" ; exon_number 1 ; gene_id "ETV6--LINC01252^LINC01252^ENSG00000247157.7" ; gene_name LINC01252 ; gene_type lncRNA ; havana_gene "OTTHUMG00000168537.4" ; havana_transcript "OTTHUMT00000400127.1" ; hgnc_id "HGNC:27888" ; level 2 ; orig_coord_info "chr12,11548030,11548360,+" ; tag basic ; transcript_id "ETV6--LINC01252^ENST00000499291.6" ; transcript_name "LINC01252-201" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
GCLC--ABBA01045074.1 HAVANA gene 27096 27452 . + . FI_gene_label "ABBA01045074.1^ENSG00000286916.1" ; ID "GCLC--ABBA01045074.1^ABBA01045074.1^ENSG00000286916.1" ; exon_id "ENSE00003853769.1" ; exon_number 1 ; gene_id "GCLC--ABBA01045074.1^ABBA01045074.1^ENSG00000286916.1" ; gene_name "ABBA01045074.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000193802.1" ; havana_transcript "OTTHUMT00000504834.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr9,43244631,43244987,-" ; tag basic ; transcript_id "GCLC--ABBA01045074.1^ENST00000654042.1" ; transcript_name "ABBA01045074.1-201" ; transcript_type processed_pseudogene
GCLC--ABBA01045074.1 HAVANA RNA 27096 27452 . + . FI_gene_label "ABBA01045074.1^ENSG00000286916.1" ; ID "GCLC--ABBA01045074.1^ENST00000654042.1" ; Parent "GCLC--ABBA01045074.1^ABBA01045074.1^ENSG00000286916.1" ; exon_id "ENSE00003853769.1" ; exon_number 1 ; gene_id "GCLC--ABBA01045074.1^ABBA01045074.1^ENSG00000286916.1" ; gene_name "ABBA01045074.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000193802.1" ; havana_transcript "OTTHUMT00000504834.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr9,43244631,43244987,-" ; tag basic ; transcript_id "GCLC--ABBA01045074.1^ENST00000654042.1" ; transcript_name "ABBA01045074.1-201" ; transcript_type processed_pseudogene
L1 and L2 created:
GCLC--BX088702.1 HAVANA gene 27096 27330 . + . FI_gene_label "BX088702.1^ENSG00000277598.1" ; ID "GCLC--BX088702.1^BX088702.1^ENSG00000277598.1" ; exon_id "ENSE00003720630.1" ; exon_number 1 ; gene_id "GCLC--BX088702.1^BX088702.1^ENSG00000277598.1" ; gene_name "BX088702.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188282.1" ; havana_transcript "OTTHUMT00000476814.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr9,60546920,60547154,-" ; tag basic ; transcript_id "GCLC--BX088702.1^ENST00000610784.1" ; transcript_name "BX088702.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
GCLC--BX088702.1 HAVANA RNA 27096 27330 . + . FI_gene_label "BX088702.1^ENSG00000277598.1" ; ID "GCLC--BX088702.1^ENST00000610784.1" ; Parent "GCLC--BX088702.1^BX088702.1^ENSG00000277598.1" ; exon_id "ENSE00003720630.1" ; exon_number 1 ; gene_id "GCLC--BX088702.1^BX088702.1^ENSG00000277598.1" ; gene_name "BX088702.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188282.1" ; havana_transcript "OTTHUMT00000476814.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr9,60546920,60547154,-" ; tag basic ; transcript_id "GCLC--BX088702.1^ENST00000610784.1" ; transcript_name "BX088702.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
KDM2A--AP002498.1 HAVANA gene 35177 37744 . + . FI_gene_label "AP002498.1^ENSG00000254988.1" ; ID "KDM2A--AP002498.1^AP002498.1^ENSG00000254988.1" ; exon_id "ENSE00002159977.1" ; exon_number 1 ; gene_id "KDM2A--AP002498.1^AP002498.1^ENSG00000254988.1" ; gene_name "AP002498.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000165241.1" ; havana_transcript "OTTHUMT00000382882.1" ; level 1 ; orig_coord_info "chr11,76978401,76978619,-" ; tag basic exp_conf ; transcript_id "KDM2A--AP002498.1^ENST00000530190.1" ; transcript_name "AP002498.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
KDM2A--AP002498.1 HAVANA RNA 35177 37744 . + . FI_gene_label "AP002498.1^ENSG00000254988.1" ; ID "KDM2A--AP002498.1^ENST00000530190.1" ; Parent "KDM2A--AP002498.1^AP002498.1^ENSG00000254988.1" ; exon_id "ENSE00002159977.1" ; exon_number 1 ; gene_id "KDM2A--AP002498.1^AP002498.1^ENSG00000254988.1" ; gene_name "AP002498.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000165241.1" ; havana_transcript "OTTHUMT00000382882.1" ; level 1 ; orig_coord_info "chr11,76978401,76978619,-" ; tag basic exp_conf ; transcript_id "KDM2A--AP002498.1^ENST00000530190.1" ; transcript_name "AP002498.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
MTND1P17--XKR3 HAVANA gene 1001 1204 . + . FI_gene_label "MTND1P17^ENSG00000228122.1" ; ID "MTND1P17--XKR3^MTND1P17^ENSG00000228122.1" ; exon_id "ENSE00001782881.1" ; exon_number 1 ; gene_id "MTND1P17--XKR3^MTND1P17^ENSG00000228122.1" ; gene_name MTND1P17 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000147347.1" ; havana_transcript "OTTHUMT00000303965.1" ; hgnc_id "HGNC:42095" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr22,16876218,16876421,-" ; tag basic ; transcript_id "MTND1P17--XKR3^ENST00000448961.1" ; transcript_name "MTND1P17-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
MTND1P17--XKR3 HAVANA RNA 1001 1204 . + . FI_gene_label "MTND1P17^ENSG00000228122.1" ; ID "MTND1P17--XKR3^ENST00000448961.1" ; Parent "MTND1P17--XKR3^MTND1P17^ENSG00000228122.1" ; exon_id "ENSE00001782881.1" ; exon_number 1 ; gene_id "MTND1P17--XKR3^MTND1P17^ENSG00000228122.1" ; gene_name MTND1P17 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000147347.1" ; havana_transcript "OTTHUMT00000303965.1" ; hgnc_id "HGNC:42095" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr22,16876218,16876421,-" ; tag basic ; transcript_id "MTND1P17--XKR3^ENST00000448961.1" ; transcript_name "MTND1P17-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
NBEA--HNRNPA3P5 HAVANA gene 69833 70665 . + . FI_gene_label "HNRNPA3P5^ENSG00000236565.3" ; ID "NBEA--HNRNPA3P5^HNRNPA3P5^ENSG00000236565.3" ; exon_id "ENSE00001695237.1" ; exon_number 1 ; gene_id "NBEA--HNRNPA3P5^HNRNPA3P5^ENSG00000236565.3" ; gene_name HNRNPA3P5 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000017031.2" ; havana_transcript "OTTHUMT00000045205.2" ; hgnc_id "HGNC:39774" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr13,65787932,65788764,-" ; tag pseudo_consens basic ; transcript_id "NBEA--HNRNPA3P5^ENST00000455201.1" ; transcript_name "HNRNPA3P5-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
NBEA--HNRNPA3P5 HAVANA RNA 69833 70665 . + . FI_gene_label "HNRNPA3P5^ENSG00000236565.3" ; ID "NBEA--HNRNPA3P5^ENST00000455201.1" ; Parent "NBEA--HNRNPA3P5^HNRNPA3P5^ENSG00000236565.3" ; exon_id "ENSE00001695237.1" ; exon_number 1 ; gene_id "NBEA--HNRNPA3P5^HNRNPA3P5^ENSG00000236565.3" ; gene_name HNRNPA3P5 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000017031.2" ; havana_transcript "OTTHUMT00000045205.2" ; hgnc_id "HGNC:39774" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr13,65787932,65788764,-" ; tag pseudo_consens basic ; transcript_id "NBEA--HNRNPA3P5^ENST00000455201.1" ; transcript_name "HNRNPA3P5-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
NBEA--STARP1 HAVANA gene 69833 70931 . + . FI_gene_label "STARP1^ENSG00000214266.2" ; ID "NBEA--STARP1^STARP1^ENSG00000214266.2" ; exon_id "ENSE00001791912.1" ; exon_number 1 ; gene_id "NBEA--STARP1^STARP1^ENSG00000214266.2" ; gene_name STARP1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000017030.1" ; havana_transcript "OTTHUMT00000045204.1" ; hgnc_id "HGNC:11360" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr13,65310752,65310953,-" ; tag pseudo_consens basic ; transcript_id "NBEA--STARP1^ENST00000397973.2" ; transcript_name "STARP1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
NBEA--STARP1 HAVANA RNA 69833 70931 . + . FI_gene_label "STARP1^ENSG00000214266.2" ; ID "NBEA--STARP1^ENST00000397973.2" ; Parent "NBEA--STARP1^STARP1^ENSG00000214266.2" ; exon_id "ENSE00001791912.1" ; exon_number 1 ; gene_id "NBEA--STARP1^STARP1^ENSG00000214266.2" ; gene_name STARP1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000017030.1" ; havana_transcript "OTTHUMT00000045204.1" ; hgnc_id "HGNC:11360" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr13,65310752,65310953,-" ; tag pseudo_consens basic ; transcript_id "NBEA--STARP1^ENST00000397973.2" ; transcript_name "STARP1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
PSMD6--PRICKLE2-AS1 HAVANA gene 20737 22073 . + . FI_gene_label "PRICKLE2-AS1^ENSG00000241572.1" ; ID "PSMD6--PRICKLE2-AS1^PRICKLE2-AS1^ENSG00000241572.1" ; exon_id "ENSE00001919976.1" ; exon_number 1 ; gene_id "PSMD6--PRICKLE2-AS1^PRICKLE2-AS1^ENSG00000241572.1" ; gene_name "PRICKLE2-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000158793.1" ; havana_transcript "OTTHUMT00000352239.1" ; hgnc_id "HGNC:40916" ; level 1 ; orig_coord_info "chr3,64099778,64099863,+" ; tag exp_conf ; transcript_id "PSMD6--PRICKLE2-AS1^ENST00000460946.1" ; transcript_name "PRICKLE2-AS1-202" ; transcript_support_level 3 ; transcript_type lncRNA
PSMD6--PRICKLE2-AS1 HAVANA RNA 20737 22073 . + . FI_gene_label "PRICKLE2-AS1^ENSG00000241572.1" ; ID "PSMD6--PRICKLE2-AS1^ENST00000460946.1" ; Parent "PSMD6--PRICKLE2-AS1^PRICKLE2-AS1^ENSG00000241572.1" ; exon_id "ENSE00001919976.1" ; exon_number 1 ; gene_id "PSMD6--PRICKLE2-AS1^PRICKLE2-AS1^ENSG00000241572.1" ; gene_name "PRICKLE2-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000158793.1" ; havana_transcript "OTTHUMT00000352239.1" ; hgnc_id "HGNC:40916" ; level 1 ; orig_coord_info "chr3,64099778,64099863,+" ; tag exp_conf ; transcript_id "PSMD6--PRICKLE2-AS1^ENST00000460946.1" ; transcript_name "PRICKLE2-AS1-202" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
PSMD6--PRICKLE2-AS1 HAVANA gene 15586 24090 . + . FI_gene_label "PRICKLE2-AS1^ENSG00000241111.1" ; ID "PSMD6--PRICKLE2-AS1^PRICKLE2-AS1^ENSG00000241111.1" ; exon_id "ENSE00001939493.1" ; exon_number 1 ; gene_id "PSMD6--PRICKLE2-AS1^PRICKLE2-AS1^ENSG00000241111.1" ; gene_name "PRICKLE2-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000158788.1" ; havana_transcript "OTTHUMT00000352218.1" ; level 2 ; orig_coord_info "chr3,64067964,64068161,+" ; tag basic ; transcript_id "PSMD6--PRICKLE2-AS1^ENST00000482609.1" ; transcript_name "PRICKLE2-AS1-201" ; transcript_support_level 1 ; transcript_type lncRNA
PSMD6--PRICKLE2-AS1 HAVANA RNA 15586 24090 . + . FI_gene_label "PRICKLE2-AS1^ENSG00000241111.1" ; ID "PSMD6--PRICKLE2-AS1^ENST00000482609.1" ; Parent "PSMD6--PRICKLE2-AS1^PRICKLE2-AS1^ENSG00000241111.1" ; exon_id "ENSE00001939493.1" ; exon_number 1 ; gene_id "PSMD6--PRICKLE2-AS1^PRICKLE2-AS1^ENSG00000241111.1" ; gene_name "PRICKLE2-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000158788.1" ; havana_transcript "OTTHUMT00000352218.1" ; level 2 ; orig_coord_info "chr3,64067964,64068161,+" ; tag basic ; transcript_id "PSMD6--PRICKLE2-AS1^ENST00000482609.1" ; transcript_name "PRICKLE2-AS1-201" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
SREK1--LINC02229 HAVANA gene 30092 32747 . + . FI_gene_label "LINC02229^ENSG00000250313.3" ; ID "SREK1--LINC02229^LINC02229^ENSG00000250313.3" ; exon_id "ENSE00002044732.2" ; exon_number 1 ; gene_id "SREK1--LINC02229^LINC02229^ENSG00000250313.3" ; gene_name LINC02229 ; gene_type lncRNA ; havana_gene "OTTHUMG00000162359.3" ; havana_transcript "OTTHUMT00000368628.3" ; hgnc_id "HGNC:53098" ; level 1 ; orig_coord_info "chr5,66511557,66511644,-" ; tag basic TAGENE exp_conf ; transcript_id "SREK1--LINC02229^ENST00000508486.3" ; transcript_name "LINC02229-201" ; transcript_support_level 3 ; transcript_type lncRNA
SREK1--LINC02229 HAVANA RNA 30092 32747 . + . FI_gene_label "LINC02229^ENSG00000250313.3" ; ID "SREK1--LINC02229^ENST00000508486.3" ; Parent "SREK1--LINC02229^LINC02229^ENSG00000250313.3" ; exon_id "ENSE00002044732.2" ; exon_number 1 ; gene_id "SREK1--LINC02229^LINC02229^ENSG00000250313.3" ; gene_name LINC02229 ; gene_type lncRNA ; havana_gene "OTTHUMG00000162359.3" ; havana_transcript "OTTHUMT00000368628.3" ; hgnc_id "HGNC:53098" ; level 1 ; orig_coord_info "chr5,66511557,66511644,-" ; tag basic TAGENE exp_conf ; transcript_id "SREK1--LINC02229^ENST00000508486.3" ; transcript_name "LINC02229-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
SREK1--PPIAP78 HAVANA gene 30092 30581 . + . FI_gene_label "PPIAP78^ENSG00000234838.3" ; ID "SREK1--PPIAP78^PPIAP78^ENSG00000234838.3" ; exon_id "ENSE00002065874.1" ; exon_number 1 ; gene_id "SREK1--PPIAP78^PPIAP78^ENSG00000234838.3" ; gene_name PPIAP78 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000162362.2" ; havana_transcript "OTTHUMT00000368632.2" ; hgnc_id "HGNC:53702" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr5,66572057,66572546,+" ; tag pseudo_consens basic ; transcript_id "SREK1--PPIAP78^ENST00000414951.2" ; transcript_name "PPIAP78-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
SREK1--PPIAP78 HAVANA RNA 30092 30581 . + . FI_gene_label "PPIAP78^ENSG00000234838.3" ; ID "SREK1--PPIAP78^ENST00000414951.2" ; Parent "SREK1--PPIAP78^PPIAP78^ENSG00000234838.3" ; exon_id "ENSE00002065874.1" ; exon_number 1 ; gene_id "SREK1--PPIAP78^PPIAP78^ENSG00000234838.3" ; gene_name PPIAP78 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000162362.2" ; havana_transcript "OTTHUMT00000368632.2" ; hgnc_id "HGNC:53702" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr5,66572057,66572546,+" ; tag pseudo_consens basic ; transcript_id "SREK1--PPIAP78^ENST00000414951.2" ; transcript_name "PPIAP78-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TAF2--AC021733.2 HAVANA gene 35669 38993 . + . FI_gene_label "AC021733.2^ENSG00000253398.1" ; ID "TAF2--AC021733.2^AC021733.2^ENSG00000253398.1" ; exon_id "ENSE00002090277.1" ; exon_number 1 ; gene_id "TAF2--AC021733.2^AC021733.2^ENSG00000253398.1" ; gene_name "AC021733.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000164985.1" ; havana_transcript "OTTHUMT00000381304.1" ; level 2 ; orig_coord_info "chr8,119462287,119462350,-" ; tag basic ; transcript_id "TAF2--AC021733.2^ENST00000519786.1" ; transcript_name "AC021733.2-201" ; transcript_support_level 3 ; transcript_type lncRNA
TAF2--AC021733.2 HAVANA RNA 35669 38993 . + . FI_gene_label "AC021733.2^ENSG00000253398.1" ; ID "TAF2--AC021733.2^ENST00000519786.1" ; Parent "TAF2--AC021733.2^AC021733.2^ENSG00000253398.1" ; exon_id "ENSE00002090277.1" ; exon_number 1 ; gene_id "TAF2--AC021733.2^AC021733.2^ENSG00000253398.1" ; gene_name "AC021733.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000164985.1" ; havana_transcript "OTTHUMT00000381304.1" ; level 2 ; orig_coord_info "chr8,119462287,119462350,-" ; tag basic ; transcript_id "TAF2--AC021733.2^ENST00000519786.1" ; transcript_name "AC021733.2-201" ; transcript_support_level 3 ; 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
748 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 -------------------------
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------------------------------ 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
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----------------------------- Check10: check utrs ------------------------------
1466 UTRs created that were missing
No UTRs locations modified
No supernumerary UTRs removed
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------------------------ Check11: all level2 locations -------------------------
No problem found
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------------------------ Check12: all level1 locations -------------------------
We fixed 59 wrong level1 location cases
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---------------------- Check13: remove identical isoforms ----------------------
Lets remove isoform WWP2--NFAT5^ENST00000650987.1
1 identical isoforms removed
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------ End checks (done in 0 second) ------
GFF3 file parsed