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: 7319
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 7319
=> 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:7319
=> Some common attributes and some Parent attributes missing.
/!\ For features where both are missing A single Level2 features (e.g. mRNA) and a single level1 (e.g. gene) will be created by AGAT, and all level3 feautres (e,g, CDS,exon) will be attached to them. This is probably not what you want...
see B. 2.2 and 3. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
/!\ For features where the common attribute or the parent attribute is missing, it would be fine as long as you do not expect isoforms in your annotation (Eukaryote). see B. 4. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
!! You might try to fix the issue by choosing a common tag attribute to use in order to group the features correctly (parameter --ct in agat_convert_sp_gxf2gxf.pl).
=> Version of the Bioperl GFF parser selected by AGAT: 2
------ End parsing (done in 2 second) ------
------ Start checks ------
---------------------------- Check1: feature types -----------------------------
----------------------------------- ontology -----------------------------------
All feature types in agreement with the Ontology.
------------------------------------- agat -------------------------------------
AGAT can deal with all the encountered feature types (3rd column)
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check2: duplicates ------------------------------
None found
------------------------------ done in 0 seconds -------------------------------
-------------------------- Check3: sequential bucket ---------------------------
Nothing to check as sequential bucket!
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check4: l2 linked to l3 ----------------------------
L1 and L2 created:
AL360093.1--SBF1 HAVANA gene 6220 23264 . + . FI_gene_label "SBF1^ENSG00000100241.21" ; ID "AL360093.1--SBF1^SBF1^ENSG00000100241.21" ; exon_id "ENSE00001830259.1" ; exon_number 1 ; gene_id "AL360093.1--SBF1^SBF1^ENSG00000100241.21" ; gene_name SBF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150204.4" ; havana_transcript "OTTHUMT00000316821.2" ; hgnc_id "HGNC:10542" ; level 2 ; orig_coord_info "chr22,50474786,50474840,-" ; protein_id "ENSP00000252027.7" ; tag basic appris_alternative_2 ; transcript_id "AL360093.1--SBF1^ENST00000348911.10" ; transcript_name "SBF1-201" ; transcript_support_level 5 ; transcript_type protein_coding
AL360093.1--SBF1 HAVANA mRNA 6220 23264 . + . FI_gene_label "SBF1^ENSG00000100241.21" ; ID "AL360093.1--SBF1^ENST00000348911.10" ; Parent "AL360093.1--SBF1^SBF1^ENSG00000100241.21" ; exon_id "ENSE00001830259.1" ; exon_number 1 ; gene_id "AL360093.1--SBF1^SBF1^ENSG00000100241.21" ; gene_name SBF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150204.4" ; havana_transcript "OTTHUMT00000316821.2" ; hgnc_id "HGNC:10542" ; level 2 ; orig_coord_info "chr22,50474786,50474840,-" ; protein_id "ENSP00000252027.7" ; tag basic appris_alternative_2 ; transcript_id "AL360093.1--SBF1^ENST00000348911.10" ; transcript_name "SBF1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
ASCC1--DMBT1L1 HAVANA gene 1001 24153 . + . FI_gene_label "ASCC1^ENSG00000138303.18" ; ID "ASCC1--DMBT1L1^ASCC1^ENSG00000138303.18" ; ccdsid "CCDS31219.1" ; exon_id "ENSE00003889921.1" ; exon_number 2 ; gene_id "ASCC1--DMBT1L1^ASCC1^ENSG00000138303.18" ; gene_name ASCC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018434.5" ; havana_transcript "OTTHUMT00000384352.2" ; hgnc_id "HGNC:24268" ; level 2 ; orig_coord_info "chr10,72213187,72213298,-" ; protein_id "ENSP00000320461.4" ; tag alternative_5_UTR basic appris_principal_1 CCDS ; transcript_id "ASCC1--DMBT1L1^ENST00000317126.8" ; transcript_name "ASCC1-201" ; transcript_support_level 2 ; transcript_type protein_coding
ASCC1--DMBT1L1 HAVANA mRNA 1001 24153 . + . FI_gene_label "ASCC1^ENSG00000138303.18" ; ID "ASCC1--DMBT1L1^ENST00000317126.8" ; Parent "ASCC1--DMBT1L1^ASCC1^ENSG00000138303.18" ; ccdsid "CCDS31219.1" ; exon_id "ENSE00003889921.1" ; exon_number 2 ; gene_id "ASCC1--DMBT1L1^ASCC1^ENSG00000138303.18" ; gene_name ASCC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018434.5" ; havana_transcript "OTTHUMT00000384352.2" ; hgnc_id "HGNC:24268" ; level 2 ; orig_coord_info "chr10,72213187,72213298,-" ; protein_id "ENSP00000320461.4" ; tag alternative_5_UTR basic appris_principal_1 CCDS ; transcript_id "ASCC1--DMBT1L1^ENST00000317126.8" ; transcript_name "ASCC1-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
CDKN2A--AC002378.1 HAVANA gene 5046 10148 . + . FI_gene_label "CDKN2A^ENSG00000147889.18" ; ID "CDKN2A--AC002378.1^CDKN2A^ENSG00000147889.18" ; ccdsid "CCDS6510.1" ; exon_id "ENSE00001833804.2" ; exon_number 1 ; gene_id "CDKN2A--AC002378.1^CDKN2A^ENSG00000147889.18" ; gene_name CDKN2A ; gene_type protein_coding ; havana_gene "OTTHUMG00000019686.7" ; havana_transcript "OTTHUMT00000051915.1" ; hgnc_id "HGNC:1787" ; level 2 ; orig_coord_info "chr9,21974678,21974827,-" ; protein_id "ENSP00000307101.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "CDKN2A--AC002378.1^ENST00000304494.10" ; transcript_name "CDKN2A-201" ; transcript_support_level 1 ; transcript_type protein_coding
CDKN2A--AC002378.1 HAVANA mRNA 5046 10148 . + . FI_gene_label "CDKN2A^ENSG00000147889.18" ; ID "CDKN2A--AC002378.1^ENST00000304494.10" ; Parent "CDKN2A--AC002378.1^CDKN2A^ENSG00000147889.18" ; ccdsid "CCDS6510.1" ; exon_id "ENSE00001833804.2" ; exon_number 1 ; gene_id "CDKN2A--AC002378.1^CDKN2A^ENSG00000147889.18" ; gene_name CDKN2A ; gene_type protein_coding ; havana_gene "OTTHUMG00000019686.7" ; havana_transcript "OTTHUMT00000051915.1" ; hgnc_id "HGNC:1787" ; level 2 ; orig_coord_info "chr9,21974678,21974827,-" ; protein_id "ENSP00000307101.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "CDKN2A--AC002378.1^ENST00000304494.10" ; transcript_name "CDKN2A-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COL25A1--ETNPPL HAVANA gene 50560 64039 . + . FI_gene_label "ETNPPL^ENSG00000164089.9" ; ID "COL25A1--ETNPPL^ETNPPL^ENSG00000164089.9" ; ccdsid "CCDS3682.1" ; exon_id "ENSE00001302560.3" ; exon_number 1 ; gene_id "COL25A1--ETNPPL^ETNPPL^ENSG00000164089.9" ; gene_name ETNPPL ; gene_type protein_coding ; havana_gene "OTTHUMG00000161036.3" ; havana_transcript "OTTHUMT00000363508.2" ; hgnc_id "HGNC:14404" ; level 2 ; orig_coord_info "chr4,108762843,108762898,-" ; protein_id "ENSP00000296486.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COL25A1--ETNPPL^ENST00000296486.8" ; transcript_name "ETNPPL-201" ; transcript_support_level 1 ; transcript_type protein_coding
COL25A1--ETNPPL HAVANA mRNA 50560 64039 . + . FI_gene_label "ETNPPL^ENSG00000164089.9" ; ID "COL25A1--ETNPPL^ENST00000296486.8" ; Parent "COL25A1--ETNPPL^ETNPPL^ENSG00000164089.9" ; ccdsid "CCDS3682.1" ; exon_id "ENSE00001302560.3" ; exon_number 1 ; gene_id "COL25A1--ETNPPL^ETNPPL^ENSG00000164089.9" ; gene_name ETNPPL ; gene_type protein_coding ; havana_gene "OTTHUMG00000161036.3" ; havana_transcript "OTTHUMT00000363508.2" ; hgnc_id "HGNC:14404" ; level 2 ; orig_coord_info "chr4,108762843,108762898,-" ; protein_id "ENSP00000296486.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COL25A1--ETNPPL^ENST00000296486.8" ; transcript_name "ETNPPL-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COL25A1--ETNPPL HAVANA gene 1110 38667 . + . FI_gene_label "COL25A1^ENSG00000188517.16" ; ID "COL25A1--ETNPPL^COL25A1^ENSG00000188517.16" ; ccdsid "CCDS43259.1" ; exon_id "ENSE00002170772.1" ; exon_number 2 ; gene_id "COL25A1--ETNPPL^COL25A1^ENSG00000188517.16" ; gene_name COL25A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150039.7" ; havana_transcript "OTTHUMT00000315939.1" ; hgnc_id "HGNC:18603" ; level 2 ; orig_coord_info "chr4,109301723,109302019,-" ; protein_id "ENSP00000382077.1" ; tag basic CCDS ; transcript_id "COL25A1--ETNPPL^ENST00000399126.1" ; transcript_name "COL25A1-201" ; transcript_support_level 5 ; transcript_type protein_coding
COL25A1--ETNPPL HAVANA mRNA 1110 38667 . + . FI_gene_label "COL25A1^ENSG00000188517.16" ; ID "COL25A1--ETNPPL^ENST00000399126.1" ; Parent "COL25A1--ETNPPL^COL25A1^ENSG00000188517.16" ; ccdsid "CCDS43259.1" ; exon_id "ENSE00002170772.1" ; exon_number 2 ; gene_id "COL25A1--ETNPPL^COL25A1^ENSG00000188517.16" ; gene_name COL25A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150039.7" ; havana_transcript "OTTHUMT00000315939.1" ; hgnc_id "HGNC:18603" ; level 2 ; orig_coord_info "chr4,109301723,109302019,-" ; protein_id "ENSP00000382077.1" ; tag basic CCDS ; transcript_id "COL25A1--ETNPPL^ENST00000399126.1" ; transcript_name "COL25A1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
ENG--AL353780.1 HAVANA gene 1023 14697 . + . FI_gene_label "ENG^ENSG00000106991.14" ; ID "ENG--AL353780.1^ENG^ENSG00000106991.14" ; ccdsid "CCDS6880.1" ; exon_id "ENSE00001834314.1" ; exon_number 1 ; gene_id "ENG--AL353780.1^ENG^ENSG00000106991.14" ; gene_name ENG ; gene_type protein_coding ; havana_gene "OTTHUMG00000020723.1" ; havana_transcript "OTTHUMT00000054312.1" ; hgnc_id "HGNC:3349" ; level 2 ; orig_coord_info "chr9,127854289,127854355,-" ; protein_id "ENSP00000341917.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ENG--AL353780.1^ENST00000344849.4" ; transcript_name "ENG-201" ; transcript_support_level 1 ; transcript_type protein_coding
ENG--AL353780.1 HAVANA mRNA 1023 14697 . + . FI_gene_label "ENG^ENSG00000106991.14" ; ID "ENG--AL353780.1^ENST00000344849.4" ; Parent "ENG--AL353780.1^ENG^ENSG00000106991.14" ; ccdsid "CCDS6880.1" ; exon_id "ENSE00001834314.1" ; exon_number 1 ; gene_id "ENG--AL353780.1^ENG^ENSG00000106991.14" ; gene_name ENG ; gene_type protein_coding ; havana_gene "OTTHUMG00000020723.1" ; havana_transcript "OTTHUMT00000054312.1" ; hgnc_id "HGNC:3349" ; level 2 ; orig_coord_info "chr9,127854289,127854355,-" ; protein_id "ENSP00000341917.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ENG--AL353780.1^ENST00000344849.4" ; transcript_name "ENG-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ENG--OTX2P1 HAVANA gene 1023 14697 . + . FI_gene_label "ENG^ENSG00000106991.14" ; ID "ENG--OTX2P1^ENG^ENSG00000106991.14" ; ccdsid "CCDS6880.1" ; exon_id "ENSE00001834314.1" ; exon_number 1 ; gene_id "ENG--OTX2P1^ENG^ENSG00000106991.14" ; gene_name ENG ; gene_type protein_coding ; havana_gene "OTTHUMG00000020723.1" ; havana_transcript "OTTHUMT00000054312.1" ; hgnc_id "HGNC:3349" ; level 2 ; orig_coord_info "chr9,127854289,127854355,-" ; protein_id "ENSP00000341917.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ENG--OTX2P1^ENST00000344849.4" ; transcript_name "ENG-201" ; transcript_support_level 1 ; transcript_type protein_coding
ENG--OTX2P1 HAVANA mRNA 1023 14697 . + . FI_gene_label "ENG^ENSG00000106991.14" ; ID "ENG--OTX2P1^ENST00000344849.4" ; Parent "ENG--OTX2P1^ENG^ENSG00000106991.14" ; ccdsid "CCDS6880.1" ; exon_id "ENSE00001834314.1" ; exon_number 1 ; gene_id "ENG--OTX2P1^ENG^ENSG00000106991.14" ; gene_name ENG ; gene_type protein_coding ; havana_gene "OTTHUMG00000020723.1" ; havana_transcript "OTTHUMT00000054312.1" ; hgnc_id "HGNC:3349" ; level 2 ; orig_coord_info "chr9,127854289,127854355,-" ; protein_id "ENSP00000341917.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ENG--OTX2P1^ENST00000344849.4" ; transcript_name "ENG-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
FBXO7--HMGXB4 HAVANA gene 19596 33750 . + . FI_gene_label "HMGXB4^ENSG00000100281.14" ; ID "FBXO7--HMGXB4^HMGXB4^ENSG00000100281.14" ; ccdsid "CCDS33641.1" ; exon_id "ENSE00003651363.1" ; exon_number 2 ; gene_id "FBXO7--HMGXB4^HMGXB4^ENSG00000100281.14" ; gene_name HMGXB4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150439.5" ; havana_transcript "OTTHUMT00000318104.3" ; hgnc_id "HGNC:5003" ; level 2 ; orig_coord_info "chr22,35262391,35262421,+" ; protein_id "ENSP00000216106.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "FBXO7--HMGXB4^ENST00000216106.6" ; transcript_name "HMGXB4-201" ; transcript_support_level 5 ; transcript_type protein_coding
FBXO7--HMGXB4 HAVANA mRNA 19596 33750 . + . FI_gene_label "HMGXB4^ENSG00000100281.14" ; ID "FBXO7--HMGXB4^ENST00000216106.6" ; Parent "FBXO7--HMGXB4^HMGXB4^ENSG00000100281.14" ; ccdsid "CCDS33641.1" ; exon_id "ENSE00003651363.1" ; exon_number 2 ; gene_id "FBXO7--HMGXB4^HMGXB4^ENSG00000100281.14" ; gene_name HMGXB4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150439.5" ; havana_transcript "OTTHUMT00000318104.3" ; hgnc_id "HGNC:5003" ; level 2 ; orig_coord_info "chr22,35262391,35262421,+" ; protein_id "ENSP00000216106.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "FBXO7--HMGXB4^ENST00000216106.6" ; transcript_name "HMGXB4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
FBXO7--HMGXB4 HAVANA gene 1136 16554 . + . FI_gene_label "FBXO7^ENSG00000100225.18" ; ID "FBXO7--HMGXB4^FBXO7^ENSG00000100225.18" ; ccdsid "CCDS13907.1" ; exon_id "ENSE00003851044.1" ; exon_number 1 ; gene_id "FBXO7--HMGXB4^FBXO7^ENSG00000100225.18" ; gene_name FBXO7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030674.12" ; havana_transcript "OTTHUMT00000129001.2" ; hgnc_id "HGNC:13586" ; level 2 ; orig_coord_info "chr22,32475003,32475124,+" ; protein_id "ENSP00000266087.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "FBXO7--HMGXB4^ENST00000266087.12" ; transcript_name "FBXO7-201" ; transcript_support_level 1 ; transcript_type protein_coding
FBXO7--HMGXB4 HAVANA mRNA 1136 16554 . + . FI_gene_label "FBXO7^ENSG00000100225.18" ; ID "FBXO7--HMGXB4^ENST00000266087.12" ; Parent "FBXO7--HMGXB4^FBXO7^ENSG00000100225.18" ; ccdsid "CCDS13907.1" ; exon_id "ENSE00003851044.1" ; exon_number 1 ; gene_id "FBXO7--HMGXB4^FBXO7^ENSG00000100225.18" ; gene_name FBXO7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030674.12" ; havana_transcript "OTTHUMT00000129001.2" ; hgnc_id "HGNC:13586" ; level 2 ; orig_coord_info "chr22,32475003,32475124,+" ; protein_id "ENSP00000266087.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "FBXO7--HMGXB4^ENST00000266087.12" ; transcript_name "FBXO7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
FBXO7--RNU7-167P HAVANA gene 1136 16554 . + . FI_gene_label "FBXO7^ENSG00000100225.18" ; ID "FBXO7--RNU7-167P^FBXO7^ENSG00000100225.18" ; ccdsid "CCDS13907.1" ; exon_id "ENSE00003851044.1" ; exon_number 1 ; gene_id "FBXO7--RNU7-167P^FBXO7^ENSG00000100225.18" ; gene_name FBXO7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030674.12" ; havana_transcript "OTTHUMT00000129001.2" ; hgnc_id "HGNC:13586" ; level 2 ; orig_coord_info "chr22,32475003,32475124,+" ; protein_id "ENSP00000266087.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "FBXO7--RNU7-167P^ENST00000266087.12" ; transcript_name "FBXO7-201" ; transcript_support_level 1 ; transcript_type protein_coding
FBXO7--RNU7-167P HAVANA mRNA 1136 16554 . + . FI_gene_label "FBXO7^ENSG00000100225.18" ; ID "FBXO7--RNU7-167P^ENST00000266087.12" ; Parent "FBXO7--RNU7-167P^FBXO7^ENSG00000100225.18" ; ccdsid "CCDS13907.1" ; exon_id "ENSE00003851044.1" ; exon_number 1 ; gene_id "FBXO7--RNU7-167P^FBXO7^ENSG00000100225.18" ; gene_name FBXO7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030674.12" ; havana_transcript "OTTHUMT00000129001.2" ; hgnc_id "HGNC:13586" ; level 2 ; orig_coord_info "chr22,32475003,32475124,+" ; protein_id "ENSP00000266087.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "FBXO7--RNU7-167P^ENST00000266087.12" ; transcript_name "FBXO7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GGA1--CRIP1P3 HAVANA gene 1121 21175 . + . FI_gene_label "GGA1^ENSG00000100083.19" ; ID "GGA1--CRIP1P3^GGA1^ENSG00000100083.19" ; ccdsid "CCDS33643.1" ; exon_id "ENSE00001870111.1" ; exon_number 1 ; gene_id "GGA1--CRIP1P3^GGA1^ENSG00000100083.19" ; gene_name GGA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030985.28" ; havana_transcript "OTTHUMT00000353186.1" ; hgnc_id "HGNC:17842" ; level 2 ; orig_coord_info "chr22,37608861,37608903,+" ; protein_id "ENSP00000321288.8" ; tag basic CCDS ; transcript_id "GGA1--CRIP1P3^ENST00000325180.12" ; transcript_name "GGA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
GGA1--CRIP1P3 HAVANA mRNA 1121 21175 . + . FI_gene_label "GGA1^ENSG00000100083.19" ; ID "GGA1--CRIP1P3^ENST00000325180.12" ; Parent "GGA1--CRIP1P3^GGA1^ENSG00000100083.19" ; ccdsid "CCDS33643.1" ; exon_id "ENSE00001870111.1" ; exon_number 1 ; gene_id "GGA1--CRIP1P3^GGA1^ENSG00000100083.19" ; gene_name GGA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030985.28" ; havana_transcript "OTTHUMT00000353186.1" ; hgnc_id "HGNC:17842" ; level 2 ; orig_coord_info "chr22,37608861,37608903,+" ; protein_id "ENSP00000321288.8" ; tag basic CCDS ; transcript_id "GGA1--CRIP1P3^ENST00000325180.12" ; transcript_name "GGA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GGA1--GPR37L1 HAVANA gene 1121 21175 . + . FI_gene_label "GGA1^ENSG00000100083.19" ; ID "GGA1--GPR37L1^GGA1^ENSG00000100083.19" ; ccdsid "CCDS33643.1" ; exon_id "ENSE00001870111.1" ; exon_number 1 ; gene_id "GGA1--GPR37L1^GGA1^ENSG00000100083.19" ; gene_name GGA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030985.28" ; havana_transcript "OTTHUMT00000353186.1" ; hgnc_id "HGNC:17842" ; level 2 ; orig_coord_info "chr22,37608861,37608903,+" ; protein_id "ENSP00000321288.8" ; tag basic CCDS ; transcript_id "GGA1--GPR37L1^ENST00000325180.12" ; transcript_name "GGA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
GGA1--GPR37L1 HAVANA mRNA 1121 21175 . + . FI_gene_label "GGA1^ENSG00000100083.19" ; ID "GGA1--GPR37L1^ENST00000325180.12" ; Parent "GGA1--GPR37L1^GGA1^ENSG00000100083.19" ; ccdsid "CCDS33643.1" ; exon_id "ENSE00001870111.1" ; exon_number 1 ; gene_id "GGA1--GPR37L1^GGA1^ENSG00000100083.19" ; gene_name GGA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030985.28" ; havana_transcript "OTTHUMT00000353186.1" ; hgnc_id "HGNC:17842" ; level 2 ; orig_coord_info "chr22,37608861,37608903,+" ; protein_id "ENSP00000321288.8" ; tag basic CCDS ; transcript_id "GGA1--GPR37L1^ENST00000325180.12" ; transcript_name "GGA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GGA1--GPR37L1 HAVANA gene 24176 31704 . + . FI_gene_label "GPR37L1^ENSG00000170075.9" ; ID "GGA1--GPR37L1^GPR37L1^ENSG00000170075.9" ; ccdsid "CCDS1420.1" ; exon_id "ENSE00001444059.4" ; exon_number 1 ; gene_id "GGA1--GPR37L1^GPR37L1^ENSG00000170075.9" ; gene_name GPR37L1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000035924.3" ; havana_transcript "OTTHUMT00000087496.3" ; hgnc_id "HGNC:14923" ; level 2 ; orig_coord_info "chr1,202122964,202123593,+" ; protein_id "ENSP00000356251.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GGA1--GPR37L1^ENST00000367282.6" ; transcript_name "GPR37L1-201" ; transcript_support_level 1 ; transcript_type protein_coding
GGA1--GPR37L1 HAVANA mRNA 24176 31704 . + . FI_gene_label "GPR37L1^ENSG00000170075.9" ; ID "GGA1--GPR37L1^ENST00000367282.6" ; Parent "GGA1--GPR37L1^GPR37L1^ENSG00000170075.9" ; ccdsid "CCDS1420.1" ; exon_id "ENSE00001444059.4" ; exon_number 1 ; gene_id "GGA1--GPR37L1^GPR37L1^ENSG00000170075.9" ; gene_name GPR37L1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000035924.3" ; havana_transcript "OTTHUMT00000087496.3" ; hgnc_id "HGNC:14923" ; level 2 ; orig_coord_info "chr1,202122964,202123593,+" ; protein_id "ENSP00000356251.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GGA1--GPR37L1^ENST00000367282.6" ; transcript_name "GPR37L1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GTPBP1--FAM230B HAVANA gene 1203 16736 . + . FI_gene_label "GTPBP1^ENSG00000100226.16" ; ID "GTPBP1--FAM230B^GTPBP1^ENSG00000100226.16" ; ccdsid "CCDS13977.2" ; exon_id "ENSE00001840100.2" ; exon_number 1 ; gene_id "GTPBP1--FAM230B^GTPBP1^ENSG00000100226.16" ; gene_name GTPBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151002.5" ; havana_transcript "OTTHUMT00000075532.2" ; hgnc_id "HGNC:4669" ; level 2 ; orig_coord_info "chr22,38705956,38706147,+" ; protein_id "ENSP00000216044.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GTPBP1--FAM230B^ENST00000216044.10" ; transcript_name "GTPBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
GTPBP1--FAM230B HAVANA mRNA 1203 16736 . + . FI_gene_label "GTPBP1^ENSG00000100226.16" ; ID "GTPBP1--FAM230B^ENST00000216044.10" ; Parent "GTPBP1--FAM230B^GTPBP1^ENSG00000100226.16" ; ccdsid "CCDS13977.2" ; exon_id "ENSE00001840100.2" ; exon_number 1 ; gene_id "GTPBP1--FAM230B^GTPBP1^ENSG00000100226.16" ; gene_name GTPBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151002.5" ; havana_transcript "OTTHUMT00000075532.2" ; hgnc_id "HGNC:4669" ; level 2 ; orig_coord_info "chr22,38705956,38706147,+" ; protein_id "ENSP00000216044.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GTPBP1--FAM230B^ENST00000216044.10" ; transcript_name "GTPBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HSCB--ZNRF3 HAVANA gene 1001 7298 . + . FI_gene_label "HSCB^ENSG00000100209.11" ; ID "HSCB--ZNRF3^HSCB^ENSG00000100209.11" ; ccdsid "CCDS13845.1" ; exon_id "ENSE00001048167.2" ; exon_number 1 ; gene_id "HSCB--ZNRF3^HSCB^ENSG00000100209.11" ; gene_name HSCB ; gene_type protein_coding ; havana_gene "OTTHUMG00000151092.2" ; havana_transcript "OTTHUMT00000321263.2" ; hgnc_id "HGNC:28913" ; level 2 ; orig_coord_info "chr22,28742096,28742331,+" ; protein_id "ENSP00000216027.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HSCB--ZNRF3^ENST00000216027.8" ; transcript_name "HSCB-201" ; transcript_support_level 1 ; transcript_type protein_coding
HSCB--ZNRF3 HAVANA mRNA 1001 7298 . + . FI_gene_label "HSCB^ENSG00000100209.11" ; ID "HSCB--ZNRF3^ENST00000216027.8" ; Parent "HSCB--ZNRF3^HSCB^ENSG00000100209.11" ; ccdsid "CCDS13845.1" ; exon_id "ENSE00001048167.2" ; exon_number 1 ; gene_id "HSCB--ZNRF3^HSCB^ENSG00000100209.11" ; gene_name HSCB ; gene_type protein_coding ; havana_gene "OTTHUMG00000151092.2" ; havana_transcript "OTTHUMT00000321263.2" ; hgnc_id "HGNC:28913" ; level 2 ; orig_coord_info "chr22,28742096,28742331,+" ; protein_id "ENSP00000216027.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HSCB--ZNRF3^ENST00000216027.8" ; transcript_name "HSCB-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HSCB--ZNRF3 HAVANA gene 11799 21923 . + . FI_gene_label "ZNRF3^ENSG00000183579.16" ; ID "HSCB--ZNRF3^ZNRF3^ENSG00000183579.16" ; ccdsid "CCDS42999.1" ; exon_id "ENSE00003547707.1" ; exon_number 2 ; gene_id "HSCB--ZNRF3^ZNRF3^ENSG00000183579.16" ; gene_name ZNRF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151009.3" ; havana_transcript "OTTHUMT00000320944.1" ; hgnc_id "HGNC:18126" ; level 2 ; orig_coord_info "chr22,28987076,28987201,+" ; protein_id "ENSP00000384456.1" ; tag alternative_5_UTR basic CCDS ; transcript_id "HSCB--ZNRF3^ENST00000402174.5" ; transcript_name "ZNRF3-201" ; transcript_support_level 2 ; transcript_type protein_coding
HSCB--ZNRF3 HAVANA mRNA 11799 21923 . + . FI_gene_label "ZNRF3^ENSG00000183579.16" ; ID "HSCB--ZNRF3^ENST00000402174.5" ; Parent "HSCB--ZNRF3^ZNRF3^ENSG00000183579.16" ; ccdsid "CCDS42999.1" ; exon_id "ENSE00003547707.1" ; exon_number 2 ; gene_id "HSCB--ZNRF3^ZNRF3^ENSG00000183579.16" ; gene_name ZNRF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151009.3" ; havana_transcript "OTTHUMT00000320944.1" ; hgnc_id "HGNC:18126" ; level 2 ; orig_coord_info "chr22,28987076,28987201,+" ; protein_id "ENSP00000384456.1" ; tag alternative_5_UTR basic CCDS ; transcript_id "HSCB--ZNRF3^ENST00000402174.5" ; transcript_name "ZNRF3-201" ; transcript_support_level 2 ; 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:
LYPLAL1--SBF1 HAVANA gene 12679 29723 . + . FI_gene_label "SBF1^ENSG00000100241.21" ; ID "LYPLAL1--SBF1^SBF1^ENSG00000100241.21" ; exon_id "ENSE00001830259.1" ; exon_number 1 ; gene_id "LYPLAL1--SBF1^SBF1^ENSG00000100241.21" ; gene_name SBF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150204.4" ; havana_transcript "OTTHUMT00000316821.2" ; hgnc_id "HGNC:10542" ; level 2 ; orig_coord_info "chr22,50474786,50474840,-" ; protein_id "ENSP00000252027.7" ; tag basic appris_alternative_2 ; transcript_id "LYPLAL1--SBF1^ENST00000348911.10" ; transcript_name "SBF1-201" ; transcript_support_level 5 ; transcript_type protein_coding
LYPLAL1--SBF1 HAVANA mRNA 12679 29723 . + . FI_gene_label "SBF1^ENSG00000100241.21" ; ID "LYPLAL1--SBF1^ENST00000348911.10" ; Parent "LYPLAL1--SBF1^SBF1^ENSG00000100241.21" ; exon_id "ENSE00001830259.1" ; exon_number 1 ; gene_id "LYPLAL1--SBF1^SBF1^ENSG00000100241.21" ; gene_name SBF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150204.4" ; havana_transcript "OTTHUMT00000316821.2" ; hgnc_id "HGNC:10542" ; level 2 ; orig_coord_info "chr22,50474786,50474840,-" ; protein_id "ENSP00000252027.7" ; tag basic appris_alternative_2 ; transcript_id "LYPLAL1--SBF1^ENST00000348911.10" ; transcript_name "SBF1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
LYPLAL1--SBF1 HAVANA gene 1007 9585 . + . FI_gene_label "LYPLAL1^ENSG00000143353.12" ; ID "LYPLAL1--SBF1^LYPLAL1^ENSG00000143353.12" ; ccdsid "CCDS73032.1" ; exon_id "ENSE00001849515.1" ; exon_number 1 ; gene_id "LYPLAL1--SBF1^LYPLAL1^ENSG00000143353.12" ; gene_name LYPLAL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037141.3" ; havana_transcript "OTTHUMT00000090210.1" ; hgnc_id "HGNC:20440" ; level 2 ; orig_coord_info "chr1,219173891,219173981,+" ; protein_id "ENSP00000355894.3" ; tag basic CCDS ; transcript_id "LYPLAL1--SBF1^ENST00000366927.3" ; transcript_name "LYPLAL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LYPLAL1--SBF1 HAVANA mRNA 1007 9585 . + . FI_gene_label "LYPLAL1^ENSG00000143353.12" ; ID "LYPLAL1--SBF1^ENST00000366927.3" ; Parent "LYPLAL1--SBF1^LYPLAL1^ENSG00000143353.12" ; ccdsid "CCDS73032.1" ; exon_id "ENSE00001849515.1" ; exon_number 1 ; gene_id "LYPLAL1--SBF1^LYPLAL1^ENSG00000143353.12" ; gene_name LYPLAL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037141.3" ; havana_transcript "OTTHUMT00000090210.1" ; hgnc_id "HGNC:20440" ; level 2 ; orig_coord_info "chr1,219173891,219173981,+" ; protein_id "ENSP00000355894.3" ; tag basic CCDS ; transcript_id "LYPLAL1--SBF1^ENST00000366927.3" ; transcript_name "LYPLAL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MTAP--CNTN2 HAVANA gene 29971 53301 . + . FI_gene_label "CNTN2^ENSG00000184144.12" ; ID "MTAP--CNTN2^CNTN2^ENSG00000184144.12" ; ccdsid "CCDS1449.1" ; exon_id "ENSE00001075789.3" ; exon_number 2 ; gene_id "MTAP--CNTN2^CNTN2^ENSG00000184144.12" ; gene_name CNTN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037105.39" ; havana_transcript "OTTHUMT00000090080.38" ; hgnc_id "HGNC:2172" ; level 2 ; orig_coord_info "chr1,205053186,205053255,+" ; protein_id "ENSP00000330633.4" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "MTAP--CNTN2^ENST00000331830.7" ; transcript_name "CNTN2-201" ; transcript_support_level 1 ; transcript_type protein_coding
MTAP--CNTN2 HAVANA mRNA 29971 53301 . + . FI_gene_label "CNTN2^ENSG00000184144.12" ; ID "MTAP--CNTN2^ENST00000331830.7" ; Parent "MTAP--CNTN2^CNTN2^ENSG00000184144.12" ; ccdsid "CCDS1449.1" ; exon_id "ENSE00001075789.3" ; exon_number 2 ; gene_id "MTAP--CNTN2^CNTN2^ENSG00000184144.12" ; gene_name CNTN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037105.39" ; havana_transcript "OTTHUMT00000090080.38" ; hgnc_id "HGNC:2172" ; level 2 ; orig_coord_info "chr1,205053186,205053255,+" ; protein_id "ENSP00000330633.4" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "MTAP--CNTN2^ENST00000331830.7" ; transcript_name "CNTN2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MTAP--CNTN2 HAVANA gene 1022 14638 . + . FI_gene_label "MTAP^ENSG00000099810.21" ; ID "MTAP--CNTN2^MTAP^ENSG00000099810.21" ; exon_id "ENSE00001547793.2" ; exon_number 1 ; gene_id "MTAP--CNTN2^MTAP^ENSG00000099810.21" ; gene_name MTAP ; gene_type protein_coding ; havana_gene "OTTHUMG00000019690.10" ; havana_transcript "OTTHUMT00000334287.1" ; hgnc_id "HGNC:7413" ; level 2 ; orig_coord_info "chr9,21802749,21802781,+" ; protein_id "ENSP00000393507.1" ; tag not_organism_supported ; transcript_id "MTAP--CNTN2^ENST00000419385.5" ; transcript_name "MTAP-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
MTAP--CNTN2 HAVANA mRNA 1022 14638 . + . FI_gene_label "MTAP^ENSG00000099810.21" ; ID "MTAP--CNTN2^ENST00000419385.5" ; Parent "MTAP--CNTN2^MTAP^ENSG00000099810.21" ; exon_id "ENSE00001547793.2" ; exon_number 1 ; gene_id "MTAP--CNTN2^MTAP^ENSG00000099810.21" ; gene_name MTAP ; gene_type protein_coding ; havana_gene "OTTHUMG00000019690.10" ; havana_transcript "OTTHUMT00000334287.1" ; hgnc_id "HGNC:7413" ; level 2 ; orig_coord_info "chr9,21802749,21802781,+" ; protein_id "ENSP00000393507.1" ; tag not_organism_supported ; transcript_id "MTAP--CNTN2^ENST00000419385.5" ; transcript_name "MTAP-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
NAV3--AC079362.1 HAVANA gene 3983 56115 . + . FI_gene_label "NAV3^ENSG00000067798.16" ; ID "NAV3--AC079362.1^NAV3^ENSG00000067798.16" ; ccdsid "CCDS66432.1" ; exon_id "ENSE00003848762.1" ; exon_number 1 ; gene_id "NAV3--AC079362.1^NAV3^ENSG00000067798.16" ; gene_name NAV3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000170001.5" ; havana_transcript "OTTHUMT00000406812.2" ; hgnc_id "HGNC:15998" ; level 2 ; orig_coord_info "chr12,77831462,77831704,+" ; protein_id "ENSP00000381007.2" ; tag basic MANE_Select CCDS ; transcript_id "NAV3--AC079362.1^ENST00000397909.7" ; transcript_name "NAV3-201" ; transcript_support_level 1 ; transcript_type protein_coding
NAV3--AC079362.1 HAVANA mRNA 3983 56115 . + . FI_gene_label "NAV3^ENSG00000067798.16" ; ID "NAV3--AC079362.1^ENST00000397909.7" ; Parent "NAV3--AC079362.1^NAV3^ENSG00000067798.16" ; ccdsid "CCDS66432.1" ; exon_id "ENSE00003848762.1" ; exon_number 1 ; gene_id "NAV3--AC079362.1^NAV3^ENSG00000067798.16" ; gene_name NAV3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000170001.5" ; havana_transcript "OTTHUMT00000406812.2" ; hgnc_id "HGNC:15998" ; level 2 ; orig_coord_info "chr12,77831462,77831704,+" ; protein_id "ENSP00000381007.2" ; tag basic MANE_Select CCDS ; transcript_id "NAV3--AC079362.1^ENST00000397909.7" ; transcript_name "NAV3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NOX4--AP003400.1 HAVANA gene 3041 25020 . + . FI_gene_label "NOX4^ENSG00000086991.13" ; ID "NOX4--AP003400.1^NOX4^ENSG00000086991.13" ; ccdsid "CCDS8285.1" ; exon_id "ENSE00003509754.2" ; exon_number 1 ; gene_id "NOX4--AP003400.1^NOX4^ENSG00000086991.13" ; gene_name NOX4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167298.3" ; havana_transcript "OTTHUMT00000394054.2" ; hgnc_id "HGNC:7891" ; level 2 ; orig_coord_info "chr11,89491190,89491246,-" ; protein_id "ENSP00000263317.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NOX4--AP003400.1^ENST00000263317.9" ; transcript_name "NOX4-201" ; transcript_support_level 1 ; transcript_type protein_coding
NOX4--AP003400.1 HAVANA mRNA 3041 25020 . + . FI_gene_label "NOX4^ENSG00000086991.13" ; ID "NOX4--AP003400.1^ENST00000263317.9" ; Parent "NOX4--AP003400.1^NOX4^ENSG00000086991.13" ; ccdsid "CCDS8285.1" ; exon_id "ENSE00003509754.2" ; exon_number 1 ; gene_id "NOX4--AP003400.1^NOX4^ENSG00000086991.13" ; gene_name NOX4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167298.3" ; havana_transcript "OTTHUMT00000394054.2" ; hgnc_id "HGNC:7891" ; level 2 ; orig_coord_info "chr11,89491190,89491246,-" ; protein_id "ENSP00000263317.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NOX4--AP003400.1^ENST00000263317.9" ; transcript_name "NOX4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA11--PCDHA13 HAVANA gene 7419 15859 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA11--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA11--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA11--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA11--PCDHA13 HAVANA mRNA 7419 15859 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA11--PCDHA13^ENST00000289272.3" ; Parent "PCDHA11--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA11--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA11--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA11--PCDHA13 HAVANA gene 1001 4418 . + . FI_gene_label "PCDHA11^ENSG00000249158.7" ; ID "PCDHA11--PCDHA13^PCDHA11^ENSG00000249158.7" ; ccdsid "CCDS75326.1" ; exon_id "ENSE00003719125.1" ; exon_number 1 ; gene_id "PCDHA11--PCDHA13^PCDHA11^ENSG00000249158.7" ; gene_name PCDHA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163369.3" ; havana_transcript "OTTHUMT00000477577.1" ; hgnc_id "HGNC:8665" ; level 2 ; orig_coord_info "chr5,140869104,140871533,+" ; protein_id "ENSP00000482503.1" ; tag basic CCDS ; transcript_id "PCDHA11--PCDHA13^ENST00000616325.1" ; transcript_name "PCDHA11-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA11--PCDHA13 HAVANA mRNA 1001 4418 . + . FI_gene_label "PCDHA11^ENSG00000249158.7" ; ID "PCDHA11--PCDHA13^ENST00000616325.1" ; Parent "PCDHA11--PCDHA13^PCDHA11^ENSG00000249158.7" ; ccdsid "CCDS75326.1" ; exon_id "ENSE00003719125.1" ; exon_number 1 ; gene_id "PCDHA11--PCDHA13^PCDHA11^ENSG00000249158.7" ; gene_name PCDHA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163369.3" ; havana_transcript "OTTHUMT00000477577.1" ; hgnc_id "HGNC:8665" ; level 2 ; orig_coord_info "chr5,140869104,140871533,+" ; protein_id "ENSP00000482503.1" ; tag basic CCDS ; transcript_id "PCDHA11--PCDHA13^ENST00000616325.1" ; transcript_name "PCDHA11-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA11--PCDHAC1 HAVANA gene 7419 17434 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA11--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA11--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA11--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA11--PCDHAC1 HAVANA mRNA 7419 17434 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA11--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA11--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA11--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA11--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA11--PCDHAC1 HAVANA gene 1001 4418 . + . FI_gene_label "PCDHA11^ENSG00000249158.7" ; ID "PCDHA11--PCDHAC1^PCDHA11^ENSG00000249158.7" ; ccdsid "CCDS75326.1" ; exon_id "ENSE00003719125.1" ; exon_number 1 ; gene_id "PCDHA11--PCDHAC1^PCDHA11^ENSG00000249158.7" ; gene_name PCDHA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163369.3" ; havana_transcript "OTTHUMT00000477577.1" ; hgnc_id "HGNC:8665" ; level 2 ; orig_coord_info "chr5,140869104,140871533,+" ; protein_id "ENSP00000482503.1" ; tag basic CCDS ; transcript_id "PCDHA11--PCDHAC1^ENST00000616325.1" ; transcript_name "PCDHA11-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA11--PCDHAC1 HAVANA mRNA 1001 4418 . + . FI_gene_label "PCDHA11^ENSG00000249158.7" ; ID "PCDHA11--PCDHAC1^ENST00000616325.1" ; Parent "PCDHA11--PCDHAC1^PCDHA11^ENSG00000249158.7" ; ccdsid "CCDS75326.1" ; exon_id "ENSE00003719125.1" ; exon_number 1 ; gene_id "PCDHA11--PCDHAC1^PCDHA11^ENSG00000249158.7" ; gene_name PCDHA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163369.3" ; havana_transcript "OTTHUMT00000477577.1" ; hgnc_id "HGNC:8665" ; level 2 ; orig_coord_info "chr5,140869104,140871533,+" ; protein_id "ENSP00000482503.1" ; tag basic CCDS ; transcript_id "PCDHA11--PCDHAC1^ENST00000616325.1" ; transcript_name "PCDHA11-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA11--PCDHAC2 HAVANA gene 7425 18160 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA11--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA11--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA11--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA11--PCDHAC2 HAVANA mRNA 7425 18160 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA11--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA11--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA11--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA11--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA11--PCDHAC2 HAVANA gene 1001 4418 . + . FI_gene_label "PCDHA11^ENSG00000249158.7" ; ID "PCDHA11--PCDHAC2^PCDHA11^ENSG00000249158.7" ; ccdsid "CCDS75326.1" ; exon_id "ENSE00003719125.1" ; exon_number 1 ; gene_id "PCDHA11--PCDHAC2^PCDHA11^ENSG00000249158.7" ; gene_name PCDHA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163369.3" ; havana_transcript "OTTHUMT00000477577.1" ; hgnc_id "HGNC:8665" ; level 2 ; orig_coord_info "chr5,140869104,140871533,+" ; protein_id "ENSP00000482503.1" ; tag basic CCDS ; transcript_id "PCDHA11--PCDHAC2^ENST00000616325.1" ; transcript_name "PCDHA11-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA11--PCDHAC2 HAVANA mRNA 1001 4418 . + . FI_gene_label "PCDHA11^ENSG00000249158.7" ; ID "PCDHA11--PCDHAC2^ENST00000616325.1" ; Parent "PCDHA11--PCDHAC2^PCDHA11^ENSG00000249158.7" ; ccdsid "CCDS75326.1" ; exon_id "ENSE00003719125.1" ; exon_number 1 ; gene_id "PCDHA11--PCDHAC2^PCDHA11^ENSG00000249158.7" ; gene_name PCDHA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163369.3" ; havana_transcript "OTTHUMT00000477577.1" ; hgnc_id "HGNC:8665" ; level 2 ; orig_coord_info "chr5,140869104,140871533,+" ; protein_id "ENSP00000482503.1" ; tag basic CCDS ; transcript_id "PCDHA11--PCDHAC2^ENST00000616325.1" ; transcript_name "PCDHA11-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHA13 HAVANA gene 14666 23106 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHA13 HAVANA mRNA 14666 23106 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA4--PCDHA13^ENST00000289272.3" ; Parent "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHA13 ENSEMBL gene 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHA13^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHA13 ENSEMBL mRNA 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHA13^ENST00000378125.4" ; Parent "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHA13^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC1 HAVANA gene 14666 24681 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHAC1 HAVANA mRNA 14666 24681 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA4--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC1 ENSEMBL gene 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC1^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHAC1 ENSEMBL mRNA 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC1^ENST00000378125.4" ; Parent "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC1^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC2 HAVANA gene 14672 25407 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHAC2 HAVANA mRNA 14672 25407 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA4--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC2 ENSEMBL gene 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC2^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHAC2 ENSEMBL mRNA 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC2^ENST00000378125.4" ; Parent "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC2^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PRR14L--RBBP5 HAVANA gene 24569 39064 . + . FI_gene_label "RBBP5^ENSG00000117222.14" ; ID "PRR14L--RBBP5^RBBP5^ENSG00000117222.14" ; ccdsid "CCDS30983.1" ; exon_id "ENSE00003851070.1" ; exon_number 1 ; gene_id "PRR14L--RBBP5^RBBP5^ENSG00000117222.14" ; gene_name RBBP5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037104.2" ; havana_transcript "OTTHUMT00000090077.2" ; hgnc_id "HGNC:9888" ; level 2 ; orig_coord_info "chr1,205121855,205121873,-" ; protein_id "ENSP00000264515.6" ; tag basic MANE_Select appris_principal_3 CCDS ; transcript_id "PRR14L--RBBP5^ENST00000264515.11" ; transcript_name "RBBP5-201" ; transcript_support_level 1 ; transcript_type protein_coding
PRR14L--RBBP5 HAVANA mRNA 24569 39064 . + . FI_gene_label "RBBP5^ENSG00000117222.14" ; ID "PRR14L--RBBP5^ENST00000264515.11" ; Parent "PRR14L--RBBP5^RBBP5^ENSG00000117222.14" ; ccdsid "CCDS30983.1" ; exon_id "ENSE00003851070.1" ; exon_number 1 ; gene_id "PRR14L--RBBP5^RBBP5^ENSG00000117222.14" ; gene_name RBBP5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037104.2" ; havana_transcript "OTTHUMT00000090077.2" ; hgnc_id "HGNC:9888" ; level 2 ; orig_coord_info "chr1,205121855,205121873,-" ; protein_id "ENSP00000264515.6" ; tag basic MANE_Select appris_principal_3 CCDS ; transcript_id "PRR14L--RBBP5^ENST00000264515.11" ; transcript_name "RBBP5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PRR14L--RBBP5 HAVANA gene 1009 19768 . + . FI_gene_label "PRR14L^ENSG00000183530.14" ; ID "PRR14L--RBBP5^PRR14L^ENSG00000183530.14" ; ccdsid "CCDS13900.2" ; exon_id "ENSE00001528902.1" ; exon_number 2 ; gene_id "PRR14L--RBBP5^PRR14L^ENSG00000183530.14" ; gene_name PRR14L ; gene_type protein_coding ; havana_gene "OTTHUMG00000030139.16" ; havana_transcript "OTTHUMT00000074993.3" ; hgnc_id "HGNC:28738" ; level 2 ; orig_coord_info "chr22,31738387,31738860,-" ; protein_id "ENSP00000331845.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRR14L--RBBP5^ENST00000327423.11" ; transcript_name "PRR14L-201" ; transcript_support_level 5 ; transcript_type protein_coding
PRR14L--RBBP5 HAVANA mRNA 1009 19768 . + . FI_gene_label "PRR14L^ENSG00000183530.14" ; ID "PRR14L--RBBP5^ENST00000327423.11" ; Parent "PRR14L--RBBP5^PRR14L^ENSG00000183530.14" ; ccdsid "CCDS13900.2" ; exon_id "ENSE00001528902.1" ; exon_number 2 ; gene_id "PRR14L--RBBP5^PRR14L^ENSG00000183530.14" ; gene_name PRR14L ; gene_type protein_coding ; havana_gene "OTTHUMG00000030139.16" ; havana_transcript "OTTHUMT00000074993.3" ; hgnc_id "HGNC:28738" ; level 2 ; orig_coord_info "chr22,31738387,31738860,-" ; protein_id "ENSP00000331845.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRR14L--RBBP5^ENST00000327423.11" ; transcript_name "PRR14L-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
SLC24A5--SLC12A1 HAVANA gene 18148 34642 . + . FI_gene_label "SLC12A1^ENSG00000074803.20" ; ID "SLC24A5--SLC12A1^SLC12A1^ENSG00000074803.20" ; exon_id "ENSE00003649273.1" ; exon_number 1 ; gene_id "SLC24A5--SLC12A1^SLC12A1^ENSG00000074803.20" ; gene_name SLC12A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131495.10" ; havana_transcript "OTTHUMT00000417130.1" ; hgnc_id "HGNC:10910" ; level 1 ; orig_coord_info "chr15,48207720,48208139,+" ; protein_id "ENSP00000331550.6" ; tag basic exp_conf ; transcript_id "SLC24A5--SLC12A1^ENST00000330289.10" ; transcript_name "SLC12A1-201" ; transcript_support_level 1 ; transcript_type protein_coding
SLC24A5--SLC12A1 HAVANA mRNA 18148 34642 . + . FI_gene_label "SLC12A1^ENSG00000074803.20" ; ID "SLC24A5--SLC12A1^ENST00000330289.10" ; Parent "SLC24A5--SLC12A1^SLC12A1^ENSG00000074803.20" ; exon_id "ENSE00003649273.1" ; exon_number 1 ; gene_id "SLC24A5--SLC12A1^SLC12A1^ENSG00000074803.20" ; gene_name SLC12A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131495.10" ; havana_transcript "OTTHUMT00000417130.1" ; hgnc_id "HGNC:10910" ; level 1 ; orig_coord_info "chr15,48207720,48208139,+" ; protein_id "ENSP00000331550.6" ; tag basic exp_conf ; transcript_id "SLC24A5--SLC12A1^ENST00000330289.10" ; transcript_name "SLC12A1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SLC24A5--SLC12A1 HAVANA gene 1001 11703 . + . FI_gene_label "SLC24A5^ENSG00000188467.11" ; ID "SLC24A5--SLC12A1^SLC24A5^ENSG00000188467.11" ; ccdsid "CCDS10128.1" ; exon_id "ENSE00001382203.3" ; exon_number 1 ; gene_id "SLC24A5--SLC12A1^SLC24A5^ENSG00000188467.11" ; gene_name SLC24A5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131494.5" ; havana_transcript "OTTHUMT00000254340.3" ; hgnc_id "HGNC:20611" ; level 2 ; orig_coord_info "chr15,48121045,48121165,+" ; protein_id "ENSP00000341550.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SLC24A5--SLC12A1^ENST00000341459.8" ; transcript_name "SLC24A5-201" ; transcript_support_level 1 ; transcript_type protein_coding
SLC24A5--SLC12A1 HAVANA mRNA 1001 11703 . + . FI_gene_label "SLC24A5^ENSG00000188467.11" ; ID "SLC24A5--SLC12A1^ENST00000341459.8" ; Parent "SLC24A5--SLC12A1^SLC24A5^ENSG00000188467.11" ; ccdsid "CCDS10128.1" ; exon_id "ENSE00001382203.3" ; exon_number 1 ; gene_id "SLC24A5--SLC12A1^SLC24A5^ENSG00000188467.11" ; gene_name SLC24A5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131494.5" ; havana_transcript "OTTHUMT00000254340.3" ; hgnc_id "HGNC:20611" ; level 2 ; orig_coord_info "chr15,48121045,48121165,+" ; protein_id "ENSP00000341550.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SLC24A5--SLC12A1^ENST00000341459.8" ; transcript_name "SLC24A5-201" ; transcript_support_level 1 ; 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:
TRAF5--GGA1 HAVANA gene 1219 17802 . + . FI_gene_label "TRAF5^ENSG00000082512.15" ; ID "TRAF5--GGA1^TRAF5^ENSG00000082512.15" ; ccdsid "CCDS1497.1" ; exon_id "ENSE00003484184.1" ; exon_number 2 ; gene_id "TRAF5--GGA1^TRAF5^ENSG00000082512.15" ; gene_name TRAF5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000036997.1" ; havana_transcript "OTTHUMT00000089825.1" ; hgnc_id "HGNC:12035" ; level 2 ; orig_coord_info "chr1,211353240,211353457,+" ; protein_id "ENSP00000261464.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TRAF5--GGA1^ENST00000261464.10" ; transcript_name "TRAF5-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRAF5--GGA1 HAVANA mRNA 1219 17802 . + . FI_gene_label "TRAF5^ENSG00000082512.15" ; ID "TRAF5--GGA1^ENST00000261464.10" ; Parent "TRAF5--GGA1^TRAF5^ENSG00000082512.15" ; ccdsid "CCDS1497.1" ; exon_id "ENSE00003484184.1" ; exon_number 2 ; gene_id "TRAF5--GGA1^TRAF5^ENSG00000082512.15" ; gene_name TRAF5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000036997.1" ; havana_transcript "OTTHUMT00000089825.1" ; hgnc_id "HGNC:12035" ; level 2 ; orig_coord_info "chr1,211353240,211353457,+" ; protein_id "ENSP00000261464.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TRAF5--GGA1^ENST00000261464.10" ; transcript_name "TRAF5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TRAF5--GGA1 HAVANA gene 20923 40977 . + . FI_gene_label "GGA1^ENSG00000100083.19" ; ID "TRAF5--GGA1^GGA1^ENSG00000100083.19" ; ccdsid "CCDS33643.1" ; exon_id "ENSE00001870111.1" ; exon_number 1 ; gene_id "TRAF5--GGA1^GGA1^ENSG00000100083.19" ; gene_name GGA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030985.28" ; havana_transcript "OTTHUMT00000353186.1" ; hgnc_id "HGNC:17842" ; level 2 ; orig_coord_info "chr22,37608861,37608903,+" ; protein_id "ENSP00000321288.8" ; tag basic CCDS ; transcript_id "TRAF5--GGA1^ENST00000325180.12" ; transcript_name "GGA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRAF5--GGA1 HAVANA mRNA 20923 40977 . + . FI_gene_label "GGA1^ENSG00000100083.19" ; ID "TRAF5--GGA1^ENST00000325180.12" ; Parent "TRAF5--GGA1^GGA1^ENSG00000100083.19" ; ccdsid "CCDS33643.1" ; exon_id "ENSE00001870111.1" ; exon_number 1 ; gene_id "TRAF5--GGA1^GGA1^ENSG00000100083.19" ; gene_name GGA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030985.28" ; havana_transcript "OTTHUMT00000353186.1" ; hgnc_id "HGNC:17842" ; level 2 ; orig_coord_info "chr22,37608861,37608903,+" ; protein_id "ENSP00000321288.8" ; tag basic CCDS ; transcript_id "TRAF5--GGA1^ENST00000325180.12" ; transcript_name "GGA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TSPAN14--PLCE1 HAVANA gene 1190 16102 . + . FI_gene_label "TSPAN14^ENSG00000108219.15" ; ID "TSPAN14--PLCE1^TSPAN14^ENSG00000108219.15" ; exon_id "ENSE00003597471.1" ; exon_number 2 ; gene_id "TSPAN14--PLCE1^TSPAN14^ENSG00000108219.15" ; gene_name TSPAN14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018615.5" ; havana_transcript "OTTHUMT00000049080.1" ; hgnc_id "HGNC:23303" ; level 2 ; orig_coord_info "chr10,80489234,80489314,+" ; protein_id "ENSP00000344076.6" ; tag basic ; transcript_id "TSPAN14--PLCE1^ENST00000341863.10" ; transcript_name "TSPAN14-202" ; transcript_support_level 5 ; transcript_type protein_coding
TSPAN14--PLCE1 HAVANA mRNA 1190 16102 . + . FI_gene_label "TSPAN14^ENSG00000108219.15" ; ID "TSPAN14--PLCE1^ENST00000341863.10" ; Parent "TSPAN14--PLCE1^TSPAN14^ENSG00000108219.15" ; exon_id "ENSE00003597471.1" ; exon_number 2 ; gene_id "TSPAN14--PLCE1^TSPAN14^ENSG00000108219.15" ; gene_name TSPAN14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018615.5" ; havana_transcript "OTTHUMT00000049080.1" ; hgnc_id "HGNC:23303" ; level 2 ; orig_coord_info "chr10,80489234,80489314,+" ; protein_id "ENSP00000344076.6" ; tag basic ; transcript_id "TSPAN14--PLCE1^ENST00000341863.10" ; transcript_name "TSPAN14-202" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
TSPAN14--PLCE1 HAVANA gene 37843 72624 . + . FI_gene_label "PLCE1^ENSG00000138193.16" ; ID "TSPAN14--PLCE1^PLCE1^ENSG00000138193.16" ; ccdsid "CCDS53555.1" ; exon_id "ENSE00001455088.1" ; exon_number 1 ; gene_id "TSPAN14--PLCE1^PLCE1^ENSG00000138193.16" ; gene_name PLCE1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018789.3" ; havana_transcript "OTTHUMT00000049470.1" ; hgnc_id "HGNC:17175" ; level 2 ; orig_coord_info "chr10,94089095,94089376,+" ; protein_id "ENSP00000360426.1" ; tag basic appris_alternative_2 CCDS ; transcript_id "TSPAN14--PLCE1^ENST00000371375.1" ; transcript_name "PLCE1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TSPAN14--PLCE1 HAVANA mRNA 37843 72624 . + . FI_gene_label "PLCE1^ENSG00000138193.16" ; ID "TSPAN14--PLCE1^ENST00000371375.1" ; Parent "TSPAN14--PLCE1^PLCE1^ENSG00000138193.16" ; ccdsid "CCDS53555.1" ; exon_id "ENSE00001455088.1" ; exon_number 1 ; gene_id "TSPAN14--PLCE1^PLCE1^ENSG00000138193.16" ; gene_name PLCE1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018789.3" ; havana_transcript "OTTHUMT00000049470.1" ; hgnc_id "HGNC:17175" ; level 2 ; orig_coord_info "chr10,94089095,94089376,+" ; protein_id "ENSP00000360426.1" ; tag basic appris_alternative_2 CCDS ; transcript_id "TSPAN14--PLCE1^ENST00000371375.1" ; transcript_name "PLCE1-201" ; 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:
TXNRD2--AC021355.1 HAVANA gene 1017 16347 . + . FI_gene_label "TXNRD2^ENSG00000184470.21" ; ID "TXNRD2--AC021355.1^TXNRD2^ENSG00000184470.21" ; ccdsid "CCDS63402.1" ; exon_id "ENSE00001543323.2" ; exon_number 1 ; gene_id "TXNRD2--AC021355.1^TXNRD2^ENSG00000184470.21" ; gene_name TXNRD2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000149975.8" ; havana_transcript "OTTHUMT00000488472.1" ; hgnc_id "HGNC:18155" ; level 2 ; orig_coord_info "chr22,19941701,19941803,-" ; protein_id "ENSP00000334451.9" ; tag basic CCDS ; transcript_id "TXNRD2--AC021355.1^ENST00000334363.14" ; transcript_name "TXNRD2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TXNRD2--AC021355.1 HAVANA mRNA 1017 16347 . + . FI_gene_label "TXNRD2^ENSG00000184470.21" ; ID "TXNRD2--AC021355.1^ENST00000334363.14" ; Parent "TXNRD2--AC021355.1^TXNRD2^ENSG00000184470.21" ; ccdsid "CCDS63402.1" ; exon_id "ENSE00001543323.2" ; exon_number 1 ; gene_id "TXNRD2--AC021355.1^TXNRD2^ENSG00000184470.21" ; gene_name TXNRD2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000149975.8" ; havana_transcript "OTTHUMT00000488472.1" ; hgnc_id "HGNC:18155" ; level 2 ; orig_coord_info "chr22,19941701,19941803,-" ; protein_id "ENSP00000334451.9" ; tag basic CCDS ; transcript_id "TXNRD2--AC021355.1^ENST00000334363.14" ; transcript_name "TXNRD2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TXNRD2--GFRA2 HAVANA gene 31992 45616 . + . FI_gene_label "GFRA2^ENSG00000168546.11" ; ID "TXNRD2--GFRA2^GFRA2^ENSG00000168546.11" ; exon_id "ENSE00002125957.1" ; exon_number 1 ; gene_id "TXNRD2--GFRA2^GFRA2^ENSG00000168546.11" ; gene_name GFRA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163897.7" ; havana_transcript "OTTHUMT00000376253.1" ; hgnc_id "HGNC:4244" ; level 2 ; orig_coord_info "chr8,21788120,21788159,-" ; protein_id "ENSP00000306654.4" ; tag not_organism_supported ; transcript_id "TXNRD2--GFRA2^ENST00000306793.4" ; transcript_name "GFRA2-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
TXNRD2--GFRA2 HAVANA mRNA 31992 45616 . + . FI_gene_label "GFRA2^ENSG00000168546.11" ; ID "TXNRD2--GFRA2^ENST00000306793.4" ; Parent "TXNRD2--GFRA2^GFRA2^ENSG00000168546.11" ; exon_id "ENSE00002125957.1" ; exon_number 1 ; gene_id "TXNRD2--GFRA2^GFRA2^ENSG00000168546.11" ; gene_name GFRA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163897.7" ; havana_transcript "OTTHUMT00000376253.1" ; hgnc_id "HGNC:4244" ; level 2 ; orig_coord_info "chr8,21788120,21788159,-" ; protein_id "ENSP00000306654.4" ; tag not_organism_supported ; transcript_id "TXNRD2--GFRA2^ENST00000306793.4" ; transcript_name "GFRA2-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
TXNRD2--GFRA2 HAVANA gene 1017 16347 . + . FI_gene_label "TXNRD2^ENSG00000184470.21" ; ID "TXNRD2--GFRA2^TXNRD2^ENSG00000184470.21" ; ccdsid "CCDS63402.1" ; exon_id "ENSE00001543323.2" ; exon_number 1 ; gene_id "TXNRD2--GFRA2^TXNRD2^ENSG00000184470.21" ; gene_name TXNRD2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000149975.8" ; havana_transcript "OTTHUMT00000488472.1" ; hgnc_id "HGNC:18155" ; level 2 ; orig_coord_info "chr22,19941701,19941803,-" ; protein_id "ENSP00000334451.9" ; tag basic CCDS ; transcript_id "TXNRD2--GFRA2^ENST00000334363.14" ; transcript_name "TXNRD2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TXNRD2--GFRA2 HAVANA mRNA 1017 16347 . + . FI_gene_label "TXNRD2^ENSG00000184470.21" ; ID "TXNRD2--GFRA2^ENST00000334363.14" ; Parent "TXNRD2--GFRA2^TXNRD2^ENSG00000184470.21" ; ccdsid "CCDS63402.1" ; exon_id "ENSE00001543323.2" ; exon_number 1 ; gene_id "TXNRD2--GFRA2^TXNRD2^ENSG00000184470.21" ; gene_name TXNRD2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000149975.8" ; havana_transcript "OTTHUMT00000488472.1" ; hgnc_id "HGNC:18155" ; level 2 ; orig_coord_info "chr22,19941701,19941803,-" ; protein_id "ENSP00000334451.9" ; tag basic CCDS ; transcript_id "TXNRD2--GFRA2^ENST00000334363.14" ; transcript_name "TXNRD2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZMIZ1--AC012560.1 HAVANA gene 1001 33433 . + . FI_gene_label "ZMIZ1^ENSG00000108175.18" ; ID "ZMIZ1--AC012560.1^ZMIZ1^ENSG00000108175.18" ; ccdsid "CCDS7357.1" ; exon_id "ENSE00002270426.1" ; exon_number 5 ; gene_id "ZMIZ1--AC012560.1^ZMIZ1^ENSG00000108175.18" ; gene_name ZMIZ1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018560.3" ; havana_transcript "OTTHUMT00000048944.3" ; hgnc_id "HGNC:16493" ; level 2 ; orig_coord_info "chr10,79201633,79201692,+" ; protein_id "ENSP00000334474.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZMIZ1--AC012560.1^ENST00000334512.10" ; transcript_name "ZMIZ1-201" ; transcript_support_level 5 ; transcript_type protein_coding
ZMIZ1--AC012560.1 HAVANA mRNA 1001 33433 . + . FI_gene_label "ZMIZ1^ENSG00000108175.18" ; ID "ZMIZ1--AC012560.1^ENST00000334512.10" ; Parent "ZMIZ1--AC012560.1^ZMIZ1^ENSG00000108175.18" ; ccdsid "CCDS7357.1" ; exon_id "ENSE00002270426.1" ; exon_number 5 ; gene_id "ZMIZ1--AC012560.1^ZMIZ1^ENSG00000108175.18" ; gene_name ZMIZ1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018560.3" ; havana_transcript "OTTHUMT00000048944.3" ; hgnc_id "HGNC:16493" ; level 2 ; orig_coord_info "chr10,79201633,79201692,+" ; protein_id "ENSP00000334474.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZMIZ1--AC012560.1^ENST00000334512.10" ; transcript_name "ZMIZ1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
ZMIZ1--LINC00595 HAVANA gene 1001 33433 . + . FI_gene_label "ZMIZ1^ENSG00000108175.18" ; ID "ZMIZ1--LINC00595^ZMIZ1^ENSG00000108175.18" ; ccdsid "CCDS7357.1" ; exon_id "ENSE00002270426.1" ; exon_number 5 ; gene_id "ZMIZ1--LINC00595^ZMIZ1^ENSG00000108175.18" ; gene_name ZMIZ1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018560.3" ; havana_transcript "OTTHUMT00000048944.3" ; hgnc_id "HGNC:16493" ; level 2 ; orig_coord_info "chr10,79201633,79201692,+" ; protein_id "ENSP00000334474.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZMIZ1--LINC00595^ENST00000334512.10" ; transcript_name "ZMIZ1-201" ; transcript_support_level 5 ; transcript_type protein_coding
ZMIZ1--LINC00595 HAVANA mRNA 1001 33433 . + . FI_gene_label "ZMIZ1^ENSG00000108175.18" ; ID "ZMIZ1--LINC00595^ENST00000334512.10" ; Parent "ZMIZ1--LINC00595^ZMIZ1^ENSG00000108175.18" ; ccdsid "CCDS7357.1" ; exon_id "ENSE00002270426.1" ; exon_number 5 ; gene_id "ZMIZ1--LINC00595^ZMIZ1^ENSG00000108175.18" ; gene_name ZMIZ1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018560.3" ; havana_transcript "OTTHUMT00000048944.3" ; hgnc_id "HGNC:16493" ; level 2 ; orig_coord_info "chr10,79201633,79201692,+" ; protein_id "ENSP00000334474.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZMIZ1--LINC00595^ENST00000334512.10" ; transcript_name "ZMIZ1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
AC239859.5--AC013734.1 HAVANA gene 4584 4694 . + . FI_gene_label "AC013734.1^ENSG00000277146.1" ; ID "AC239859.5--AC013734.1^AC013734.1^ENSG00000277146.1" ; exon_id "ENSE00003713380.1" ; exon_number 1 ; gene_id "AC239859.5--AC013734.1^AC013734.1^ENSG00000277146.1" ; gene_name "AC013734.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188106.1" ; havana_transcript "OTTHUMT00000475889.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chrY,26453982,26454092,+" ; tag basic ; transcript_id "AC239859.5--AC013734.1^ENST00000619329.1" ; transcript_name "AC013734.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
AC239859.5--AC013734.1 HAVANA RNA 4584 4694 . + . FI_gene_label "AC013734.1^ENSG00000277146.1" ; ID "AC239859.5--AC013734.1^ENST00000619329.1" ; Parent "AC239859.5--AC013734.1^AC013734.1^ENSG00000277146.1" ; exon_id "ENSE00003713380.1" ; exon_number 1 ; gene_id "AC239859.5--AC013734.1^AC013734.1^ENSG00000277146.1" ; gene_name "AC013734.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188106.1" ; havana_transcript "OTTHUMT00000475889.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chrY,26453982,26454092,+" ; tag basic ; transcript_id "AC239859.5--AC013734.1^ENST00000619329.1" ; transcript_name "AC013734.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
AC239859.5--AC013734.1 HAVANA gene 1001 1583 . + . FI_gene_label "AC239859.5^ENSG00000277702.1" ; ID "AC239859.5--AC013734.1^AC239859.5^ENSG00000277702.1" ; exon_id "ENSE00003729917.1" ; exon_number 1 ; gene_id "AC239859.5--AC013734.1^AC239859.5^ENSG00000277702.1" ; gene_name "AC239859.5" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000188681.1" ; havana_transcript "OTTHUMT00000477888.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,143420073,143420207,-" ; tag basic ; transcript_id "AC239859.5--AC013734.1^ENST00000622095.1" ; transcript_name "AC239859.5-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
AC239859.5--AC013734.1 HAVANA RNA 1001 1583 . + . FI_gene_label "AC239859.5^ENSG00000277702.1" ; ID "AC239859.5--AC013734.1^ENST00000622095.1" ; Parent "AC239859.5--AC013734.1^AC239859.5^ENSG00000277702.1" ; exon_id "ENSE00003729917.1" ; exon_number 1 ; gene_id "AC239859.5--AC013734.1^AC239859.5^ENSG00000277702.1" ; gene_name "AC239859.5" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000188681.1" ; havana_transcript "OTTHUMT00000477888.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,143420073,143420207,-" ; tag basic ; transcript_id "AC239859.5--AC013734.1^ENST00000622095.1" ; transcript_name "AC239859.5-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
L1 and L2 created:
AL360093.1--SBF1 HAVANA gene 1001 3126 . + . FI_gene_label "AL360093.1^ENSG00000223842.1" ; ID "AL360093.1--SBF1^AL360093.1^ENSG00000223842.1" ; exon_id "ENSE00001747777.1" ; exon_number 1 ; gene_id "AL360093.1--SBF1^AL360093.1^ENSG00000223842.1" ; gene_name "AL360093.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000037143.1" ; havana_transcript "OTTHUMT00000090219.1" ; level 1 ; orig_coord_info "chr1,219225312,219225497,-" ; tag basic exp_conf ; transcript_id "AL360093.1--SBF1^ENST00000420237.1" ; transcript_name "AL360093.1-201" ; transcript_support_level 1 ; transcript_type lncRNA
AL360093.1--SBF1 HAVANA RNA 1001 3126 . + . FI_gene_label "AL360093.1^ENSG00000223842.1" ; ID "AL360093.1--SBF1^ENST00000420237.1" ; Parent "AL360093.1--SBF1^AL360093.1^ENSG00000223842.1" ; exon_id "ENSE00001747777.1" ; exon_number 1 ; gene_id "AL360093.1--SBF1^AL360093.1^ENSG00000223842.1" ; gene_name "AL360093.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000037143.1" ; havana_transcript "OTTHUMT00000090219.1" ; level 1 ; orig_coord_info "chr1,219225312,219225497,-" ; tag basic exp_conf ; transcript_id "AL360093.1--SBF1^ENST00000420237.1" ; transcript_name "AL360093.1-201" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
ASCC1--DMBT1L1 HAVANA gene 32329 59522 . + . FI_gene_label "DMBT1L1^ENSG00000176584.18" ; ID "ASCC1--DMBT1L1^DMBT1L1^ENSG00000176584.18" ; exon_id "ENSE00001711677.2" ; exon_number 1 ; gene_id "ASCC1--DMBT1L1^DMBT1L1^ENSG00000176584.18" ; gene_name DMBT1L1 ; gene_type transcribed_unitary_pseudogene ; havana_gene "OTTHUMG00000185790.4" ; havana_transcript "OTTHUMT00000471298.1" ; hgnc_id "HGNC:49497" ; level 2 ; orig_coord_info "chr10,122756694,122757023,+" ; transcript_id "ASCC1--DMBT1L1^ENST00000439464.6" ; transcript_name "DMBT1L1-201" ; transcript_support_level 2 ; transcript_type processed_transcript
ASCC1--DMBT1L1 HAVANA RNA 32329 59522 . + . FI_gene_label "DMBT1L1^ENSG00000176584.18" ; ID "ASCC1--DMBT1L1^ENST00000439464.6" ; Parent "ASCC1--DMBT1L1^DMBT1L1^ENSG00000176584.18" ; exon_id "ENSE00001711677.2" ; exon_number 1 ; gene_id "ASCC1--DMBT1L1^DMBT1L1^ENSG00000176584.18" ; gene_name DMBT1L1 ; gene_type transcribed_unitary_pseudogene ; havana_gene "OTTHUMG00000185790.4" ; havana_transcript "OTTHUMT00000471298.1" ; hgnc_id "HGNC:49497" ; level 2 ; orig_coord_info "chr10,122756694,122757023,+" ; transcript_id "ASCC1--DMBT1L1^ENST00000439464.6" ; transcript_name "DMBT1L1-201" ; transcript_support_level 2 ; transcript_type processed_transcript
L1 and L2 created:
CDKN2A--AC002378.1 HAVANA gene 13149 17358 . + . FI_gene_label "AC002378.1^ENSG00000225676.2" ; ID "CDKN2A--AC002378.1^AC002378.1^ENSG00000225676.2" ; exon_id "ENSE00001666971.2" ; exon_number 1 ; gene_id "CDKN2A--AC002378.1^AC002378.1^ENSG00000225676.2" ; gene_name "AC002378.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000150912.2" ; havana_transcript "OTTHUMT00000320511.2" ; level 1 ; orig_coord_info "chr22,30207048,30207195,-" ; tag basic TAGENE exp_conf ; transcript_id "CDKN2A--AC002378.1^ENST00000432360.2" ; transcript_name "AC002378.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
CDKN2A--AC002378.1 HAVANA RNA 13149 17358 . + . FI_gene_label "AC002378.1^ENSG00000225676.2" ; ID "CDKN2A--AC002378.1^ENST00000432360.2" ; Parent "CDKN2A--AC002378.1^AC002378.1^ENSG00000225676.2" ; exon_id "ENSE00001666971.2" ; exon_number 1 ; gene_id "CDKN2A--AC002378.1^AC002378.1^ENSG00000225676.2" ; gene_name "AC002378.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000150912.2" ; havana_transcript "OTTHUMT00000320511.2" ; level 1 ; orig_coord_info "chr22,30207048,30207195,-" ; tag basic TAGENE exp_conf ; transcript_id "CDKN2A--AC002378.1^ENST00000432360.2" ; transcript_name "AC002378.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
ENG--AL353780.1 HAVANA gene 17702 19159 . + . FI_gene_label "AL353780.1^ENSG00000236376.1" ; ID "ENG--AL353780.1^AL353780.1^ENSG00000236376.1" ; exon_id "ENSE00001598551.1" ; exon_number 1 ; gene_id "ENG--AL353780.1^AL353780.1^ENSG00000236376.1" ; gene_name "AL353780.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000020036.1" ; havana_transcript "OTTHUMT00000052713.1" ; level 1 ; orig_coord_info "chr9,75579669,75579806,+" ; tag basic exp_conf ; transcript_id "ENG--AL353780.1^ENST00000455583.1" ; transcript_name "AL353780.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
ENG--AL353780.1 HAVANA RNA 17702 19159 . + . FI_gene_label "AL353780.1^ENSG00000236376.1" ; ID "ENG--AL353780.1^ENST00000455583.1" ; Parent "ENG--AL353780.1^AL353780.1^ENSG00000236376.1" ; exon_id "ENSE00001598551.1" ; exon_number 1 ; gene_id "ENG--AL353780.1^AL353780.1^ENSG00000236376.1" ; gene_name "AL353780.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000020036.1" ; havana_transcript "OTTHUMT00000052713.1" ; level 1 ; orig_coord_info "chr9,75579669,75579806,+" ; tag basic exp_conf ; transcript_id "ENG--AL353780.1^ENST00000455583.1" ; transcript_name "AL353780.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
ENG--OTX2P1 HAVANA gene 17702 18055 . + . FI_gene_label "OTX2P1^ENSG00000234644.2" ; ID "ENG--OTX2P1^OTX2P1^ENSG00000234644.2" ; exon_id "ENSE00001593422.2" ; exon_number 1 ; gene_id "ENG--OTX2P1^OTX2P1^ENSG00000234644.2" ; gene_name OTX2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000020037.2" ; havana_transcript "OTTHUMT00000052714.2" ; hgnc_id "HGNC:33281" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr9,75724222,75724575,-" ; tag pseudo_consens basic ; transcript_id "ENG--OTX2P1^ENST00000450956.2" ; transcript_name "OTX2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
ENG--OTX2P1 HAVANA RNA 17702 18055 . + . FI_gene_label "OTX2P1^ENSG00000234644.2" ; ID "ENG--OTX2P1^ENST00000450956.2" ; Parent "ENG--OTX2P1^OTX2P1^ENSG00000234644.2" ; exon_id "ENSE00001593422.2" ; exon_number 1 ; gene_id "ENG--OTX2P1^OTX2P1^ENSG00000234644.2" ; gene_name OTX2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000020037.2" ; havana_transcript "OTTHUMT00000052714.2" ; hgnc_id "HGNC:33281" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr9,75724222,75724575,-" ; tag pseudo_consens basic ; transcript_id "ENG--OTX2P1^ENST00000450956.2" ; transcript_name "OTX2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
FBXO7--RNU7-167P ENSEMBL gene 19555 19616 . + . FI_gene_label "RNU7-167P^ENSG00000238584.1" ; ID "FBXO7--RNU7-167P^RNU7-167P^ENSG00000238584.1" ; exon_id "ENSE00001807732.1" ; exon_number 1 ; gene_id "FBXO7--RNU7-167P^RNU7-167P^ENSG00000238584.1" ; gene_name "RNU7-167P" ; gene_type snRNA ; hgnc_id "HGNC:45701" ; level 3 ; orig_coord_info "chr22,35249772,35249833,+" ; tag basic ; transcript_id "FBXO7--RNU7-167P^ENST00000459160.1" ; transcript_name "RNU7-167P-201" ; transcript_support_level NA ; transcript_type snRNA
FBXO7--RNU7-167P ENSEMBL RNA 19555 19616 . + . FI_gene_label "RNU7-167P^ENSG00000238584.1" ; ID "FBXO7--RNU7-167P^ENST00000459160.1" ; Parent "FBXO7--RNU7-167P^RNU7-167P^ENSG00000238584.1" ; exon_id "ENSE00001807732.1" ; exon_number 1 ; gene_id "FBXO7--RNU7-167P^RNU7-167P^ENSG00000238584.1" ; gene_name "RNU7-167P" ; gene_type snRNA ; hgnc_id "HGNC:45701" ; level 3 ; orig_coord_info "chr22,35249772,35249833,+" ; tag basic ; transcript_id "FBXO7--RNU7-167P^ENST00000459160.1" ; transcript_name "RNU7-167P-201" ; transcript_support_level NA ; transcript_type snRNA
L1 and L2 created:
GGA1--CRIP1P3 HAVANA gene 24176 24395 . + . FI_gene_label "CRIP1P3^ENSG00000227109.1" ; ID "GGA1--CRIP1P3^CRIP1P3^ENSG00000227109.1" ; exon_id "ENSE00001719463.1" ; exon_number 1 ; gene_id "GGA1--CRIP1P3^CRIP1P3^ENSG00000227109.1" ; gene_name CRIP1P3 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000035927.1" ; havana_transcript "OTTHUMT00000087499.1" ; hgnc_id "HGNC:44518" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr1,202096759,202096978,+" ; tag pseudo_consens basic ; transcript_id "GGA1--CRIP1P3^ENST00000416794.1" ; transcript_name "CRIP1P3-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
GGA1--CRIP1P3 HAVANA RNA 24176 24395 . + . FI_gene_label "CRIP1P3^ENSG00000227109.1" ; ID "GGA1--CRIP1P3^ENST00000416794.1" ; Parent "GGA1--CRIP1P3^CRIP1P3^ENSG00000227109.1" ; exon_id "ENSE00001719463.1" ; exon_number 1 ; gene_id "GGA1--CRIP1P3^CRIP1P3^ENSG00000227109.1" ; gene_name CRIP1P3 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000035927.1" ; havana_transcript "OTTHUMT00000087499.1" ; hgnc_id "HGNC:44518" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr1,202096759,202096978,+" ; tag pseudo_consens basic ; transcript_id "GGA1--CRIP1P3^ENST00000416794.1" ; transcript_name "CRIP1P3-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
GTPBP1--FAM230B HAVANA gene 23826 37525 . + . FI_gene_label "FAM230B^ENSG00000215498.9" ; ID "GTPBP1--FAM230B^FAM230B^ENSG00000215498.9" ; exon_id "ENSE00001671021.1" ; exon_number 1 ; gene_id "GTPBP1--FAM230B^FAM230B^ENSG00000215498.9" ; gene_name FAM230B ; gene_type lncRNA ; havana_gene "OTTHUMG00000150782.3" ; havana_transcript "OTTHUMT00000320062.1" ; hgnc_id "HGNC:32943" ; level 2 ; orig_coord_info "chr22,21167829,21167969,+" ; tag dotter_confirmed basic ; transcript_id "GTPBP1--FAM230B^ENST00000415376.5" ; transcript_name "FAM230B-201" ; transcript_support_level 2 ; transcript_type lncRNA
GTPBP1--FAM230B HAVANA RNA 23826 37525 . + . FI_gene_label "FAM230B^ENSG00000215498.9" ; ID "GTPBP1--FAM230B^ENST00000415376.5" ; Parent "GTPBP1--FAM230B^FAM230B^ENSG00000215498.9" ; exon_id "ENSE00001671021.1" ; exon_number 1 ; gene_id "GTPBP1--FAM230B^FAM230B^ENSG00000215498.9" ; gene_name FAM230B ; gene_type lncRNA ; havana_gene "OTTHUMG00000150782.3" ; havana_transcript "OTTHUMT00000320062.1" ; hgnc_id "HGNC:32943" ; level 2 ; orig_coord_info "chr22,21167829,21167969,+" ; tag dotter_confirmed basic ; transcript_id "GTPBP1--FAM230B^ENST00000415376.5" ; transcript_name "FAM230B-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
NAV3--AC079362.1 HAVANA gene 59116 62833 . + . FI_gene_label "AC079362.1^ENSG00000257165.5" ; ID "NAV3--AC079362.1^AC079362.1^ENSG00000257165.5" ; exon_id "ENSE00002412142.1" ; exon_number 1 ; gene_id "NAV3--AC079362.1^AC079362.1^ENSG00000257165.5" ; gene_name "AC079362.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000170011.1" ; havana_transcript "OTTHUMT00000406852.1" ; level 2 ; orig_coord_info "chr12,78540591,78540675,-" ; tag basic ; transcript_id "NAV3--AC079362.1^ENST00000546865.5" ; transcript_name "AC079362.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
NAV3--AC079362.1 HAVANA RNA 59116 62833 . + . FI_gene_label "AC079362.1^ENSG00000257165.5" ; ID "NAV3--AC079362.1^ENST00000546865.5" ; Parent "NAV3--AC079362.1^AC079362.1^ENSG00000257165.5" ; exon_id "ENSE00002412142.1" ; exon_number 1 ; gene_id "NAV3--AC079362.1^AC079362.1^ENSG00000257165.5" ; gene_name "AC079362.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000170011.1" ; havana_transcript "OTTHUMT00000406852.1" ; level 2 ; orig_coord_info "chr12,78540591,78540675,-" ; tag basic ; transcript_id "NAV3--AC079362.1^ENST00000546865.5" ; transcript_name "AC079362.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
NOX4--AP003400.1 HAVANA gene 28021 29251 . + . FI_gene_label "AP003400.1^ENSG00000255429.1" ; ID "NOX4--AP003400.1^AP003400.1^ENSG00000255429.1" ; exon_id "ENSE00003682215.1" ; exon_number 1 ; gene_id "NOX4--AP003400.1^AP003400.1^ENSG00000255429.1" ; gene_name "AP003400.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000167618.1" ; havana_transcript "OTTHUMT00000395414.1" ; level 2 ; orig_coord_info "chr11,89589440,89589611,-" ; tag basic ; transcript_id "NOX4--AP003400.1^ENST00000528319.1" ; transcript_name "AP003400.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
NOX4--AP003400.1 HAVANA RNA 28021 29251 . + . FI_gene_label "AP003400.1^ENSG00000255429.1" ; ID "NOX4--AP003400.1^ENST00000528319.1" ; Parent "NOX4--AP003400.1^AP003400.1^ENSG00000255429.1" ; exon_id "ENSE00003682215.1" ; exon_number 1 ; gene_id "NOX4--AP003400.1^AP003400.1^ENSG00000255429.1" ; gene_name "AP003400.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000167618.1" ; havana_transcript "OTTHUMT00000395414.1" ; level 2 ; orig_coord_info "chr11,89589440,89589611,-" ; tag basic ; transcript_id "NOX4--AP003400.1^ENST00000528319.1" ; transcript_name "AP003400.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
TLK2P1--AC110079.1 HAVANA RNA 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^ENST00000530992.1" ; Parent "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
TLK2P1--AC110079.1 HAVANA RNA 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^ENST00000567913.2" ; Parent "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
TXNRD2--AC021355.1 HAVANA gene 29547 32510 . + . FI_gene_label "AC021355.1^ENSG00000254334.2" ; ID "TXNRD2--AC021355.1^AC021355.1^ENSG00000254334.2" ; exon_id "ENSE00002089798.2" ; exon_number 1 ; gene_id "TXNRD2--AC021355.1^AC021355.1^ENSG00000254334.2" ; gene_name "AC021355.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000163893.4" ; havana_transcript "OTTHUMT00000376243.3" ; level 2 ; orig_coord_info "chr8,21298161,21298407,+" ; tag basic TAGENE ; transcript_id "TXNRD2--AC021355.1^ENST00000519996.2" ; transcript_name "AC021355.1-202" ; transcript_support_level 2 ; transcript_type lncRNA
TXNRD2--AC021355.1 HAVANA RNA 29547 32510 . + . FI_gene_label "AC021355.1^ENSG00000254334.2" ; ID "TXNRD2--AC021355.1^ENST00000519996.2" ; Parent "TXNRD2--AC021355.1^AC021355.1^ENSG00000254334.2" ; exon_id "ENSE00002089798.2" ; exon_number 1 ; gene_id "TXNRD2--AC021355.1^AC021355.1^ENSG00000254334.2" ; gene_name "AC021355.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000163893.4" ; havana_transcript "OTTHUMT00000376243.3" ; level 2 ; orig_coord_info "chr8,21298161,21298407,+" ; tag basic TAGENE ; transcript_id "TXNRD2--AC021355.1^ENST00000519996.2" ; transcript_name "AC021355.1-202" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
ZMIZ1--AC012560.1 HAVANA gene 37507 45803 . + . FI_gene_label "AC012560.1^ENSG00000282863.1" ; ID "ZMIZ1--AC012560.1^AC012560.1^ENSG00000282863.1" ; exon_id "ENSE00003755256.1" ; exon_number 1 ; gene_id "ZMIZ1--AC012560.1^AC012560.1^ENSG00000282863.1" ; gene_name "AC012560.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000018555.5" ; havana_transcript "OTTHUMT00000363547.2" ; level 2 ; orig_coord_info "chr10,78238255,78238304,+" ; tag basic ; transcript_id "ZMIZ1--AC012560.1^ENST00000421324.4" ; transcript_name "AC012560.1-202" ; transcript_support_level 1 ; transcript_type lncRNA
ZMIZ1--AC012560.1 HAVANA RNA 37507 45803 . + . FI_gene_label "AC012560.1^ENSG00000282863.1" ; ID "ZMIZ1--AC012560.1^ENST00000421324.4" ; Parent "ZMIZ1--AC012560.1^AC012560.1^ENSG00000282863.1" ; exon_id "ENSE00003755256.1" ; exon_number 1 ; gene_id "ZMIZ1--AC012560.1^AC012560.1^ENSG00000282863.1" ; gene_name "AC012560.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000018555.5" ; havana_transcript "OTTHUMT00000363547.2" ; level 2 ; orig_coord_info "chr10,78238255,78238304,+" ; tag basic ; transcript_id "ZMIZ1--AC012560.1^ENST00000421324.4" ; transcript_name "AC012560.1-202" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
ZMIZ1--LINC00595 HAVANA gene 47474 50342 . + . FI_gene_label "LINC00595^ENSG00000230417.12" ; ID "ZMIZ1--LINC00595^LINC00595^ENSG00000230417.12" ; exon_id "ENSE00001633862.1" ; exon_number 1 ; gene_id "ZMIZ1--LINC00595^LINC00595^ENSG00000230417.12" ; gene_name LINC00595 ; gene_type lncRNA ; havana_gene "OTTHUMG00000018552.12" ; havana_transcript "OTTHUMT00000048928.2" ; hgnc_id "HGNC:31430" ; level 2 ; orig_coord_info "chr10,78267328,78267486,+" ; transcript_id "ZMIZ1--LINC00595^ENST00000415959.1" ; transcript_name "LINC00595-201" ; transcript_support_level 3 ; transcript_type lncRNA
ZMIZ1--LINC00595 HAVANA RNA 47474 50342 . + . FI_gene_label "LINC00595^ENSG00000230417.12" ; ID "ZMIZ1--LINC00595^ENST00000415959.1" ; Parent "ZMIZ1--LINC00595^LINC00595^ENSG00000230417.12" ; exon_id "ENSE00001633862.1" ; exon_number 1 ; gene_id "ZMIZ1--LINC00595^LINC00595^ENSG00000230417.12" ; gene_name LINC00595 ; gene_type lncRNA ; havana_gene "OTTHUMG00000018552.12" ; havana_transcript "OTTHUMT00000048928.2" ; hgnc_id "HGNC:31430" ; level 2 ; orig_coord_info "chr10,78267328,78267486,+" ; transcript_id "ZMIZ1--LINC00595^ENST00000415959.1" ; transcript_name "LINC00595-201" ; transcript_support_level 3 ; transcript_type lncRNA
532 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 ------------------------------
994 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 45 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