Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/817c9b6a2284ec1cb81b041bf4c451/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c0/809a9daab74dc817a77520e0eae474/fi_workdir/659_buD-T1-TRNA-1_B23WHTKLT4_1.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/817c9b6a2284ec1cb81b041bf4c451/.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: 9673
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 9673
=> 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:9673
=> 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:
AC011374.3--GLRA1 HAVANA gene 5519 16961 . + . FI_gene_label "GLRA1^ENSG00000145888.11" ; ID "AC011374.3--GLRA1^GLRA1^ENSG00000145888.11" ; ccdsid "CCDS4320.1" ; exon_id "ENSE00001342918.2" ; exon_number 1 ; gene_id "AC011374.3--GLRA1^GLRA1^ENSG00000145888.11" ; gene_name GLRA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130121.2" ; havana_transcript "OTTHUMT00000252429.2" ; hgnc_id "HGNC:4326" ; level 2 ; orig_coord_info "chr5,151924494,151924549,-" ; protein_id "ENSP00000274576.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "AC011374.3--GLRA1^ENST00000274576.9" ; transcript_name "GLRA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC011374.3--GLRA1 HAVANA mRNA 5519 16961 . + . FI_gene_label "GLRA1^ENSG00000145888.11" ; ID "AC011374.3--GLRA1^ENST00000274576.9" ; Parent "AC011374.3--GLRA1^GLRA1^ENSG00000145888.11" ; ccdsid "CCDS4320.1" ; exon_id "ENSE00001342918.2" ; exon_number 1 ; gene_id "AC011374.3--GLRA1^GLRA1^ENSG00000145888.11" ; gene_name GLRA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130121.2" ; havana_transcript "OTTHUMT00000252429.2" ; hgnc_id "HGNC:4326" ; level 2 ; orig_coord_info "chr5,151924494,151924549,-" ; protein_id "ENSP00000274576.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "AC011374.3--GLRA1^ENST00000274576.9" ; transcript_name "GLRA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ARID4B--LINC01348 HAVANA gene 1041 32980 . + . FI_gene_label "ARID4B^ENSG00000054267.22" ; ID "ARID4B--LINC01348^ARID4B^ENSG00000054267.22" ; ccdsid "CCDS31061.1" ; exon_id "ENSE00003603903.1" ; exon_number 2 ; gene_id "ARID4B--LINC01348^ARID4B^ENSG00000054267.22" ; gene_name ARID4B ; gene_type protein_coding ; havana_gene "OTTHUMG00000039621.9" ; havana_transcript "OTTHUMT00000492322.2" ; hgnc_id "HGNC:15550" ; level 2 ; orig_coord_info "chr1,235326914,235326919,-" ; protein_id "ENSP00000264183.3" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARID4B--LINC01348^ENST00000264183.9" ; transcript_name "ARID4B-201" ; transcript_support_level 1 ; transcript_type protein_coding
ARID4B--LINC01348 HAVANA mRNA 1041 32980 . + . FI_gene_label "ARID4B^ENSG00000054267.22" ; ID "ARID4B--LINC01348^ENST00000264183.9" ; Parent "ARID4B--LINC01348^ARID4B^ENSG00000054267.22" ; ccdsid "CCDS31061.1" ; exon_id "ENSE00003603903.1" ; exon_number 2 ; gene_id "ARID4B--LINC01348^ARID4B^ENSG00000054267.22" ; gene_name ARID4B ; gene_type protein_coding ; havana_gene "OTTHUMG00000039621.9" ; havana_transcript "OTTHUMT00000492322.2" ; hgnc_id "HGNC:15550" ; level 2 ; orig_coord_info "chr1,235326914,235326919,-" ; protein_id "ENSP00000264183.3" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARID4B--LINC01348^ENST00000264183.9" ; transcript_name "ARID4B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ATP8A1--APBB2 HAVANA gene 1013 46420 . + . FI_gene_label "ATP8A1^ENSG00000124406.16" ; ID "ATP8A1--APBB2^ATP8A1^ENSG00000124406.16" ; ccdsid "CCDS47049.1" ; exon_id "ENSE00001809509.1" ; exon_number 1 ; gene_id "ATP8A1--APBB2^ATP8A1^ENSG00000124406.16" ; gene_name ATP8A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000099403.3" ; havana_transcript "OTTHUMT00000363531.1" ; hgnc_id "HGNC:13531" ; level 2 ; orig_coord_info "chr4,42656825,42656873,-" ; protein_id "ENSP00000264449.10" ; tag basic appris_principal_3 CCDS ; transcript_id "ATP8A1--APBB2^ENST00000264449.14" ; transcript_name "ATP8A1-201" ; transcript_support_level 1 ; transcript_type protein_coding
ATP8A1--APBB2 HAVANA mRNA 1013 46420 . + . FI_gene_label "ATP8A1^ENSG00000124406.16" ; ID "ATP8A1--APBB2^ENST00000264449.14" ; Parent "ATP8A1--APBB2^ATP8A1^ENSG00000124406.16" ; ccdsid "CCDS47049.1" ; exon_id "ENSE00001809509.1" ; exon_number 1 ; gene_id "ATP8A1--APBB2^ATP8A1^ENSG00000124406.16" ; gene_name ATP8A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000099403.3" ; havana_transcript "OTTHUMT00000363531.1" ; hgnc_id "HGNC:13531" ; level 2 ; orig_coord_info "chr4,42656825,42656873,-" ; protein_id "ENSP00000264449.10" ; tag basic appris_principal_3 CCDS ; transcript_id "ATP8A1--APBB2^ENST00000264449.14" ; transcript_name "ATP8A1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ATP8A1--APBB2 HAVANA gene 50634 85649 . + . FI_gene_label "APBB2^ENSG00000163697.17" ; ID "ATP8A1--APBB2^APBB2^ENSG00000163697.17" ; ccdsid "CCDS54761.1" ; exon_id "ENSE00001308464.1" ; exon_number 5 ; gene_id "ATP8A1--APBB2^APBB2^ENSG00000163697.17" ; gene_name APBB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160416.12" ; havana_transcript "OTTHUMT00000360523.3" ; hgnc_id "HGNC:582" ; level 2 ; orig_coord_info "chr4,41033236,41033254,-" ; protein_id "ENSP00000295974.8" ; tag basic appris_alternative_1 CCDS ; transcript_id "ATP8A1--APBB2^ENST00000295974.12" ; transcript_name "APBB2-201" ; transcript_support_level 2 ; transcript_type protein_coding
ATP8A1--APBB2 HAVANA mRNA 50634 85649 . + . FI_gene_label "APBB2^ENSG00000163697.17" ; ID "ATP8A1--APBB2^ENST00000295974.12" ; Parent "ATP8A1--APBB2^APBB2^ENSG00000163697.17" ; ccdsid "CCDS54761.1" ; exon_id "ENSE00001308464.1" ; exon_number 5 ; gene_id "ATP8A1--APBB2^APBB2^ENSG00000163697.17" ; gene_name APBB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160416.12" ; havana_transcript "OTTHUMT00000360523.3" ; hgnc_id "HGNC:582" ; level 2 ; orig_coord_info "chr4,41033236,41033254,-" ; protein_id "ENSP00000295974.8" ; tag basic appris_alternative_1 CCDS ; transcript_id "ATP8A1--APBB2^ENST00000295974.12" ; transcript_name "APBB2-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
CHAC1--ISCA1P4 HAVANA gene 1001 3752 . + . FI_gene_label "CHAC1^ENSG00000128965.13" ; ID "CHAC1--ISCA1P4^CHAC1^ENSG00000128965.13" ; exon_id "ENSE00001741992.2" ; exon_number 1 ; gene_id "CHAC1--ISCA1P4^CHAC1^ENSG00000128965.13" ; gene_name CHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130208.11" ; havana_transcript "OTTHUMT00000418862.2" ; hgnc_id "HGNC:28680" ; level 2 ; orig_coord_info "chr15,40953584,40953814,+" ; protein_id "ENSP00000395466.3" ; tag upstream_ATG basic ; transcript_id "CHAC1--ISCA1P4^ENST00000444189.7" ; transcript_name "CHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CHAC1--ISCA1P4 HAVANA mRNA 1001 3752 . + . FI_gene_label "CHAC1^ENSG00000128965.13" ; ID "CHAC1--ISCA1P4^ENST00000444189.7" ; Parent "CHAC1--ISCA1P4^CHAC1^ENSG00000128965.13" ; exon_id "ENSE00001741992.2" ; exon_number 1 ; gene_id "CHAC1--ISCA1P4^CHAC1^ENSG00000128965.13" ; gene_name CHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130208.11" ; havana_transcript "OTTHUMT00000418862.2" ; hgnc_id "HGNC:28680" ; level 2 ; orig_coord_info "chr15,40953584,40953814,+" ; protein_id "ENSP00000395466.3" ; tag upstream_ATG basic ; transcript_id "CHAC1--ISCA1P4^ENST00000444189.7" ; transcript_name "CHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CYB5R4--SUMF1 HAVANA gene 30911 40824 . + . FI_gene_label "SUMF1^ENSG00000144455.14" ; ID "CYB5R4--SUMF1^SUMF1^ENSG00000144455.14" ; ccdsid "CCDS2564.1" ; exon_id "ENSE00001939829.1" ; exon_number 1 ; gene_id "CYB5R4--SUMF1^SUMF1^ENSG00000144455.14" ; gene_name SUMF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000090269.6" ; havana_transcript "OTTHUMT00000206591.3" ; hgnc_id "HGNC:20376" ; level 2 ; orig_coord_info "chr3,4466976,4467245,-" ; protein_id "ENSP00000272902.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CYB5R4--SUMF1^ENST00000272902.10" ; transcript_name "SUMF1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CYB5R4--SUMF1 HAVANA mRNA 30911 40824 . + . FI_gene_label "SUMF1^ENSG00000144455.14" ; ID "CYB5R4--SUMF1^ENST00000272902.10" ; Parent "CYB5R4--SUMF1^SUMF1^ENSG00000144455.14" ; ccdsid "CCDS2564.1" ; exon_id "ENSE00001939829.1" ; exon_number 1 ; gene_id "CYB5R4--SUMF1^SUMF1^ENSG00000144455.14" ; gene_name SUMF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000090269.6" ; havana_transcript "OTTHUMT00000206591.3" ; hgnc_id "HGNC:20376" ; level 2 ; orig_coord_info "chr3,4466976,4467245,-" ; protein_id "ENSP00000272902.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CYB5R4--SUMF1^ENST00000272902.10" ; transcript_name "SUMF1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CYB5R4--SUMF1 HAVANA gene 1001 5745 . + . FI_gene_label "CYB5R4^ENSG00000065615.14" ; ID "CYB5R4--SUMF1^CYB5R4^ENSG00000065615.14" ; exon_id "ENSE00003568542.1" ; exon_number 2 ; gene_id "CYB5R4--SUMF1^CYB5R4^ENSG00000065615.14" ; gene_name CYB5R4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015118.6" ; havana_transcript "OTTHUMT00000041364.2" ; hgnc_id "HGNC:20147" ; level 2 ; orig_coord_info "chr6,83864202,83864328,+" ; protein_id "ENSP00000358693.4" ; tag basic ; transcript_id "CYB5R4--SUMF1^ENST00000369679.4" ; transcript_name "CYB5R4-201" ; transcript_support_level 3 ; transcript_type protein_coding
CYB5R4--SUMF1 HAVANA mRNA 1001 5745 . + . FI_gene_label "CYB5R4^ENSG00000065615.14" ; ID "CYB5R4--SUMF1^ENST00000369679.4" ; Parent "CYB5R4--SUMF1^CYB5R4^ENSG00000065615.14" ; exon_id "ENSE00003568542.1" ; exon_number 2 ; gene_id "CYB5R4--SUMF1^CYB5R4^ENSG00000065615.14" ; gene_name CYB5R4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015118.6" ; havana_transcript "OTTHUMT00000041364.2" ; hgnc_id "HGNC:20147" ; level 2 ; orig_coord_info "chr6,83864202,83864328,+" ; protein_id "ENSP00000358693.4" ; tag basic ; transcript_id "CYB5R4--SUMF1^ENST00000369679.4" ; transcript_name "CYB5R4-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
DTL--RGPD5 HAVANA gene 23651 55725 . + . FI_gene_label "RGPD5^ENSG00000015568.13" ; ID "DTL--RGPD5^RGPD5^ENSG00000015568.13" ; ccdsid "CCDS2082.1" ; exon_id "ENSE00002432472.1" ; exon_number 1 ; gene_id "DTL--RGPD5^RGPD5^ENSG00000015568.13" ; gene_name RGPD5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130985.18" ; havana_transcript "OTTHUMT00000253599.4" ; hgnc_id "HGNC:32418" ; level 2 ; orig_coord_info "chr2,109794466,109794537,+" ; protein_id "ENSP00000016946.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DTL--RGPD5^ENST00000016946.8" ; transcript_name "RGPD5-201" ; transcript_support_level 1 ; transcript_type protein_coding
DTL--RGPD5 HAVANA mRNA 23651 55725 . + . FI_gene_label "RGPD5^ENSG00000015568.13" ; ID "DTL--RGPD5^ENST00000016946.8" ; Parent "DTL--RGPD5^RGPD5^ENSG00000015568.13" ; ccdsid "CCDS2082.1" ; exon_id "ENSE00002432472.1" ; exon_number 1 ; gene_id "DTL--RGPD5^RGPD5^ENSG00000015568.13" ; gene_name RGPD5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130985.18" ; havana_transcript "OTTHUMT00000253599.4" ; hgnc_id "HGNC:32418" ; level 2 ; orig_coord_info "chr2,109794466,109794537,+" ; protein_id "ENSP00000016946.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DTL--RGPD5^ENST00000016946.8" ; transcript_name "RGPD5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
DTL--RGPD5 HAVANA gene 1196 18232 . + . FI_gene_label "DTL^ENSG00000143476.18" ; ID "DTL--RGPD5^DTL^ENSG00000143476.18" ; ccdsid "CCDS1502.1" ; exon_id "ENSE00001355894.4" ; exon_number 1 ; gene_id "DTL--RGPD5^DTL^ENSG00000143476.18" ; gene_name DTL ; gene_type protein_coding ; havana_gene "OTTHUMG00000037133.2" ; havana_transcript "OTTHUMT00000090182.2" ; hgnc_id "HGNC:30288" ; level 2 ; orig_coord_info "chr1,212035891,212035942,+" ; protein_id "ENSP00000355958.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DTL--RGPD5^ENST00000366991.5" ; transcript_name "DTL-201" ; transcript_support_level 1 ; transcript_type protein_coding
DTL--RGPD5 HAVANA mRNA 1196 18232 . + . FI_gene_label "DTL^ENSG00000143476.18" ; ID "DTL--RGPD5^ENST00000366991.5" ; Parent "DTL--RGPD5^DTL^ENSG00000143476.18" ; ccdsid "CCDS1502.1" ; exon_id "ENSE00001355894.4" ; exon_number 1 ; gene_id "DTL--RGPD5^DTL^ENSG00000143476.18" ; gene_name DTL ; gene_type protein_coding ; havana_gene "OTTHUMG00000037133.2" ; havana_transcript "OTTHUMT00000090182.2" ; hgnc_id "HGNC:30288" ; level 2 ; orig_coord_info "chr1,212035891,212035942,+" ; protein_id "ENSP00000355958.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DTL--RGPD5^ENST00000366991.5" ; transcript_name "DTL-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ERC1--AC007207.1 HAVANA gene 1730 37441 . + . FI_gene_label "ERC1^ENSG00000082805.20" ; ID "ERC1--AC007207.1^ERC1^ENSG00000082805.20" ; exon_id "ENSE00001318114.5" ; exon_number 2 ; gene_id "ERC1--AC007207.1^ERC1^ENSG00000082805.20" ; gene_name ERC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130138.14" ; havana_transcript "OTTHUMT00000398378.1" ; hgnc_id "HGNC:17072" ; level 2 ; orig_coord_info "chr12,1027904,1028572,+" ; protein_id "ENSP00000340054.6" ; transcript_id "ERC1--AC007207.1^ENST00000347735.10" ; transcript_name "ERC1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
ERC1--AC007207.1 HAVANA mRNA 1730 37441 . + . FI_gene_label "ERC1^ENSG00000082805.20" ; ID "ERC1--AC007207.1^ENST00000347735.10" ; Parent "ERC1--AC007207.1^ERC1^ENSG00000082805.20" ; exon_id "ENSE00001318114.5" ; exon_number 2 ; gene_id "ERC1--AC007207.1^ERC1^ENSG00000082805.20" ; gene_name ERC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130138.14" ; havana_transcript "OTTHUMT00000398378.1" ; hgnc_id "HGNC:17072" ; level 2 ; orig_coord_info "chr12,1027904,1028572,+" ; protein_id "ENSP00000340054.6" ; transcript_id "ERC1--AC007207.1^ENST00000347735.10" ; transcript_name "ERC1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
ERC1--CCND2-AS1 HAVANA gene 1730 37441 . + . FI_gene_label "ERC1^ENSG00000082805.20" ; ID "ERC1--CCND2-AS1^ERC1^ENSG00000082805.20" ; exon_id "ENSE00001318114.5" ; exon_number 2 ; gene_id "ERC1--CCND2-AS1^ERC1^ENSG00000082805.20" ; gene_name ERC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130138.14" ; havana_transcript "OTTHUMT00000398378.1" ; hgnc_id "HGNC:17072" ; level 2 ; orig_coord_info "chr12,1027904,1028572,+" ; protein_id "ENSP00000340054.6" ; transcript_id "ERC1--CCND2-AS1^ENST00000347735.10" ; transcript_name "ERC1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
ERC1--CCND2-AS1 HAVANA mRNA 1730 37441 . + . FI_gene_label "ERC1^ENSG00000082805.20" ; ID "ERC1--CCND2-AS1^ENST00000347735.10" ; Parent "ERC1--CCND2-AS1^ERC1^ENSG00000082805.20" ; exon_id "ENSE00001318114.5" ; exon_number 2 ; gene_id "ERC1--CCND2-AS1^ERC1^ENSG00000082805.20" ; gene_name ERC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130138.14" ; havana_transcript "OTTHUMT00000398378.1" ; hgnc_id "HGNC:17072" ; level 2 ; orig_coord_info "chr12,1027904,1028572,+" ; protein_id "ENSP00000340054.6" ; transcript_id "ERC1--CCND2-AS1^ENST00000347735.10" ; transcript_name "ERC1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
ERC1--CCND2 HAVANA gene 47015 60640 . + . FI_gene_label "CCND2^ENSG00000118971.9" ; ID "ERC1--CCND2^CCND2^ENSG00000118971.9" ; ccdsid "CCDS8524.1" ; exon_id "ENSE00000802837.5" ; exon_number 1 ; gene_id "ERC1--CCND2^CCND2^ENSG00000118971.9" ; gene_name CCND2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168123.4" ; havana_transcript "OTTHUMT00000398287.2" ; hgnc_id "HGNC:1583" ; level 2 ; orig_coord_info "chr12,4274041,4274235,+" ; protein_id "ENSP00000261254.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ERC1--CCND2^ENST00000261254.8" ; transcript_name "CCND2-201" ; transcript_support_level 1 ; transcript_type protein_coding
ERC1--CCND2 HAVANA mRNA 47015 60640 . + . FI_gene_label "CCND2^ENSG00000118971.9" ; ID "ERC1--CCND2^ENST00000261254.8" ; Parent "ERC1--CCND2^CCND2^ENSG00000118971.9" ; ccdsid "CCDS8524.1" ; exon_id "ENSE00000802837.5" ; exon_number 1 ; gene_id "ERC1--CCND2^CCND2^ENSG00000118971.9" ; gene_name CCND2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168123.4" ; havana_transcript "OTTHUMT00000398287.2" ; hgnc_id "HGNC:1583" ; level 2 ; orig_coord_info "chr12,4274041,4274235,+" ; protein_id "ENSP00000261254.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ERC1--CCND2^ENST00000261254.8" ; transcript_name "CCND2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ERC1--CCND2 HAVANA gene 1730 37441 . + . FI_gene_label "ERC1^ENSG00000082805.20" ; ID "ERC1--CCND2^ERC1^ENSG00000082805.20" ; exon_id "ENSE00001318114.5" ; exon_number 2 ; gene_id "ERC1--CCND2^ERC1^ENSG00000082805.20" ; gene_name ERC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130138.14" ; havana_transcript "OTTHUMT00000398378.1" ; hgnc_id "HGNC:17072" ; level 2 ; orig_coord_info "chr12,1027904,1028572,+" ; protein_id "ENSP00000340054.6" ; transcript_id "ERC1--CCND2^ENST00000347735.10" ; transcript_name "ERC1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
ERC1--CCND2 HAVANA mRNA 1730 37441 . + . FI_gene_label "ERC1^ENSG00000082805.20" ; ID "ERC1--CCND2^ENST00000347735.10" ; Parent "ERC1--CCND2^ERC1^ENSG00000082805.20" ; exon_id "ENSE00001318114.5" ; exon_number 2 ; gene_id "ERC1--CCND2^ERC1^ENSG00000082805.20" ; gene_name ERC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130138.14" ; havana_transcript "OTTHUMT00000398378.1" ; hgnc_id "HGNC:17072" ; level 2 ; orig_coord_info "chr12,1027904,1028572,+" ; protein_id "ENSP00000340054.6" ; transcript_id "ERC1--CCND2^ENST00000347735.10" ; transcript_name "ERC1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
ETV6--ATF7IP ENSEMBL gene 21919 56298 . + . FI_gene_label "ATF7IP^ENSG00000171681.12" ; ID "ETV6--ATF7IP^ATF7IP^ENSG00000171681.12" ; ccdsid "CCDS8663.1" ; exon_id "ENSE00003656862.1" ; exon_number 2 ; gene_id "ETV6--ATF7IP^ATF7IP^ENSG00000171681.12" ; gene_name ATF7IP ; gene_type protein_coding ; havana_gene "OTTHUMG00000168656.14" ; hgnc_id "HGNC:20092" ; level 3 ; orig_coord_info "chr12,14423916,14425473,+" ; protein_id "ENSP00000261168.4" ; tag basic appris_principal_4 CCDS ; transcript_id "ETV6--ATF7IP^ENST00000261168.8" ; transcript_name "ATF7IP-201" ; transcript_support_level 5 ; transcript_type protein_coding
ETV6--ATF7IP ENSEMBL mRNA 21919 56298 . + . FI_gene_label "ATF7IP^ENSG00000171681.12" ; ID "ETV6--ATF7IP^ENST00000261168.8" ; Parent "ETV6--ATF7IP^ATF7IP^ENSG00000171681.12" ; ccdsid "CCDS8663.1" ; exon_id "ENSE00003656862.1" ; exon_number 2 ; gene_id "ETV6--ATF7IP^ATF7IP^ENSG00000171681.12" ; gene_name ATF7IP ; gene_type protein_coding ; havana_gene "OTTHUMG00000168656.14" ; hgnc_id "HGNC:20092" ; level 3 ; orig_coord_info "chr12,14423916,14425473,+" ; protein_id "ENSP00000261168.4" ; tag basic appris_principal_4 CCDS ; transcript_id "ETV6--ATF7IP^ENST00000261168.8" ; transcript_name "ATF7IP-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
ETV6--ATF7IP HAVANA gene 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--ATF7IP^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--ATF7IP^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--ATF7IP^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
ETV6--ATF7IP HAVANA mRNA 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--ATF7IP^ENST00000266427.3" ; Parent "ETV6--ATF7IP^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--ATF7IP^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--ATF7IP^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
ETV6--GNAI2P1 HAVANA gene 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--GNAI2P1^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--GNAI2P1^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--GNAI2P1^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
ETV6--GNAI2P1 HAVANA mRNA 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--GNAI2P1^ENST00000266427.3" ; Parent "ETV6--GNAI2P1^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--GNAI2P1^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--GNAI2P1^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
ETV6--RPL30P11 HAVANA gene 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--RPL30P11^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--RPL30P11^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--RPL30P11^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
ETV6--RPL30P11 HAVANA mRNA 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--RPL30P11^ENST00000266427.3" ; Parent "ETV6--RPL30P11^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--RPL30P11^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--RPL30P11^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
FAT2--GLRA1 HAVANA gene 1001 36723 . + . FI_gene_label "FAT2^ENSG00000086570.12" ; ID "FAT2--GLRA1^FAT2^ENSG00000086570.12" ; ccdsid "CCDS4317.1" ; exon_id "ENSE00002287987.1" ; exon_number 1 ; gene_id "FAT2--GLRA1^FAT2^ENSG00000086570.12" ; gene_name FAT2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130126.2" ; havana_transcript "OTTHUMT00000252434.1" ; hgnc_id "HGNC:3596" ; level 2 ; orig_coord_info "chr5,151565673,151568931,-" ; protein_id "ENSP00000261800.5" ; tag basic appris_principal_1 CCDS ; transcript_id "FAT2--GLRA1^ENST00000261800.5" ; transcript_name "FAT2-201" ; transcript_support_level 1 ; transcript_type protein_coding
FAT2--GLRA1 HAVANA mRNA 1001 36723 . + . FI_gene_label "FAT2^ENSG00000086570.12" ; ID "FAT2--GLRA1^ENST00000261800.5" ; Parent "FAT2--GLRA1^FAT2^ENSG00000086570.12" ; ccdsid "CCDS4317.1" ; exon_id "ENSE00002287987.1" ; exon_number 1 ; gene_id "FAT2--GLRA1^FAT2^ENSG00000086570.12" ; gene_name FAT2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130126.2" ; havana_transcript "OTTHUMT00000252434.1" ; hgnc_id "HGNC:3596" ; level 2 ; orig_coord_info "chr5,151565673,151568931,-" ; protein_id "ENSP00000261800.5" ; tag basic appris_principal_1 CCDS ; transcript_id "FAT2--GLRA1^ENST00000261800.5" ; transcript_name "FAT2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
FAT2--GLRA1 HAVANA gene 39725 51167 . + . FI_gene_label "GLRA1^ENSG00000145888.11" ; ID "FAT2--GLRA1^GLRA1^ENSG00000145888.11" ; ccdsid "CCDS4320.1" ; exon_id "ENSE00001342918.2" ; exon_number 1 ; gene_id "FAT2--GLRA1^GLRA1^ENSG00000145888.11" ; gene_name GLRA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130121.2" ; havana_transcript "OTTHUMT00000252429.2" ; hgnc_id "HGNC:4326" ; level 2 ; orig_coord_info "chr5,151924494,151924549,-" ; protein_id "ENSP00000274576.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "FAT2--GLRA1^ENST00000274576.9" ; transcript_name "GLRA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
FAT2--GLRA1 HAVANA mRNA 39725 51167 . + . FI_gene_label "GLRA1^ENSG00000145888.11" ; ID "FAT2--GLRA1^ENST00000274576.9" ; Parent "FAT2--GLRA1^GLRA1^ENSG00000145888.11" ; ccdsid "CCDS4320.1" ; exon_id "ENSE00001342918.2" ; exon_number 1 ; gene_id "FAT2--GLRA1^GLRA1^ENSG00000145888.11" ; gene_name GLRA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130121.2" ; havana_transcript "OTTHUMT00000252429.2" ; hgnc_id "HGNC:4326" ; level 2 ; orig_coord_info "chr5,151924494,151924549,-" ; protein_id "ENSP00000274576.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "FAT2--GLRA1^ENST00000274576.9" ; transcript_name "GLRA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GALK2--AC023355.1 HAVANA gene 1110 27317 . + . FI_gene_label "GALK2^ENSG00000156958.15" ; ID "GALK2--AC023355.1^GALK2^ENSG00000156958.15" ; ccdsid "CCDS32236.1" ; exon_id "ENSE00002547562.1" ; exon_number 1 ; gene_id "GALK2--AC023355.1^GALK2^ENSG00000156958.15" ; gene_name GALK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000172325.4" ; havana_transcript "OTTHUMT00000417849.2" ; hgnc_id "HGNC:4119" ; level 2 ; orig_coord_info "chr15,49155997,49156016,+" ; protein_id "ENSP00000316632.3" ; tag basic appris_alternative_1 CCDS ; transcript_id "GALK2--AC023355.1^ENST00000327171.7" ; transcript_name "GALK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
GALK2--AC023355.1 HAVANA mRNA 1110 27317 . + . FI_gene_label "GALK2^ENSG00000156958.15" ; ID "GALK2--AC023355.1^ENST00000327171.7" ; Parent "GALK2--AC023355.1^GALK2^ENSG00000156958.15" ; ccdsid "CCDS32236.1" ; exon_id "ENSE00002547562.1" ; exon_number 1 ; gene_id "GALK2--AC023355.1^GALK2^ENSG00000156958.15" ; gene_name GALK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000172325.4" ; havana_transcript "OTTHUMT00000417849.2" ; hgnc_id "HGNC:4119" ; level 2 ; orig_coord_info "chr15,49155997,49156016,+" ; protein_id "ENSP00000316632.3" ; tag basic appris_alternative_1 CCDS ; transcript_id "GALK2--AC023355.1^ENST00000327171.7" ; transcript_name "GALK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KDM4B--BOLA3P2 HAVANA gene 1001 37721 . + . FI_gene_label "KDM4B^ENSG00000127663.15" ; ID "KDM4B--BOLA3P2^KDM4B^ENSG00000127663.15" ; ccdsid "CCDS12138.1" ; exon_id "ENSE00000874797.2" ; exon_number 3 ; gene_id "KDM4B--BOLA3P2^KDM4B^ENSG00000127663.15" ; gene_name KDM4B ; gene_type protein_coding ; havana_gene "OTTHUMG00000180281.5" ; havana_transcript "OTTHUMT00000450558.3" ; hgnc_id "HGNC:29136" ; level 2 ; orig_coord_info "chr19,5032891,5033031,+" ; protein_id "ENSP00000159111.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "KDM4B--BOLA3P2^ENST00000159111.9" ; transcript_name "KDM4B-201" ; transcript_support_level 1 ; transcript_type protein_coding
KDM4B--BOLA3P2 HAVANA mRNA 1001 37721 . + . FI_gene_label "KDM4B^ENSG00000127663.15" ; ID "KDM4B--BOLA3P2^ENST00000159111.9" ; Parent "KDM4B--BOLA3P2^KDM4B^ENSG00000127663.15" ; ccdsid "CCDS12138.1" ; exon_id "ENSE00000874797.2" ; exon_number 3 ; gene_id "KDM4B--BOLA3P2^KDM4B^ENSG00000127663.15" ; gene_name KDM4B ; gene_type protein_coding ; havana_gene "OTTHUMG00000180281.5" ; havana_transcript "OTTHUMT00000450558.3" ; hgnc_id "HGNC:29136" ; level 2 ; orig_coord_info "chr19,5032891,5033031,+" ; protein_id "ENSP00000159111.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "KDM4B--BOLA3P2^ENST00000159111.9" ; transcript_name "KDM4B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KDM4B--MUC16 HAVANA gene 1001 37721 . + . FI_gene_label "KDM4B^ENSG00000127663.15" ; ID "KDM4B--MUC16^KDM4B^ENSG00000127663.15" ; ccdsid "CCDS12138.1" ; exon_id "ENSE00000874797.2" ; exon_number 3 ; gene_id "KDM4B--MUC16^KDM4B^ENSG00000127663.15" ; gene_name KDM4B ; gene_type protein_coding ; havana_gene "OTTHUMG00000180281.5" ; havana_transcript "OTTHUMT00000450558.3" ; hgnc_id "HGNC:29136" ; level 2 ; orig_coord_info "chr19,5032891,5033031,+" ; protein_id "ENSP00000159111.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "KDM4B--MUC16^ENST00000159111.9" ; transcript_name "KDM4B-201" ; transcript_support_level 1 ; transcript_type protein_coding
KDM4B--MUC16 HAVANA mRNA 1001 37721 . + . FI_gene_label "KDM4B^ENSG00000127663.15" ; ID "KDM4B--MUC16^ENST00000159111.9" ; Parent "KDM4B--MUC16^KDM4B^ENSG00000127663.15" ; ccdsid "CCDS12138.1" ; exon_id "ENSE00000874797.2" ; exon_number 3 ; gene_id "KDM4B--MUC16^KDM4B^ENSG00000127663.15" ; gene_name KDM4B ; gene_type protein_coding ; havana_gene "OTTHUMG00000180281.5" ; havana_transcript "OTTHUMT00000450558.3" ; hgnc_id "HGNC:29136" ; level 2 ; orig_coord_info "chr19,5032891,5033031,+" ; protein_id "ENSP00000159111.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "KDM4B--MUC16^ENST00000159111.9" ; transcript_name "KDM4B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KDM4B--MUC16 HAVANA gene 40722 132595 . + . FI_gene_label "MUC16^ENSG00000181143.15" ; ID "KDM4B--MUC16^MUC16^ENSG00000181143.15" ; ccdsid "CCDS54212.1" ; exon_id "ENSE00001432158.4" ; exon_number 1 ; gene_id "KDM4B--MUC16^MUC16^ENSG00000181143.15" ; gene_name MUC16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169191.3" ; havana_transcript "OTTHUMT00000402806.1" ; hgnc_id "HGNC:15582" ; level 2 ; orig_coord_info "chr19,8971664,8981138,-" ; protein_id "ENSP00000381008.2" ; tag dotter_confirmed basic appris_principal_1 CCDS ; transcript_id "KDM4B--MUC16^ENST00000397910.8" ; transcript_name "MUC16-201" ; transcript_support_level 5 ; transcript_type protein_coding
KDM4B--MUC16 HAVANA mRNA 40722 132595 . + . FI_gene_label "MUC16^ENSG00000181143.15" ; ID "KDM4B--MUC16^ENST00000397910.8" ; Parent "KDM4B--MUC16^MUC16^ENSG00000181143.15" ; ccdsid "CCDS54212.1" ; exon_id "ENSE00001432158.4" ; exon_number 1 ; gene_id "KDM4B--MUC16^MUC16^ENSG00000181143.15" ; gene_name MUC16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169191.3" ; havana_transcript "OTTHUMT00000402806.1" ; hgnc_id "HGNC:15582" ; level 2 ; orig_coord_info "chr19,8971664,8981138,-" ; protein_id "ENSP00000381008.2" ; tag dotter_confirmed basic appris_principal_1 CCDS ; transcript_id "KDM4B--MUC16^ENST00000397910.8" ; transcript_name "MUC16-201" ; transcript_support_level 5 ; 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:
LIMCH1--AC111198.1 HAVANA gene 2181 49459 . + . FI_gene_label "LIMCH1^ENSG00000064042.18" ; ID "LIMCH1--AC111198.1^LIMCH1^ENSG00000064042.18" ; ccdsid "CCDS33977.1" ; exon_id "ENSE00001251901.4" ; exon_number 1 ; gene_id "LIMCH1--AC111198.1^LIMCH1^ENSG00000064042.18" ; gene_name LIMCH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160575.7" ; havana_transcript "OTTHUMT00000361249.2" ; hgnc_id "HGNC:29191" ; level 2 ; orig_coord_info "chr4,41360841,41360936,+" ; protein_id "ENSP00000316891.7" ; tag basic appris_alternative_2 CCDS ; transcript_id "LIMCH1--AC111198.1^ENST00000313860.11" ; transcript_name "LIMCH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LIMCH1--AC111198.1 HAVANA mRNA 2181 49459 . + . FI_gene_label "LIMCH1^ENSG00000064042.18" ; ID "LIMCH1--AC111198.1^ENST00000313860.11" ; Parent "LIMCH1--AC111198.1^LIMCH1^ENSG00000064042.18" ; ccdsid "CCDS33977.1" ; exon_id "ENSE00001251901.4" ; exon_number 1 ; gene_id "LIMCH1--AC111198.1^LIMCH1^ENSG00000064042.18" ; gene_name LIMCH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160575.7" ; havana_transcript "OTTHUMT00000361249.2" ; hgnc_id "HGNC:29191" ; level 2 ; orig_coord_info "chr4,41360841,41360936,+" ; protein_id "ENSP00000316891.7" ; tag basic appris_alternative_2 CCDS ; transcript_id "LIMCH1--AC111198.1^ENST00000313860.11" ; transcript_name "LIMCH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LIMCH1--GRXCR1 HAVANA gene 2181 49459 . + . FI_gene_label "LIMCH1^ENSG00000064042.18" ; ID "LIMCH1--GRXCR1^LIMCH1^ENSG00000064042.18" ; ccdsid "CCDS33977.1" ; exon_id "ENSE00001251901.4" ; exon_number 1 ; gene_id "LIMCH1--GRXCR1^LIMCH1^ENSG00000064042.18" ; gene_name LIMCH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160575.7" ; havana_transcript "OTTHUMT00000361249.2" ; hgnc_id "HGNC:29191" ; level 2 ; orig_coord_info "chr4,41360841,41360936,+" ; protein_id "ENSP00000316891.7" ; tag basic appris_alternative_2 CCDS ; transcript_id "LIMCH1--GRXCR1^ENST00000313860.11" ; transcript_name "LIMCH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LIMCH1--GRXCR1 HAVANA mRNA 2181 49459 . + . FI_gene_label "LIMCH1^ENSG00000064042.18" ; ID "LIMCH1--GRXCR1^ENST00000313860.11" ; Parent "LIMCH1--GRXCR1^LIMCH1^ENSG00000064042.18" ; ccdsid "CCDS33977.1" ; exon_id "ENSE00001251901.4" ; exon_number 1 ; gene_id "LIMCH1--GRXCR1^LIMCH1^ENSG00000064042.18" ; gene_name LIMCH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160575.7" ; havana_transcript "OTTHUMT00000361249.2" ; hgnc_id "HGNC:29191" ; level 2 ; orig_coord_info "chr4,41360841,41360936,+" ; protein_id "ENSP00000316891.7" ; tag basic appris_alternative_2 CCDS ; transcript_id "LIMCH1--GRXCR1^ENST00000313860.11" ; transcript_name "LIMCH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LIMCH1--GRXCR1 HAVANA gene 52460 57004 . + . FI_gene_label "GRXCR1^ENSG00000215203.3" ; ID "LIMCH1--GRXCR1^GRXCR1^ENSG00000215203.3" ; ccdsid "CCDS43225.1" ; exon_id "ENSE00001540131.2" ; exon_number 1 ; gene_id "LIMCH1--GRXCR1^GRXCR1^ENSG00000215203.3" ; gene_name GRXCR1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160434.1" ; havana_transcript "OTTHUMT00000360576.1" ; hgnc_id "HGNC:31673" ; level 2 ; orig_coord_info "chr4,42893267,42893650,+" ; protein_id "ENSP00000382670.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LIMCH1--GRXCR1^ENST00000399770.3" ; transcript_name "GRXCR1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LIMCH1--GRXCR1 HAVANA mRNA 52460 57004 . + . FI_gene_label "GRXCR1^ENSG00000215203.3" ; ID "LIMCH1--GRXCR1^ENST00000399770.3" ; Parent "LIMCH1--GRXCR1^GRXCR1^ENSG00000215203.3" ; ccdsid "CCDS43225.1" ; exon_id "ENSE00001540131.2" ; exon_number 1 ; gene_id "LIMCH1--GRXCR1^GRXCR1^ENSG00000215203.3" ; gene_name GRXCR1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160434.1" ; havana_transcript "OTTHUMT00000360576.1" ; hgnc_id "HGNC:31673" ; level 2 ; orig_coord_info "chr4,42893267,42893650,+" ; protein_id "ENSP00000382670.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LIMCH1--GRXCR1^ENST00000399770.3" ; transcript_name "GRXCR1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LTBP1--ZNF512 HAVANA gene 44962 59193 . + . FI_gene_label "ZNF512^ENSG00000243943.10" ; ID "LTBP1--ZNF512^ZNF512^ENSG00000243943.10" ; ccdsid "CCDS1758.1" ; exon_id "ENSE00003842873.1" ; exon_number 1 ; gene_id "LTBP1--ZNF512^ZNF512^ENSG00000243943.10" ; gene_name ZNF512 ; gene_type protein_coding ; havana_gene "OTTHUMG00000097786.6" ; havana_transcript "OTTHUMT00000215029.3" ; hgnc_id "HGNC:29380" ; level 2 ; orig_coord_info "chr2,27583113,27583142,+" ; protein_id "ENSP00000347648.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "LTBP1--ZNF512^ENST00000355467.6" ; transcript_name "ZNF512-201" ; transcript_support_level 2 ; transcript_type protein_coding
LTBP1--ZNF512 HAVANA mRNA 44962 59193 . + . FI_gene_label "ZNF512^ENSG00000243943.10" ; ID "LTBP1--ZNF512^ENST00000355467.6" ; Parent "LTBP1--ZNF512^ZNF512^ENSG00000243943.10" ; ccdsid "CCDS1758.1" ; exon_id "ENSE00003842873.1" ; exon_number 1 ; gene_id "LTBP1--ZNF512^ZNF512^ENSG00000243943.10" ; gene_name ZNF512 ; gene_type protein_coding ; havana_gene "OTTHUMG00000097786.6" ; havana_transcript "OTTHUMT00000215029.3" ; hgnc_id "HGNC:29380" ; level 2 ; orig_coord_info "chr2,27583113,27583142,+" ; protein_id "ENSP00000347648.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "LTBP1--ZNF512^ENST00000355467.6" ; transcript_name "ZNF512-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
LTBP1--ZNF512 HAVANA gene 6625 41736 . + . FI_gene_label "LTBP1^ENSG00000049323.16" ; ID "LTBP1--ZNF512^LTBP1^ENSG00000049323.16" ; exon_id "ENSE00001559217.1" ; exon_number 1 ; gene_id "LTBP1--ZNF512^LTBP1^ENSG00000049323.16" ; gene_name LTBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152118.15" ; havana_transcript "OTTHUMT00000325421.3" ; hgnc_id "HGNC:6714" ; level 1 ; orig_coord_info "chr2,33134738,33134960,+" ; protein_id "ENSP00000384373.1" ; tag not_organism_supported basic exp_conf ; transcript_id "LTBP1--ZNF512^ENST00000402934.5" ; transcript_name "LTBP1-201" ; transcript_support_level 5 ; transcript_type protein_coding
LTBP1--ZNF512 HAVANA mRNA 6625 41736 . + . FI_gene_label "LTBP1^ENSG00000049323.16" ; ID "LTBP1--ZNF512^ENST00000402934.5" ; Parent "LTBP1--ZNF512^LTBP1^ENSG00000049323.16" ; exon_id "ENSE00001559217.1" ; exon_number 1 ; gene_id "LTBP1--ZNF512^LTBP1^ENSG00000049323.16" ; gene_name LTBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152118.15" ; havana_transcript "OTTHUMT00000325421.3" ; hgnc_id "HGNC:6714" ; level 1 ; orig_coord_info "chr2,33134738,33134960,+" ; protein_id "ENSP00000384373.1" ; tag not_organism_supported basic exp_conf ; transcript_id "LTBP1--ZNF512^ENST00000402934.5" ; transcript_name "LTBP1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
MCCC1--ABCC5 ENSEMBL gene 28485 66294 . + . FI_gene_label "ABCC5^ENSG00000114770.17" ; ID "MCCC1--ABCC5^ABCC5^ENSG00000114770.17" ; exon_id "ENSE00002701825.1" ; exon_number 2 ; gene_id "MCCC1--ABCC5^ABCC5^ENSG00000114770.17" ; gene_name ABCC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000156871.3" ; hgnc_id "HGNC:56" ; level 3 ; orig_coord_info "chr3,184014264,184014392,-" ; protein_id "ENSP00000265586.6" ; tag basic ; transcript_id "MCCC1--ABCC5^ENST00000265586.10" ; transcript_name "ABCC5-201" ; transcript_support_level 5 ; transcript_type protein_coding
MCCC1--ABCC5 ENSEMBL mRNA 28485 66294 . + . FI_gene_label "ABCC5^ENSG00000114770.17" ; ID "MCCC1--ABCC5^ENST00000265586.10" ; Parent "MCCC1--ABCC5^ABCC5^ENSG00000114770.17" ; exon_id "ENSE00002701825.1" ; exon_number 2 ; gene_id "MCCC1--ABCC5^ABCC5^ENSG00000114770.17" ; gene_name ABCC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000156871.3" ; hgnc_id "HGNC:56" ; level 3 ; orig_coord_info "chr3,184014264,184014392,-" ; protein_id "ENSP00000265586.6" ; tag basic ; transcript_id "MCCC1--ABCC5^ENST00000265586.10" ; transcript_name "ABCC5-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
MCCC1--ABCC5 HAVANA gene 2684 25484 . + . FI_gene_label "MCCC1^ENSG00000078070.13" ; ID "MCCC1--ABCC5^MCCC1^ENSG00000078070.13" ; ccdsid "CCDS3241.1" ; exon_id "ENSE00001887323.2" ; exon_number 1 ; gene_id "MCCC1--ABCC5^MCCC1^ENSG00000078070.13" ; gene_name MCCC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158355.4" ; havana_transcript "OTTHUMT00000350775.2" ; hgnc_id "HGNC:6936" ; level 2 ; orig_coord_info "chr3,183099352,183099440,-" ; protein_id "ENSP00000265594.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MCCC1--ABCC5^ENST00000265594.9" ; transcript_name "MCCC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
MCCC1--ABCC5 HAVANA mRNA 2684 25484 . + . FI_gene_label "MCCC1^ENSG00000078070.13" ; ID "MCCC1--ABCC5^ENST00000265594.9" ; Parent "MCCC1--ABCC5^MCCC1^ENSG00000078070.13" ; ccdsid "CCDS3241.1" ; exon_id "ENSE00001887323.2" ; exon_number 1 ; gene_id "MCCC1--ABCC5^MCCC1^ENSG00000078070.13" ; gene_name MCCC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158355.4" ; havana_transcript "OTTHUMT00000350775.2" ; hgnc_id "HGNC:6936" ; level 2 ; orig_coord_info "chr3,183099352,183099440,-" ; protein_id "ENSP00000265594.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MCCC1--ABCC5^ENST00000265594.9" ; transcript_name "MCCC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MEGF9--GOPC HAVANA gene 15315 27928 . + . FI_gene_label "GOPC^ENSG00000047932.14" ; ID "MEGF9--GOPC^GOPC^ENSG00000047932.14" ; ccdsid "CCDS34523.1" ; exon_id "ENSE00000919104.8" ; exon_number 1 ; gene_id "MEGF9--GOPC^GOPC^ENSG00000047932.14" ; gene_name GOPC ; gene_type protein_coding ; havana_gene "OTTHUMG00000015457.3" ; havana_transcript "OTTHUMT00000041987.1" ; hgnc_id "HGNC:17643" ; level 2 ; orig_coord_info "chr6,117602004,117602288,-" ; protein_id "ENSP00000052569.6" ; tag basic appris_alternative_2 CCDS ; transcript_id "MEGF9--GOPC^ENST00000052569.10" ; transcript_name "GOPC-201" ; transcript_support_level 1 ; transcript_type protein_coding
MEGF9--GOPC HAVANA mRNA 15315 27928 . + . FI_gene_label "GOPC^ENSG00000047932.14" ; ID "MEGF9--GOPC^ENST00000052569.10" ; Parent "MEGF9--GOPC^GOPC^ENSG00000047932.14" ; ccdsid "CCDS34523.1" ; exon_id "ENSE00000919104.8" ; exon_number 1 ; gene_id "MEGF9--GOPC^GOPC^ENSG00000047932.14" ; gene_name GOPC ; gene_type protein_coding ; havana_gene "OTTHUMG00000015457.3" ; havana_transcript "OTTHUMT00000041987.1" ; hgnc_id "HGNC:17643" ; level 2 ; orig_coord_info "chr6,117602004,117602288,-" ; protein_id "ENSP00000052569.6" ; tag basic appris_alternative_2 CCDS ; transcript_id "MEGF9--GOPC^ENST00000052569.10" ; transcript_name "GOPC-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MEGF9--GOPC HAVANA gene 1001 12300 . + . FI_gene_label "MEGF9^ENSG00000106780.9" ; ID "MEGF9--GOPC^MEGF9^ENSG00000106780.9" ; ccdsid "CCDS48010.2" ; exon_id "ENSE00001461944.3" ; exon_number 1 ; gene_id "MEGF9--GOPC^MEGF9^ENSG00000106780.9" ; gene_name MEGF9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000021039.2" ; havana_transcript "OTTHUMT00000055513.2" ; hgnc_id "HGNC:3234" ; level 2 ; orig_coord_info "chr9,120713758,120714358,-" ; protein_id "ENSP00000363040.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MEGF9--GOPC^ENST00000373930.4" ; transcript_name "MEGF9-201" ; transcript_support_level 2 ; transcript_type protein_coding
MEGF9--GOPC HAVANA mRNA 1001 12300 . + . FI_gene_label "MEGF9^ENSG00000106780.9" ; ID "MEGF9--GOPC^ENST00000373930.4" ; Parent "MEGF9--GOPC^MEGF9^ENSG00000106780.9" ; ccdsid "CCDS48010.2" ; exon_id "ENSE00001461944.3" ; exon_number 1 ; gene_id "MEGF9--GOPC^MEGF9^ENSG00000106780.9" ; gene_name MEGF9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000021039.2" ; havana_transcript "OTTHUMT00000055513.2" ; hgnc_id "HGNC:3234" ; level 2 ; orig_coord_info "chr9,120713758,120714358,-" ; protein_id "ENSP00000363040.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MEGF9--GOPC^ENST00000373930.4" ; transcript_name "MEGF9-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
MEGF9--NEPNP HAVANA gene 1001 12300 . + . FI_gene_label "MEGF9^ENSG00000106780.9" ; ID "MEGF9--NEPNP^MEGF9^ENSG00000106780.9" ; ccdsid "CCDS48010.2" ; exon_id "ENSE00001461944.3" ; exon_number 1 ; gene_id "MEGF9--NEPNP^MEGF9^ENSG00000106780.9" ; gene_name MEGF9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000021039.2" ; havana_transcript "OTTHUMT00000055513.2" ; hgnc_id "HGNC:3234" ; level 2 ; orig_coord_info "chr9,120713758,120714358,-" ; protein_id "ENSP00000363040.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MEGF9--NEPNP^ENST00000373930.4" ; transcript_name "MEGF9-201" ; transcript_support_level 2 ; transcript_type protein_coding
MEGF9--NEPNP HAVANA mRNA 1001 12300 . + . FI_gene_label "MEGF9^ENSG00000106780.9" ; ID "MEGF9--NEPNP^ENST00000373930.4" ; Parent "MEGF9--NEPNP^MEGF9^ENSG00000106780.9" ; ccdsid "CCDS48010.2" ; exon_id "ENSE00001461944.3" ; exon_number 1 ; gene_id "MEGF9--NEPNP^MEGF9^ENSG00000106780.9" ; gene_name MEGF9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000021039.2" ; havana_transcript "OTTHUMT00000055513.2" ; hgnc_id "HGNC:3234" ; level 2 ; orig_coord_info "chr9,120713758,120714358,-" ; protein_id "ENSP00000363040.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MEGF9--NEPNP^ENST00000373930.4" ; transcript_name "MEGF9-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
MGA--GOLGA8UP ENSEMBL gene 2367 37518 . + . FI_gene_label "MGA^ENSG00000174197.16" ; ID "MGA--GOLGA8UP^MGA^ENSG00000174197.16" ; ccdsid "CCDS55959.1" ; exon_id "ENSE00001762919.1" ; exon_number 2 ; gene_id "MGA--GOLGA8UP^MGA^ENSG00000174197.16" ; gene_name MGA ; gene_type protein_coding ; havana_gene "OTTHUMG00000172719.3" ; hgnc_id "HGNC:14010" ; level 3 ; orig_coord_info "chr15,41668895,41669958,+" ; protein_id "ENSP00000219905.7" ; tag basic appris_principal_4 CCDS ; transcript_id "MGA--GOLGA8UP^ENST00000219905.11" ; transcript_name "MGA-201" ; transcript_support_level 5 ; transcript_type protein_coding
MGA--GOLGA8UP ENSEMBL mRNA 2367 37518 . + . FI_gene_label "MGA^ENSG00000174197.16" ; ID "MGA--GOLGA8UP^ENST00000219905.11" ; Parent "MGA--GOLGA8UP^MGA^ENSG00000174197.16" ; ccdsid "CCDS55959.1" ; exon_id "ENSE00001762919.1" ; exon_number 2 ; gene_id "MGA--GOLGA8UP^MGA^ENSG00000174197.16" ; gene_name MGA ; gene_type protein_coding ; havana_gene "OTTHUMG00000172719.3" ; hgnc_id "HGNC:14010" ; level 3 ; orig_coord_info "chr15,41668895,41669958,+" ; protein_id "ENSP00000219905.7" ; tag basic appris_principal_4 CCDS ; transcript_id "MGA--GOLGA8UP^ENST00000219905.11" ; transcript_name "MGA-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
MSRB3--PAWR HAVANA gene 1041 17519 . + . FI_gene_label "MSRB3^ENSG00000174099.12" ; ID "MSRB3--PAWR^MSRB3^ENSG00000174099.12" ; ccdsid "CCDS31853.1" ; exon_id "ENSE00003692858.1" ; exon_number 2 ; gene_id "MSRB3--PAWR^MSRB3^ENSG00000174099.12" ; gene_name MSRB3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168866.6" ; havana_transcript "OTTHUMT00000401422.1" ; hgnc_id "HGNC:27375" ; level 2 ; orig_coord_info "chr12,65308580,65308655,+" ; protein_id "ENSP00000312274.6" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "MSRB3--PAWR^ENST00000308259.10" ; transcript_name "MSRB3-201" ; transcript_support_level 1 ; transcript_type protein_coding
MSRB3--PAWR HAVANA mRNA 1041 17519 . + . FI_gene_label "MSRB3^ENSG00000174099.12" ; ID "MSRB3--PAWR^ENST00000308259.10" ; Parent "MSRB3--PAWR^MSRB3^ENSG00000174099.12" ; ccdsid "CCDS31853.1" ; exon_id "ENSE00003692858.1" ; exon_number 2 ; gene_id "MSRB3--PAWR^MSRB3^ENSG00000174099.12" ; gene_name MSRB3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168866.6" ; havana_transcript "OTTHUMT00000401422.1" ; hgnc_id "HGNC:27375" ; level 2 ; orig_coord_info "chr12,65308580,65308655,+" ; protein_id "ENSP00000312274.6" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "MSRB3--PAWR^ENST00000308259.10" ; transcript_name "MSRB3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MSRB3--PAWR HAVANA gene 23486 45986 . + . FI_gene_label "PAWR^ENSG00000177425.11" ; ID "MSRB3--PAWR^PAWR^ENSG00000177425.11" ; ccdsid "CCDS31863.1" ; exon_id "ENSE00001329280.1" ; exon_number 2 ; gene_id "MSRB3--PAWR^PAWR^ENSG00000177425.11" ; gene_name PAWR ; gene_type protein_coding ; havana_gene "OTTHUMG00000170080.4" ; havana_transcript "OTTHUMT00000407175.2" ; hgnc_id "HGNC:8614" ; level 2 ; orig_coord_info "chr12,79689729,79690244,-" ; protein_id "ENSP00000328088.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MSRB3--PAWR^ENST00000328827.9" ; transcript_name "PAWR-201" ; transcript_support_level 1 ; transcript_type protein_coding
MSRB3--PAWR HAVANA mRNA 23486 45986 . + . FI_gene_label "PAWR^ENSG00000177425.11" ; ID "MSRB3--PAWR^ENST00000328827.9" ; Parent "MSRB3--PAWR^PAWR^ENSG00000177425.11" ; ccdsid "CCDS31863.1" ; exon_id "ENSE00001329280.1" ; exon_number 2 ; gene_id "MSRB3--PAWR^PAWR^ENSG00000177425.11" ; gene_name PAWR ; gene_type protein_coding ; havana_gene "OTTHUMG00000170080.4" ; havana_transcript "OTTHUMT00000407175.2" ; hgnc_id "HGNC:8614" ; level 2 ; orig_coord_info "chr12,79689729,79690244,-" ; protein_id "ENSP00000328088.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MSRB3--PAWR^ENST00000328827.9" ; transcript_name "PAWR-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NFIB--CLCN3P1 HAVANA gene 7079 10875 . + . FI_gene_label "NFIB^ENSG00000147862.17" ; ID "NFIB--CLCN3P1^NFIB^ENSG00000147862.17" ; exon_id "ENSE00001816839.1" ; exon_number 1 ; gene_id "NFIB--CLCN3P1^NFIB^ENSG00000147862.17" ; gene_name NFIB ; gene_type protein_coding ; havana_gene "OTTHUMG00000021027.8" ; havana_transcript "OTTHUMT00000055473.1" ; hgnc_id "HGNC:7785" ; level 1 ; orig_coord_info "chr9,14313482,14313511,-" ; protein_id "ENSP00000370308.3" ; tag basic exp_conf ; transcript_id "NFIB--CLCN3P1^ENST00000380921.3" ; transcript_name "NFIB-201" ; transcript_support_level 1 ; transcript_type protein_coding
NFIB--CLCN3P1 HAVANA mRNA 7079 10875 . + . FI_gene_label "NFIB^ENSG00000147862.17" ; ID "NFIB--CLCN3P1^ENST00000380921.3" ; Parent "NFIB--CLCN3P1^NFIB^ENSG00000147862.17" ; exon_id "ENSE00001816839.1" ; exon_number 1 ; gene_id "NFIB--CLCN3P1^NFIB^ENSG00000147862.17" ; gene_name NFIB ; gene_type protein_coding ; havana_gene "OTTHUMG00000021027.8" ; havana_transcript "OTTHUMT00000055473.1" ; hgnc_id "HGNC:7785" ; level 1 ; orig_coord_info "chr9,14313482,14313511,-" ; protein_id "ENSP00000370308.3" ; tag basic exp_conf ; transcript_id "NFIB--CLCN3P1^ENST00000380921.3" ; transcript_name "NFIB-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PAWR--MSRB3 HAVANA gene 27631 44109 . + . FI_gene_label "MSRB3^ENSG00000174099.12" ; ID "PAWR--MSRB3^MSRB3^ENSG00000174099.12" ; ccdsid "CCDS31853.1" ; exon_id "ENSE00003692858.1" ; exon_number 2 ; gene_id "PAWR--MSRB3^MSRB3^ENSG00000174099.12" ; gene_name MSRB3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168866.6" ; havana_transcript "OTTHUMT00000401422.1" ; hgnc_id "HGNC:27375" ; level 2 ; orig_coord_info "chr12,65308580,65308655,+" ; protein_id "ENSP00000312274.6" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "PAWR--MSRB3^ENST00000308259.10" ; transcript_name "MSRB3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PAWR--MSRB3 HAVANA mRNA 27631 44109 . + . FI_gene_label "MSRB3^ENSG00000174099.12" ; ID "PAWR--MSRB3^ENST00000308259.10" ; Parent "PAWR--MSRB3^MSRB3^ENSG00000174099.12" ; ccdsid "CCDS31853.1" ; exon_id "ENSE00003692858.1" ; exon_number 2 ; gene_id "PAWR--MSRB3^MSRB3^ENSG00000174099.12" ; gene_name MSRB3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168866.6" ; havana_transcript "OTTHUMT00000401422.1" ; hgnc_id "HGNC:27375" ; level 2 ; orig_coord_info "chr12,65308580,65308655,+" ; protein_id "ENSP00000312274.6" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "PAWR--MSRB3^ENST00000308259.10" ; transcript_name "MSRB3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PAWR--MSRB3 HAVANA gene 1001 23501 . + . FI_gene_label "PAWR^ENSG00000177425.11" ; ID "PAWR--MSRB3^PAWR^ENSG00000177425.11" ; ccdsid "CCDS31863.1" ; exon_id "ENSE00001329280.1" ; exon_number 2 ; gene_id "PAWR--MSRB3^PAWR^ENSG00000177425.11" ; gene_name PAWR ; gene_type protein_coding ; havana_gene "OTTHUMG00000170080.4" ; havana_transcript "OTTHUMT00000407175.2" ; hgnc_id "HGNC:8614" ; level 2 ; orig_coord_info "chr12,79689729,79690244,-" ; protein_id "ENSP00000328088.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PAWR--MSRB3^ENST00000328827.9" ; transcript_name "PAWR-201" ; transcript_support_level 1 ; transcript_type protein_coding
PAWR--MSRB3 HAVANA mRNA 1001 23501 . + . FI_gene_label "PAWR^ENSG00000177425.11" ; ID "PAWR--MSRB3^ENST00000328827.9" ; Parent "PAWR--MSRB3^PAWR^ENSG00000177425.11" ; ccdsid "CCDS31863.1" ; exon_id "ENSE00001329280.1" ; exon_number 2 ; gene_id "PAWR--MSRB3^PAWR^ENSG00000177425.11" ; gene_name PAWR ; gene_type protein_coding ; havana_gene "OTTHUMG00000170080.4" ; havana_transcript "OTTHUMT00000407175.2" ; hgnc_id "HGNC:8614" ; level 2 ; orig_coord_info "chr12,79689729,79690244,-" ; protein_id "ENSP00000328088.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PAWR--MSRB3^ENST00000328827.9" ; transcript_name "PAWR-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SLC30A9--APBB2 HAVANA gene 1029 24484 . + . FI_gene_label "SLC30A9^ENSG00000014824.14" ; ID "SLC30A9--APBB2^SLC30A9^ENSG00000014824.14" ; ccdsid "CCDS3465.1" ; exon_id "ENSE00002023549.2" ; exon_number 1 ; gene_id "SLC30A9--APBB2^SLC30A9^ENSG00000014824.14" ; gene_name SLC30A9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000099387.5" ; havana_transcript "OTTHUMT00000216842.4" ; hgnc_id "HGNC:1329" ; level 2 ; orig_coord_info "chr4,41990652,41990760,+" ; protein_id "ENSP00000264451.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SLC30A9--APBB2^ENST00000264451.12" ; transcript_name "SLC30A9-201" ; transcript_support_level 1 ; transcript_type protein_coding
SLC30A9--APBB2 HAVANA mRNA 1029 24484 . + . FI_gene_label "SLC30A9^ENSG00000014824.14" ; ID "SLC30A9--APBB2^ENST00000264451.12" ; Parent "SLC30A9--APBB2^SLC30A9^ENSG00000014824.14" ; ccdsid "CCDS3465.1" ; exon_id "ENSE00002023549.2" ; exon_number 1 ; gene_id "SLC30A9--APBB2^SLC30A9^ENSG00000014824.14" ; gene_name SLC30A9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000099387.5" ; havana_transcript "OTTHUMT00000216842.4" ; hgnc_id "HGNC:1329" ; level 2 ; orig_coord_info "chr4,41990652,41990760,+" ; protein_id "ENSP00000264451.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SLC30A9--APBB2^ENST00000264451.12" ; transcript_name "SLC30A9-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SLC30A9--APBB2 HAVANA gene 28694 63709 . + . FI_gene_label "APBB2^ENSG00000163697.17" ; ID "SLC30A9--APBB2^APBB2^ENSG00000163697.17" ; ccdsid "CCDS54761.1" ; exon_id "ENSE00001308464.1" ; exon_number 5 ; gene_id "SLC30A9--APBB2^APBB2^ENSG00000163697.17" ; gene_name APBB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160416.12" ; havana_transcript "OTTHUMT00000360523.3" ; hgnc_id "HGNC:582" ; level 2 ; orig_coord_info "chr4,41033236,41033254,-" ; protein_id "ENSP00000295974.8" ; tag basic appris_alternative_1 CCDS ; transcript_id "SLC30A9--APBB2^ENST00000295974.12" ; transcript_name "APBB2-201" ; transcript_support_level 2 ; transcript_type protein_coding
SLC30A9--APBB2 HAVANA mRNA 28694 63709 . + . FI_gene_label "APBB2^ENSG00000163697.17" ; ID "SLC30A9--APBB2^ENST00000295974.12" ; Parent "SLC30A9--APBB2^APBB2^ENSG00000163697.17" ; ccdsid "CCDS54761.1" ; exon_id "ENSE00001308464.1" ; exon_number 5 ; gene_id "SLC30A9--APBB2^APBB2^ENSG00000163697.17" ; gene_name APBB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160416.12" ; havana_transcript "OTTHUMT00000360523.3" ; hgnc_id "HGNC:582" ; level 2 ; orig_coord_info "chr4,41033236,41033254,-" ; protein_id "ENSP00000295974.8" ; tag basic appris_alternative_1 CCDS ; transcript_id "SLC30A9--APBB2^ENST00000295974.12" ; transcript_name "APBB2-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TLK2--AC240565.1 HAVANA mRNA 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^ENST00000326270.13" ; Parent "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TOMM6--AC233266.1 HAVANA gene 1033 2828 . + . FI_gene_label "TOMM6^ENSG00000214736.8" ; ID "TOMM6--AC233266.1^TOMM6^ENSG00000214736.8" ; ccdsid "CCDS47424.1" ; exon_id "ENSE00001838603.2" ; exon_number 1 ; gene_id "TOMM6--AC233266.1^TOMM6^ENSG00000214736.8" ; gene_name TOMM6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137505.1" ; havana_transcript "OTTHUMT00000268823.1" ; hgnc_id "HGNC:34528" ; level 2 ; orig_coord_info "chr6,41787698,41787825,+" ; protein_id "ENSP00000381856.3" ; tag alternative_3_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "TOMM6--AC233266.1^ENST00000398881.4" ; transcript_name "TOMM6-201" ; transcript_support_level 1 ; transcript_type protein_coding
TOMM6--AC233266.1 HAVANA mRNA 1033 2828 . + . FI_gene_label "TOMM6^ENSG00000214736.8" ; ID "TOMM6--AC233266.1^ENST00000398881.4" ; Parent "TOMM6--AC233266.1^TOMM6^ENSG00000214736.8" ; ccdsid "CCDS47424.1" ; exon_id "ENSE00001838603.2" ; exon_number 1 ; gene_id "TOMM6--AC233266.1^TOMM6^ENSG00000214736.8" ; gene_name TOMM6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137505.1" ; havana_transcript "OTTHUMT00000268823.1" ; hgnc_id "HGNC:34528" ; level 2 ; orig_coord_info "chr6,41787698,41787825,+" ; protein_id "ENSP00000381856.3" ; tag alternative_3_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "TOMM6--AC233266.1^ENST00000398881.4" ; transcript_name "TOMM6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TRIT1--HOOK3 HAVANA gene 20356 57977 . + . FI_gene_label "HOOK3^ENSG00000168172.9" ; ID "TRIT1--HOOK3^HOOK3^ENSG00000168172.9" ; ccdsid "CCDS6139.1" ; exon_id "ENSE00001238789.5" ; exon_number 1 ; gene_id "TRIT1--HOOK3^HOOK3^ENSG00000168172.9" ; gene_name HOOK3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165278.5" ; havana_transcript "OTTHUMT00000383172.3" ; hgnc_id "HGNC:23576" ; level 2 ; orig_coord_info "chr8,42897132,42897188,+" ; protein_id "ENSP00000305699.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TRIT1--HOOK3^ENST00000307602.9" ; transcript_name "HOOK3-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRIT1--HOOK3 HAVANA mRNA 20356 57977 . + . FI_gene_label "HOOK3^ENSG00000168172.9" ; ID "TRIT1--HOOK3^ENST00000307602.9" ; Parent "TRIT1--HOOK3^HOOK3^ENSG00000168172.9" ; ccdsid "CCDS6139.1" ; exon_id "ENSE00001238789.5" ; exon_number 1 ; gene_id "TRIT1--HOOK3^HOOK3^ENSG00000168172.9" ; gene_name HOOK3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165278.5" ; havana_transcript "OTTHUMT00000383172.3" ; hgnc_id "HGNC:23576" ; level 2 ; orig_coord_info "chr8,42897132,42897188,+" ; protein_id "ENSP00000305699.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TRIT1--HOOK3^ENST00000307602.9" ; transcript_name "HOOK3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TRIT1--HOOK3 HAVANA gene 1008 17323 . + . FI_gene_label "TRIT1^ENSG00000043514.17" ; ID "TRIT1--HOOK3^TRIT1^ENSG00000043514.17" ; ccdsid "CCDS30681.1" ; exon_id "ENSE00003518646.1" ; exon_number 1 ; gene_id "TRIT1--HOOK3^TRIT1^ENSG00000043514.17" ; gene_name TRIT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000009245.6" ; havana_transcript "OTTHUMT00000025627.3" ; hgnc_id "HGNC:20286" ; level 2 ; orig_coord_info "chr1,39883318,39883491,-" ; protein_id "ENSP00000321810.5" ; tag non_canonical_U12 basic MANE_Select appris_principal_1 CCDS ; transcript_id "TRIT1--HOOK3^ENST00000316891.10" ; transcript_name "TRIT1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRIT1--HOOK3 HAVANA mRNA 1008 17323 . + . FI_gene_label "TRIT1^ENSG00000043514.17" ; ID "TRIT1--HOOK3^ENST00000316891.10" ; Parent "TRIT1--HOOK3^TRIT1^ENSG00000043514.17" ; ccdsid "CCDS30681.1" ; exon_id "ENSE00003518646.1" ; exon_number 1 ; gene_id "TRIT1--HOOK3^TRIT1^ENSG00000043514.17" ; gene_name TRIT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000009245.6" ; havana_transcript "OTTHUMT00000025627.3" ; hgnc_id "HGNC:20286" ; level 2 ; orig_coord_info "chr1,39883318,39883491,-" ; protein_id "ENSP00000321810.5" ; tag non_canonical_U12 basic MANE_Select appris_principal_1 CCDS ; transcript_id "TRIT1--HOOK3^ENST00000316891.10" ; transcript_name "TRIT1-201" ; 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:
USP32--KRT34 HAVANA gene 3539 44774 . + . FI_gene_label "USP32^ENSG00000170832.13" ; ID "USP32--KRT34^USP32^ENSG00000170832.13" ; ccdsid "CCDS32697.1" ; exon_id "ENSE00002823319.2" ; exon_number 1 ; gene_id "USP32--KRT34^USP32^ENSG00000170832.13" ; gene_name USP32 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180001.4" ; havana_transcript "OTTHUMT00000449235.3" ; hgnc_id "HGNC:19143" ; level 2 ; orig_coord_info "chr17,60391882,60391939,-" ; protein_id "ENSP00000300896.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP32--KRT34^ENST00000300896.9" ; transcript_name "USP32-201" ; transcript_support_level 1 ; transcript_type protein_coding
USP32--KRT34 HAVANA mRNA 3539 44774 . + . FI_gene_label "USP32^ENSG00000170832.13" ; ID "USP32--KRT34^ENST00000300896.9" ; Parent "USP32--KRT34^USP32^ENSG00000170832.13" ; ccdsid "CCDS32697.1" ; exon_id "ENSE00002823319.2" ; exon_number 1 ; gene_id "USP32--KRT34^USP32^ENSG00000170832.13" ; gene_name USP32 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180001.4" ; havana_transcript "OTTHUMT00000449235.3" ; hgnc_id "HGNC:19143" ; level 2 ; orig_coord_info "chr17,60391882,60391939,-" ; protein_id "ENSP00000300896.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP32--KRT34^ENST00000300896.9" ; transcript_name "USP32-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
USP32--KRT34 HAVANA gene 47775 52204 . + . FI_gene_label "KRT34^ENSG00000131737.6" ; ID "USP32--KRT34^KRT34^ENSG00000131737.6" ; exon_id "ENSE00001291288.4" ; exon_number 1 ; gene_id "USP32--KRT34^KRT34^ENSG00000131737.6" ; gene_name KRT34 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133436.3" ; havana_transcript "OTTHUMT00000257304.3" ; hgnc_id "HGNC:6452" ; level 2 ; orig_coord_info "chr17,41381899,41382246,-" ; protein_id "ENSP00000377570.3" ; tag upstream_ATG basic appris_principal_1 ; transcript_id "USP32--KRT34^ENST00000394001.2" ; transcript_name "KRT34-201" ; transcript_support_level 1 ; transcript_type protein_coding
USP32--KRT34 HAVANA mRNA 47775 52204 . + . FI_gene_label "KRT34^ENSG00000131737.6" ; ID "USP32--KRT34^ENST00000394001.2" ; Parent "USP32--KRT34^KRT34^ENSG00000131737.6" ; exon_id "ENSE00001291288.4" ; exon_number 1 ; gene_id "USP32--KRT34^KRT34^ENSG00000131737.6" ; gene_name KRT34 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133436.3" ; havana_transcript "OTTHUMT00000257304.3" ; hgnc_id "HGNC:6452" ; level 2 ; orig_coord_info "chr17,41381899,41382246,-" ; protein_id "ENSP00000377570.3" ; tag upstream_ATG basic appris_principal_1 ; transcript_id "USP32--KRT34^ENST00000394001.2" ; transcript_name "KRT34-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF670--SMYD3 HAVANA gene 1001 7119 . + . FI_gene_label "ZNF670^ENSG00000277462.2" ; ID "ZNF670--SMYD3^ZNF670^ENSG00000277462.2" ; ccdsid "CCDS31087.1" ; exon_id "ENSE00001441870.3" ; exon_number 1 ; gene_id "ZNF670--SMYD3^ZNF670^ENSG00000277462.2" ; gene_name ZNF670 ; gene_type protein_coding ; havana_gene "OTTHUMG00000040868.4" ; havana_transcript "OTTHUMT00000098183.4" ; hgnc_id "HGNC:28167" ; level 2 ; orig_coord_info "chr1,247078594,247078596,-" ; protein_id "ENSP00000355459.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF670--SMYD3^ENST00000366503.3" ; transcript_name "ZNF670-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF670--SMYD3 HAVANA mRNA 1001 7119 . + . FI_gene_label "ZNF670^ENSG00000277462.2" ; ID "ZNF670--SMYD3^ENST00000366503.3" ; Parent "ZNF670--SMYD3^ZNF670^ENSG00000277462.2" ; ccdsid "CCDS31087.1" ; exon_id "ENSE00001441870.3" ; exon_number 1 ; gene_id "ZNF670--SMYD3^ZNF670^ENSG00000277462.2" ; gene_name ZNF670 ; gene_type protein_coding ; havana_gene "OTTHUMG00000040868.4" ; havana_transcript "OTTHUMT00000098183.4" ; hgnc_id "HGNC:28167" ; level 2 ; orig_coord_info "chr1,247078594,247078596,-" ; protein_id "ENSP00000355459.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF670--SMYD3^ENST00000366503.3" ; transcript_name "ZNF670-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF670--SMYD3 HAVANA gene 20911 34785 . + . FI_gene_label "SMYD3^ENSG00000185420.19" ; ID "ZNF670--SMYD3^SMYD3^ENSG00000185420.19" ; exon_id "ENSE00003645014.1" ; exon_number 3 ; gene_id "ZNF670--SMYD3^SMYD3^ENSG00000185420.19" ; gene_name SMYD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000040508.8" ; havana_transcript "OTTHUMT00000318377.3" ; hgnc_id "HGNC:15513" ; level 2 ; orig_coord_info "chr1,245929870,245929901,-" ; protein_id "ENSP00000375712.2" ; tag mRNA_end_NF cds_end_NF ; transcript_id "ZNF670--SMYD3^ENST00000391836.3" ; transcript_name "SMYD3-203" ; transcript_support_level 5 ; transcript_type protein_coding
ZNF670--SMYD3 HAVANA mRNA 20911 34785 . + . FI_gene_label "SMYD3^ENSG00000185420.19" ; ID "ZNF670--SMYD3^ENST00000391836.3" ; Parent "ZNF670--SMYD3^SMYD3^ENSG00000185420.19" ; exon_id "ENSE00003645014.1" ; exon_number 3 ; gene_id "ZNF670--SMYD3^SMYD3^ENSG00000185420.19" ; gene_name SMYD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000040508.8" ; havana_transcript "OTTHUMT00000318377.3" ; hgnc_id "HGNC:15513" ; level 2 ; orig_coord_info "chr1,245929870,245929901,-" ; protein_id "ENSP00000375712.2" ; tag mRNA_end_NF cds_end_NF ; transcript_id "ZNF670--SMYD3^ENST00000391836.3" ; transcript_name "SMYD3-203" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
ZNF721--CPLX1 HAVANA gene 17391 23739 . + . FI_gene_label "CPLX1^ENSG00000168993.15" ; ID "ZNF721--CPLX1^CPLX1^ENSG00000168993.15" ; ccdsid "CCDS46995.1" ; exon_id "ENSE00003373475.1" ; exon_number 2 ; gene_id "ZNF721--CPLX1^CPLX1^ENSG00000168993.15" ; gene_name CPLX1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160005.3" ; havana_transcript "OTTHUMT00000358830.2" ; hgnc_id "HGNC:2309" ; level 2 ; orig_coord_info "chr4,824492,824522,-" ; protein_id "ENSP00000305613.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF721--CPLX1^ENST00000304062.11" ; transcript_name "CPLX1-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF721--CPLX1 HAVANA mRNA 17391 23739 . + . FI_gene_label "CPLX1^ENSG00000168993.15" ; ID "ZNF721--CPLX1^ENST00000304062.11" ; Parent "ZNF721--CPLX1^CPLX1^ENSG00000168993.15" ; ccdsid "CCDS46995.1" ; exon_id "ENSE00003373475.1" ; exon_number 2 ; gene_id "ZNF721--CPLX1^CPLX1^ENSG00000168993.15" ; gene_name CPLX1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160005.3" ; havana_transcript "OTTHUMT00000358830.2" ; hgnc_id "HGNC:2309" ; level 2 ; orig_coord_info "chr4,824492,824522,-" ; protein_id "ENSP00000305613.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF721--CPLX1^ENST00000304062.11" ; transcript_name "CPLX1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF721--CPLX1 HAVANA gene 1055 8860 . + . FI_gene_label "ZNF721^ENSG00000182903.16" ; ID "ZNF721--CPLX1^ZNF721^ENSG00000182903.16" ; exon_id "ENSE00001376953.3" ; exon_number 2 ; gene_id "ZNF721--CPLX1^ZNF721^ENSG00000182903.16" ; gene_name ZNF721 ; gene_type protein_coding ; havana_gene "OTTHUMG00000112450.7" ; havana_transcript "OTTHUMT00000357939.1" ; hgnc_id "HGNC:29425" ; level 2 ; orig_coord_info "chr4,441698,444430,-" ; protein_id "ENSP00000340524.5" ; tag basic ; transcript_id "ZNF721--CPLX1^ENST00000338977.5" ; transcript_name "ZNF721-201" ; transcript_support_level 2 ; transcript_type protein_coding
ZNF721--CPLX1 HAVANA mRNA 1055 8860 . + . FI_gene_label "ZNF721^ENSG00000182903.16" ; ID "ZNF721--CPLX1^ENST00000338977.5" ; Parent "ZNF721--CPLX1^ZNF721^ENSG00000182903.16" ; exon_id "ENSE00001376953.3" ; exon_number 2 ; gene_id "ZNF721--CPLX1^ZNF721^ENSG00000182903.16" ; gene_name ZNF721 ; gene_type protein_coding ; havana_gene "OTTHUMG00000112450.7" ; havana_transcript "OTTHUMT00000357939.1" ; hgnc_id "HGNC:29425" ; level 2 ; orig_coord_info "chr4,441698,444430,-" ; protein_id "ENSP00000340524.5" ; tag basic ; transcript_id "ZNF721--CPLX1^ENST00000338977.5" ; transcript_name "ZNF721-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
AC011374.3--GLRA1 HAVANA gene 1001 2518 . + . FI_gene_label "AC011374.3^ENSG00000288081.1" ; ID "AC011374.3--GLRA1^AC011374.3^ENSG00000288081.1" ; exon_id "ENSE00003884353.1" ; exon_number 1 ; gene_id "AC011374.3--GLRA1^AC011374.3^ENSG00000288081.1" ; gene_name "AC011374.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000194420.1" ; havana_transcript "OTTHUMT00000516106.1" ; level 2 ; orig_coord_info "chr5,151595264,151595493,+" ; tag basic TAGENE ; transcript_id "AC011374.3--GLRA1^ENST00000667894.1" ; transcript_name "AC011374.3-201" ; transcript_type lncRNA
AC011374.3--GLRA1 HAVANA RNA 1001 2518 . + . FI_gene_label "AC011374.3^ENSG00000288081.1" ; ID "AC011374.3--GLRA1^ENST00000667894.1" ; Parent "AC011374.3--GLRA1^AC011374.3^ENSG00000288081.1" ; exon_id "ENSE00003884353.1" ; exon_number 1 ; gene_id "AC011374.3--GLRA1^AC011374.3^ENSG00000288081.1" ; gene_name "AC011374.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000194420.1" ; havana_transcript "OTTHUMT00000516106.1" ; level 2 ; orig_coord_info "chr5,151595264,151595493,+" ; tag basic TAGENE ; transcript_id "AC011374.3--GLRA1^ENST00000667894.1" ; transcript_name "AC011374.3-201" ; transcript_type lncRNA
L1 and L2 created:
ARID4B--LINC01348 HAVANA gene 45355 50616 . + . FI_gene_label "LINC01348^ENSG00000280587.1" ; ID "ARID4B--LINC01348^LINC01348^ENSG00000280587.1" ; exon_id "ENSE00003760544.1" ; exon_number 1 ; gene_id "ARID4B--LINC01348^LINC01348^ENSG00000280587.1" ; gene_name LINC01348 ; gene_type lncRNA ; havana_gene "OTTHUMG00000189738.1" ; havana_transcript "OTTHUMT00000481617.1" ; hgnc_id "HGNC:50567" ; level 2 ; orig_coord_info "chr1,235074103,235074220,-" ; tag basic ; transcript_id "ARID4B--LINC01348^ENST00000628622.1" ; transcript_name "LINC01348-201" ; transcript_support_level 2 ; transcript_type lncRNA
ARID4B--LINC01348 HAVANA RNA 45355 50616 . + . FI_gene_label "LINC01348^ENSG00000280587.1" ; ID "ARID4B--LINC01348^ENST00000628622.1" ; Parent "ARID4B--LINC01348^LINC01348^ENSG00000280587.1" ; exon_id "ENSE00003760544.1" ; exon_number 1 ; gene_id "ARID4B--LINC01348^LINC01348^ENSG00000280587.1" ; gene_name LINC01348 ; gene_type lncRNA ; havana_gene "OTTHUMG00000189738.1" ; havana_transcript "OTTHUMT00000481617.1" ; hgnc_id "HGNC:50567" ; level 2 ; orig_coord_info "chr1,235074103,235074220,-" ; tag basic ; transcript_id "ARID4B--LINC01348^ENST00000628622.1" ; transcript_name "LINC01348-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
CHAC1--ISCA1P4 HAVANA gene 7443 7576 . + . FI_gene_label "ISCA1P4^ENSG00000259405.1" ; ID "CHAC1--ISCA1P4^ISCA1P4^ENSG00000259405.1" ; exon_id "ENSE00002545862.1" ; exon_number 1 ; gene_id "CHAC1--ISCA1P4^ISCA1P4^ENSG00000259405.1" ; gene_name ISCA1P4 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000172512.1" ; havana_transcript "OTTHUMT00000418861.1" ; hgnc_id "HGNC:38025" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr15,40948736,40948869,-" ; tag pseudo_consens basic ; transcript_id "CHAC1--ISCA1P4^ENST00000560114.1" ; transcript_name "ISCA1P4-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
CHAC1--ISCA1P4 HAVANA RNA 7443 7576 . + . FI_gene_label "ISCA1P4^ENSG00000259405.1" ; ID "CHAC1--ISCA1P4^ENST00000560114.1" ; Parent "CHAC1--ISCA1P4^ISCA1P4^ENSG00000259405.1" ; exon_id "ENSE00002545862.1" ; exon_number 1 ; gene_id "CHAC1--ISCA1P4^ISCA1P4^ENSG00000259405.1" ; gene_name ISCA1P4 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000172512.1" ; havana_transcript "OTTHUMT00000418861.1" ; hgnc_id "HGNC:38025" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr15,40948736,40948869,-" ; tag pseudo_consens basic ; transcript_id "CHAC1--ISCA1P4^ENST00000560114.1" ; transcript_name "ISCA1P4-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
ERC1--AC007207.1 HAVANA gene 44808 46305 . + . FI_gene_label "AC007207.1^ENSG00000242444.3" ; ID "ERC1--AC007207.1^AC007207.1^ENSG00000242444.3" ; exon_id "ENSE00002300861.1" ; exon_number 1 ; gene_id "ERC1--AC007207.1^AC007207.1^ENSG00000242444.3" ; gene_name "AC007207.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000157406.3" ; havana_transcript "OTTHUMT00000398506.1" ; level 2 ; orig_coord_info "chr12,4117888,4118132,-" ; tag basic ; transcript_id "ERC1--AC007207.1^ENST00000393388.3" ; transcript_name "AC007207.1-202" ; transcript_support_level 3 ; transcript_type processed_transcript
ERC1--AC007207.1 HAVANA RNA 44808 46305 . + . FI_gene_label "AC007207.1^ENSG00000242444.3" ; ID "ERC1--AC007207.1^ENST00000393388.3" ; Parent "ERC1--AC007207.1^AC007207.1^ENSG00000242444.3" ; exon_id "ENSE00002300861.1" ; exon_number 1 ; gene_id "ERC1--AC007207.1^AC007207.1^ENSG00000242444.3" ; gene_name "AC007207.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000157406.3" ; havana_transcript "OTTHUMT00000398506.1" ; level 2 ; orig_coord_info "chr12,4117888,4118132,-" ; tag basic ; transcript_id "ERC1--AC007207.1^ENST00000393388.3" ; transcript_name "AC007207.1-202" ; transcript_support_level 3 ; transcript_type processed_transcript
L1 and L2 created:
ERC1--CCND2-AS1 HAVANA gene 45995 48507 . + . FI_gene_label "CCND2-AS1^ENSG00000255920.3" ; ID "ERC1--CCND2-AS1^CCND2-AS1^ENSG00000255920.3" ; exon_id "ENSE00002304879.1" ; exon_number 1 ; gene_id "ERC1--CCND2-AS1^CCND2-AS1^ENSG00000255920.3" ; gene_name "CCND2-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000168320.4" ; havana_transcript "OTTHUMT00000399291.1" ; hgnc_id "HGNC:49398" ; level 2 ; orig_coord_info "chr12,4275022,4275065,-" ; transcript_id "ERC1--CCND2-AS1^ENST00000537370.1" ; transcript_name "CCND2-AS1-201" ; transcript_support_level 4 ; transcript_type lncRNA
ERC1--CCND2-AS1 HAVANA RNA 45995 48507 . + . FI_gene_label "CCND2-AS1^ENSG00000255920.3" ; ID "ERC1--CCND2-AS1^ENST00000537370.1" ; Parent "ERC1--CCND2-AS1^CCND2-AS1^ENSG00000255920.3" ; exon_id "ENSE00002304879.1" ; exon_number 1 ; gene_id "ERC1--CCND2-AS1^CCND2-AS1^ENSG00000255920.3" ; gene_name "CCND2-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000168320.4" ; havana_transcript "OTTHUMT00000399291.1" ; hgnc_id "HGNC:49398" ; level 2 ; orig_coord_info "chr12,4275022,4275065,-" ; transcript_id "ERC1--CCND2-AS1^ENST00000537370.1" ; transcript_name "CCND2-AS1-201" ; transcript_support_level 4 ; transcript_type lncRNA
L1 and L2 created:
ETV6--GNAI2P1 HAVANA gene 21919 22233 . + . FI_gene_label "GNAI2P1^ENSG00000255749.1" ; ID "ETV6--GNAI2P1^GNAI2P1^ENSG00000255749.1" ; exon_id "ENSE00002211836.1" ; exon_number 1 ; gene_id "ETV6--GNAI2P1^GNAI2P1^ENSG00000255749.1" ; gene_name GNAI2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000168655.2" ; havana_transcript "OTTHUMT00000400498.1" ; hgnc_id "HGNC:4386" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr12,14254912,14255226,+" ; tag pseudo_consens basic ; transcript_id "ETV6--GNAI2P1^ENST00000541815.1" ; transcript_name "GNAI2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
ETV6--GNAI2P1 HAVANA RNA 21919 22233 . + . FI_gene_label "GNAI2P1^ENSG00000255749.1" ; ID "ETV6--GNAI2P1^ENST00000541815.1" ; Parent "ETV6--GNAI2P1^GNAI2P1^ENSG00000255749.1" ; exon_id "ENSE00002211836.1" ; exon_number 1 ; gene_id "ETV6--GNAI2P1^GNAI2P1^ENSG00000255749.1" ; gene_name GNAI2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000168655.2" ; havana_transcript "OTTHUMT00000400498.1" ; hgnc_id "HGNC:4386" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr12,14254912,14255226,+" ; tag pseudo_consens basic ; transcript_id "ETV6--GNAI2P1^ENST00000541815.1" ; transcript_name "GNAI2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
ETV6--RPL30P11 HAVANA gene 23055 23707 . + . FI_gene_label "RPL30P11^ENSG00000244573.3" ; ID "ETV6--RPL30P11^RPL30P11^ENSG00000244573.3" ; exon_id "ENSE00002244913.2" ; exon_number 1 ; gene_id "ETV6--RPL30P11^RPL30P11^ENSG00000244573.3" ; gene_name RPL30P11 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000157491.5" ; havana_transcript "OTTHUMT00000348961.3" ; hgnc_id "HGNC:36260" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr12,14357449,14357517,-" ; tag pseudo_consens basic ; transcript_id "ETV6--RPL30P11^ENST00000495304.3" ; transcript_name "RPL30P11-201" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
ETV6--RPL30P11 HAVANA RNA 23055 23707 . + . FI_gene_label "RPL30P11^ENSG00000244573.3" ; ID "ETV6--RPL30P11^ENST00000495304.3" ; Parent "ETV6--RPL30P11^RPL30P11^ENSG00000244573.3" ; exon_id "ENSE00002244913.2" ; exon_number 1 ; gene_id "ETV6--RPL30P11^RPL30P11^ENSG00000244573.3" ; gene_name RPL30P11 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000157491.5" ; havana_transcript "OTTHUMT00000348961.3" ; hgnc_id "HGNC:36260" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr12,14357449,14357517,-" ; tag pseudo_consens basic ; transcript_id "ETV6--RPL30P11^ENST00000495304.3" ; transcript_name "RPL30P11-201" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
L1 and L2 created:
GALK2--AC023355.1 HAVANA gene 31761 33207 . + . FI_gene_label "AC023355.1^ENSG00000259488.2" ; ID "GALK2--AC023355.1^AC023355.1^ENSG00000259488.2" ; exon_id "ENSE00002543169.1" ; exon_number 1 ; gene_id "GALK2--AC023355.1^AC023355.1^ENSG00000259488.2" ; gene_name "AC023355.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000172154.5" ; havana_transcript "OTTHUMT00000417138.1" ; level 2 ; orig_coord_info "chr15,48331563,48331792,-" ; transcript_id "GALK2--AC023355.1^ENST00000559134.1" ; transcript_name "AC023355.1-203" ; transcript_support_level 3 ; transcript_type lncRNA
GALK2--AC023355.1 HAVANA RNA 31761 33207 . + . FI_gene_label "AC023355.1^ENSG00000259488.2" ; ID "GALK2--AC023355.1^ENST00000559134.1" ; Parent "GALK2--AC023355.1^AC023355.1^ENSG00000259488.2" ; exon_id "ENSE00002543169.1" ; exon_number 1 ; gene_id "GALK2--AC023355.1^AC023355.1^ENSG00000259488.2" ; gene_name "AC023355.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000172154.5" ; havana_transcript "OTTHUMT00000417138.1" ; level 2 ; orig_coord_info "chr15,48331563,48331792,-" ; transcript_id "GALK2--AC023355.1^ENST00000559134.1" ; transcript_name "AC023355.1-203" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
KDM4B--BOLA3P2 HAVANA gene 40722 41362 . + . FI_gene_label "BOLA3P2^ENSG00000267332.1" ; ID "KDM4B--BOLA3P2^BOLA3P2^ENSG00000267332.1" ; exon_id "ENSE00002838323.1" ; exon_number 1 ; gene_id "KDM4B--BOLA3P2^BOLA3P2^ENSG00000267332.1" ; gene_name BOLA3P2 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000179928.1" ; havana_transcript "OTTHUMT00000448991.1" ; hgnc_id "HGNC:51441" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr19,9019344,9019468,+" ; tag pseudo_consens basic ; transcript_id "KDM4B--BOLA3P2^ENST00000586496.1" ; transcript_name "BOLA3P2-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
KDM4B--BOLA3P2 HAVANA RNA 40722 41362 . + . FI_gene_label "BOLA3P2^ENSG00000267332.1" ; ID "KDM4B--BOLA3P2^ENST00000586496.1" ; Parent "KDM4B--BOLA3P2^BOLA3P2^ENSG00000267332.1" ; exon_id "ENSE00002838323.1" ; exon_number 1 ; gene_id "KDM4B--BOLA3P2^BOLA3P2^ENSG00000267332.1" ; gene_name BOLA3P2 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000179928.1" ; havana_transcript "OTTHUMT00000448991.1" ; hgnc_id "HGNC:51441" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr19,9019344,9019468,+" ; tag pseudo_consens basic ; transcript_id "KDM4B--BOLA3P2^ENST00000586496.1" ; transcript_name "BOLA3P2-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
LIMCH1--AC111198.1 HAVANA gene 52460 57065 . + . FI_gene_label "AC111198.1^ENSG00000248939.1" ; ID "LIMCH1--AC111198.1^AC111198.1^ENSG00000248939.1" ; exon_id "ENSE00002034431.1" ; exon_number 1 ; gene_id "LIMCH1--AC111198.1^AC111198.1^ENSG00000248939.1" ; gene_name "AC111198.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000160432.1" ; havana_transcript "OTTHUMT00000360573.1" ; level 2 ; orig_coord_info "chr4,43133867,43133986,+" ; tag basic ; transcript_id "LIMCH1--AC111198.1^ENST00000505575.1" ; transcript_name "AC111198.1-201" ; transcript_support_level 4 ; transcript_type lncRNA
LIMCH1--AC111198.1 HAVANA RNA 52460 57065 . + . FI_gene_label "AC111198.1^ENSG00000248939.1" ; ID "LIMCH1--AC111198.1^ENST00000505575.1" ; Parent "LIMCH1--AC111198.1^AC111198.1^ENSG00000248939.1" ; exon_id "ENSE00002034431.1" ; exon_number 1 ; gene_id "LIMCH1--AC111198.1^AC111198.1^ENSG00000248939.1" ; gene_name "AC111198.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000160432.1" ; havana_transcript "OTTHUMT00000360573.1" ; level 2 ; orig_coord_info "chr4,43133867,43133986,+" ; tag basic ; transcript_id "LIMCH1--AC111198.1^ENST00000505575.1" ; transcript_name "AC111198.1-201" ; transcript_support_level 4 ; transcript_type lncRNA
L1 and L2 created:
MEGF9--NEPNP HAVANA gene 15301 17671 . + . FI_gene_label "NEPNP^ENSG00000218233.1" ; ID "MEGF9--NEPNP^NEPNP^ENSG00000218233.1" ; exon_id "ENSE00001550036.1" ; exon_number 1 ; gene_id "MEGF9--NEPNP^NEPNP^ENSG00000218233.1" ; gene_name NEPNP ; gene_type unitary_pseudogene ; havana_gene "OTTHUMG00000015456.1" ; havana_transcript "OTTHUMT00000041986.1" ; hgnc_id "HGNC:33184" ; level 2 ; ont "PGO:0000006" ; orig_coord_info "chr6,117633706,117634610,+" ; tag basic ; transcript_id "MEGF9--NEPNP^ENST00000404786.1" ; transcript_name "NEPNP-201" ; transcript_support_level NA ; transcript_type unitary_pseudogene
MEGF9--NEPNP HAVANA RNA 15301 17671 . + . FI_gene_label "NEPNP^ENSG00000218233.1" ; ID "MEGF9--NEPNP^ENST00000404786.1" ; Parent "MEGF9--NEPNP^NEPNP^ENSG00000218233.1" ; exon_id "ENSE00001550036.1" ; exon_number 1 ; gene_id "MEGF9--NEPNP^NEPNP^ENSG00000218233.1" ; gene_name NEPNP ; gene_type unitary_pseudogene ; havana_gene "OTTHUMG00000015456.1" ; havana_transcript "OTTHUMT00000041986.1" ; hgnc_id "HGNC:33184" ; level 2 ; ont "PGO:0000006" ; orig_coord_info "chr6,117633706,117634610,+" ; tag basic ; transcript_id "MEGF9--NEPNP^ENST00000404786.1" ; transcript_name "NEPNP-201" ; transcript_support_level NA ; transcript_type unitary_pseudogene
L1 and L2 created:
MGA--GOLGA8UP HAVANA gene 43657 52985 . + . FI_gene_label "GOLGA8UP^ENSG00000103832.10" ; ID "MGA--GOLGA8UP^GOLGA8UP^ENSG00000103832.10" ; exon_id "ENSE00002619118.1" ; exon_number 1 ; gene_id "MGA--GOLGA8UP^GOLGA8UP^ENSG00000103832.10" ; gene_name GOLGA8UP ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000165688.2" ; havana_transcript "OTTHUMT00000385801.2" ; hgnc_id "HGNC:44411" ; level 1 ; ont "PGO:0000005" ; orig_coord_info "chr15,30791573,30791621,+" ; tag pseudo_consens basic ; transcript_id "MGA--GOLGA8UP^ENST00000527159.2" ; transcript_name "GOLGA8UP-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
MGA--GOLGA8UP HAVANA RNA 43657 52985 . + . FI_gene_label "GOLGA8UP^ENSG00000103832.10" ; ID "MGA--GOLGA8UP^ENST00000527159.2" ; Parent "MGA--GOLGA8UP^GOLGA8UP^ENSG00000103832.10" ; exon_id "ENSE00002619118.1" ; exon_number 1 ; gene_id "MGA--GOLGA8UP^GOLGA8UP^ENSG00000103832.10" ; gene_name GOLGA8UP ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000165688.2" ; havana_transcript "OTTHUMT00000385801.2" ; hgnc_id "HGNC:44411" ; level 1 ; ont "PGO:0000005" ; orig_coord_info "chr15,30791573,30791621,+" ; tag pseudo_consens basic ; transcript_id "MGA--GOLGA8UP^ENST00000527159.2" ; transcript_name "GOLGA8UP-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
L1 and L2 created:
NFIB--CLCN3P1 HAVANA gene 40358 44374 . + . FI_gene_label "CLCN3P1^ENSG00000232000.3" ; ID "NFIB--CLCN3P1^CLCN3P1^ENSG00000232000.3" ; exon_id "ENSE00001665822.2" ; exon_number 1 ; gene_id "NFIB--CLCN3P1^CLCN3P1^ENSG00000232000.3" ; gene_name CLCN3P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000193463.3" ; havana_transcript "OTTHUMT00000504104.1" ; hgnc_id "HGNC:49775" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr9,15047899,15048061,-" ; tag basic ; transcript_id "NFIB--CLCN3P1^ENST00000423965.2" ; transcript_name "CLCN3P1-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
NFIB--CLCN3P1 HAVANA RNA 40358 44374 . + . FI_gene_label "CLCN3P1^ENSG00000232000.3" ; ID "NFIB--CLCN3P1^ENST00000423965.2" ; Parent "NFIB--CLCN3P1^CLCN3P1^ENSG00000232000.3" ; exon_id "ENSE00001665822.2" ; exon_number 1 ; gene_id "NFIB--CLCN3P1^CLCN3P1^ENSG00000232000.3" ; gene_name CLCN3P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000193463.3" ; havana_transcript "OTTHUMT00000504104.1" ; hgnc_id "HGNC:49775" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr9,15047899,15048061,-" ; tag basic ; transcript_id "NFIB--CLCN3P1^ENST00000423965.2" ; transcript_name "CLCN3P1-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
PDXDC2P--AF186190.1 HAVANA gene 22580 23059 . + . FI_gene_label "AF186190.1^ENSG00000253638.1" ; ID "PDXDC2P--AF186190.1^AF186190.1^ENSG00000253638.1" ; exon_id "ENSE00002127994.1" ; exon_number 1 ; gene_id "PDXDC2P--AF186190.1^AF186190.1^ENSG00000253638.1" ; gene_name "AF186190.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164532.1" ; havana_transcript "OTTHUMT00000379130.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,133392211,133392690,-" ; tag pseudo_consens basic ; transcript_id "PDXDC2P--AF186190.1^ENST00000517470.1" ; transcript_name "AF186190.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
PDXDC2P--AF186190.1 HAVANA RNA 22580 23059 . + . FI_gene_label "AF186190.1^ENSG00000253638.1" ; ID "PDXDC2P--AF186190.1^ENST00000517470.1" ; Parent "PDXDC2P--AF186190.1^AF186190.1^ENSG00000253638.1" ; exon_id "ENSE00002127994.1" ; exon_number 1 ; gene_id "PDXDC2P--AF186190.1^AF186190.1^ENSG00000253638.1" ; gene_name "AF186190.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164532.1" ; havana_transcript "OTTHUMT00000379130.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,133392211,133392690,-" ; tag pseudo_consens basic ; transcript_id "PDXDC2P--AF186190.1^ENST00000517470.1" ; transcript_name "AF186190.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
PDXDC2P--AF186190.1 HAVANA gene 1161 3891 . + . FI_gene_label "PDXDC2P^ENSG00000255185.6" ; ID "PDXDC2P--AF186190.1^PDXDC2P^ENSG00000255185.6" ; exon_id "ENSE00002159321.1" ; exon_number 1 ; gene_id "PDXDC2P--AF186190.1^PDXDC2P^ENSG00000255185.6" ; gene_name PDXDC2P ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000167595.2" ; havana_transcript "OTTHUMT00000395272.1" ; hgnc_id "HGNC:27559" ; level 2 ; orig_coord_info "chr16,70065756,70065785,-" ; transcript_id "PDXDC2P--AF186190.1^ENST00000525173.1" ; transcript_name "PDXDC2P-201" ; transcript_support_level 5 ; transcript_type processed_transcript
PDXDC2P--AF186190.1 HAVANA RNA 1161 3891 . + . FI_gene_label "PDXDC2P^ENSG00000255185.6" ; ID "PDXDC2P--AF186190.1^ENST00000525173.1" ; Parent "PDXDC2P--AF186190.1^PDXDC2P^ENSG00000255185.6" ; exon_id "ENSE00002159321.1" ; exon_number 1 ; gene_id "PDXDC2P--AF186190.1^PDXDC2P^ENSG00000255185.6" ; gene_name PDXDC2P ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000167595.2" ; havana_transcript "OTTHUMT00000395272.1" ; hgnc_id "HGNC:27559" ; level 2 ; orig_coord_info "chr16,70065756,70065785,-" ; transcript_id "PDXDC2P--AF186190.1^ENST00000525173.1" ; transcript_name "PDXDC2P-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
PDXDC2P--RPL32P20 HAVANA gene 22580 22987 . + . FI_gene_label "RPL32P20^ENSG00000243537.1" ; ID "PDXDC2P--RPL32P20^RPL32P20^ENSG00000243537.1" ; exon_id "ENSE00001853269.1" ; exon_number 1 ; gene_id "PDXDC2P--RPL32P20^RPL32P20^ENSG00000243537.1" ; gene_name RPL32P20 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158698.2" ; havana_transcript "OTTHUMT00000351783.2" ; hgnc_id "HGNC:35934" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,133325997,133326404,+" ; tag pseudo_consens basic ; transcript_id "PDXDC2P--RPL32P20^ENST00000479066.1" ; transcript_name "RPL32P20-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
PDXDC2P--RPL32P20 HAVANA RNA 22580 22987 . + . FI_gene_label "RPL32P20^ENSG00000243537.1" ; ID "PDXDC2P--RPL32P20^ENST00000479066.1" ; Parent "PDXDC2P--RPL32P20^RPL32P20^ENSG00000243537.1" ; exon_id "ENSE00001853269.1" ; exon_number 1 ; gene_id "PDXDC2P--RPL32P20^RPL32P20^ENSG00000243537.1" ; gene_name RPL32P20 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158698.2" ; havana_transcript "OTTHUMT00000351783.2" ; hgnc_id "HGNC:35934" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,133325997,133326404,+" ; tag pseudo_consens basic ; transcript_id "PDXDC2P--RPL32P20^ENST00000479066.1" ; transcript_name "RPL32P20-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
PDXDC2P--RPL32P20 HAVANA gene 1161 3891 . + . FI_gene_label "PDXDC2P^ENSG00000255185.6" ; ID "PDXDC2P--RPL32P20^PDXDC2P^ENSG00000255185.6" ; exon_id "ENSE00002159321.1" ; exon_number 1 ; gene_id "PDXDC2P--RPL32P20^PDXDC2P^ENSG00000255185.6" ; gene_name PDXDC2P ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000167595.2" ; havana_transcript "OTTHUMT00000395272.1" ; hgnc_id "HGNC:27559" ; level 2 ; orig_coord_info "chr16,70065756,70065785,-" ; transcript_id "PDXDC2P--RPL32P20^ENST00000525173.1" ; transcript_name "PDXDC2P-201" ; transcript_support_level 5 ; transcript_type processed_transcript
PDXDC2P--RPL32P20 HAVANA RNA 1161 3891 . + . FI_gene_label "PDXDC2P^ENSG00000255185.6" ; ID "PDXDC2P--RPL32P20^ENST00000525173.1" ; Parent "PDXDC2P--RPL32P20^PDXDC2P^ENSG00000255185.6" ; exon_id "ENSE00002159321.1" ; exon_number 1 ; gene_id "PDXDC2P--RPL32P20^PDXDC2P^ENSG00000255185.6" ; gene_name PDXDC2P ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000167595.2" ; havana_transcript "OTTHUMT00000395272.1" ; hgnc_id "HGNC:27559" ; level 2 ; orig_coord_info "chr16,70065756,70065785,-" ; transcript_id "PDXDC2P--RPL32P20^ENST00000525173.1" ; transcript_name "PDXDC2P-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
PDXDC2P--ST13P6 HAVANA gene 22580 23681 . + . FI_gene_label "ST13P6^ENSG00000225259.4" ; ID "PDXDC2P--ST13P6^ST13P6^ENSG00000225259.4" ; exon_id "ENSE00002107846.1" ; exon_number 1 ; gene_id "PDXDC2P--ST13P6^ST13P6^ENSG00000225259.4" ; gene_name ST13P6 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164533.1" ; havana_transcript "OTTHUMT00000379131.1" ; hgnc_id "HGNC:18557" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr8,133408006,133409107,+" ; tag basic ; transcript_id "PDXDC2P--ST13P6^ENST00000522430.1" ; transcript_name "ST13P6-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
PDXDC2P--ST13P6 HAVANA RNA 22580 23681 . + . FI_gene_label "ST13P6^ENSG00000225259.4" ; ID "PDXDC2P--ST13P6^ENST00000522430.1" ; Parent "PDXDC2P--ST13P6^ST13P6^ENSG00000225259.4" ; exon_id "ENSE00002107846.1" ; exon_number 1 ; gene_id "PDXDC2P--ST13P6^ST13P6^ENSG00000225259.4" ; gene_name ST13P6 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164533.1" ; havana_transcript "OTTHUMT00000379131.1" ; hgnc_id "HGNC:18557" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr8,133408006,133409107,+" ; tag basic ; transcript_id "PDXDC2P--ST13P6^ENST00000522430.1" ; transcript_name "ST13P6-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
PDXDC2P--ST13P6 HAVANA gene 1161 3891 . + . FI_gene_label "PDXDC2P^ENSG00000255185.6" ; ID "PDXDC2P--ST13P6^PDXDC2P^ENSG00000255185.6" ; exon_id "ENSE00002159321.1" ; exon_number 1 ; gene_id "PDXDC2P--ST13P6^PDXDC2P^ENSG00000255185.6" ; gene_name PDXDC2P ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000167595.2" ; havana_transcript "OTTHUMT00000395272.1" ; hgnc_id "HGNC:27559" ; level 2 ; orig_coord_info "chr16,70065756,70065785,-" ; transcript_id "PDXDC2P--ST13P6^ENST00000525173.1" ; transcript_name "PDXDC2P-201" ; transcript_support_level 5 ; transcript_type processed_transcript
PDXDC2P--ST13P6 HAVANA RNA 1161 3891 . + . FI_gene_label "PDXDC2P^ENSG00000255185.6" ; ID "PDXDC2P--ST13P6^ENST00000525173.1" ; Parent "PDXDC2P--ST13P6^PDXDC2P^ENSG00000255185.6" ; exon_id "ENSE00002159321.1" ; exon_number 1 ; gene_id "PDXDC2P--ST13P6^PDXDC2P^ENSG00000255185.6" ; gene_name PDXDC2P ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000167595.2" ; havana_transcript "OTTHUMT00000395272.1" ; hgnc_id "HGNC:27559" ; level 2 ; orig_coord_info "chr16,70065756,70065785,-" ; transcript_id "PDXDC2P--ST13P6^ENST00000525173.1" ; transcript_name "PDXDC2P-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
TLK2P1--AC110079.1 HAVANA RNA 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^ENST00000530992.1" ; Parent "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
TLK2P1--AC110079.1 HAVANA RNA 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^ENST00000567913.2" ; Parent "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
TOMM6--AC233266.1 HAVANA gene 5832 5927 . + . FI_gene_label "AC233266.1^ENSG00000230964.1" ; ID "TOMM6--AC233266.1^AC233266.1^ENSG00000230964.1" ; exon_id "ENSE00001641692.1" ; exon_number 1 ; gene_id "TOMM6--AC233266.1^AC233266.1^ENSG00000230964.1" ; gene_name "AC233266.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000155075.3" ; havana_transcript "OTTHUMT00000338344.3" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr2,91578478,91578573,+" ; tag basic ; transcript_id "TOMM6--AC233266.1^ENST00000454518.1" ; transcript_name "AC233266.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
TOMM6--AC233266.1 HAVANA RNA 5832 5927 . + . FI_gene_label "AC233266.1^ENSG00000230964.1" ; ID "TOMM6--AC233266.1^ENST00000454518.1" ; Parent "TOMM6--AC233266.1^AC233266.1^ENSG00000230964.1" ; exon_id "ENSE00001641692.1" ; exon_number 1 ; gene_id "TOMM6--AC233266.1^AC233266.1^ENSG00000230964.1" ; gene_name "AC233266.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000155075.3" ; havana_transcript "OTTHUMT00000338344.3" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr2,91578478,91578573,+" ; tag basic ; transcript_id "TOMM6--AC233266.1^ENST00000454518.1" ; transcript_name "AC233266.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
651 cases fixed where L3 features have parent feature(s) missing
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
------------------------------ done in 0 seconds -------------------------------
------------------------- Check7: all level3 locations -------------------------
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check8: check cds -------------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
------------------------------ done in 1 seconds -------------------------------
----------------------------- Check10: check utrs ------------------------------
1305 UTRs created that were missing
No UTRs locations modified
No supernumerary UTRs removed
------------------------------ done in 0 seconds -------------------------------
------------------------ Check11: all level2 locations -------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
------------------------ Check12: all level1 locations -------------------------
We fixed 50 wrong level1 location cases
------------------------------ done in 0 seconds -------------------------------
---------------------- Check13: remove identical isoforms ----------------------
None found
------------------------------ done in 0 seconds -------------------------------
------ End checks (done in 1 second) ------
GFF3 file parsed