Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f3/f6722845f22470b121d8607c146df8/fi_workdir/aih-tih-sc-8c7069-R1_A23YTGFLT4_1.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d1/0a6a66879aa2d15f85b26900c75822/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d1/0a6a66879aa2d15f85b26900c75822/.command.run
==> STAGING COMPLETE (3 inputs)
Using standard /usr/local/lib/perl5/site_perl/auto/share/dist/AGAT/agat_config.yaml file
------------------------------------------------------------------------------
| Another GFF Analysis Toolkit (AGAT) - Version: v1.2.0 |
| https://github.com/NBISweden/AGAT |
| National Bioinformatics Infrastructure Sweden (NBIS) - www.nbis.se |
------------------------------------------------------------------------------
------ Start parsing ------
-------------------------- parse options and metadata --------------------------
=> Accessing the feature_levels YAML file
Using standard /usr/local/lib/perl5/site_perl/auto/share/dist/AGAT/feature_levels.yaml file
=> Attribute used to group features when no Parent/ID relationship exists (i.e common tag):
* locus_tag
* gene_id
=> merge_loci option deactivated
=> Machine information:
This script is being run by perl v5.32.1
Bioperl location being used: /usr/local/lib/perl5/site_perl/Bio/
Operating system being used: linux
=> Accessing Ontology
No ontology accessible from the gff file header!
We use the SOFA ontology distributed with AGAT:
/usr/local/lib/perl5/site_perl/auto/share/dist/AGAT/so.obo
Read ontology /usr/local/lib/perl5/site_perl/auto/share/dist/AGAT/so.obo:
4 root terms, and 2596 total terms, and 1516 leaf terms
Filtering ontology:
We found 1861 terms that are sequence_feature or is_a child of it.
--------------------------------- parsing file ---------------------------------
=> Number of line in file: 10962
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 10962
=> Number of feature type (3rd column): 2
* Level1: 0 =>
* level2: 0 =>
* level3: 2 => CDS exon
* unknown: 0 =>
=>Check because only level3 features:
* Number of feature with Parent attribute:0
* Number of feature with a common attribute:10962
=> Some common attributes and some Parent attributes missing.
/!\ For features where both are missing A single Level2 features (e.g. mRNA) and a single level1 (e.g. gene) will be created by AGAT, and all level3 feautres (e,g, CDS,exon) will be attached to them. This is probably not what you want...
see B. 2.2 and 3. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
/!\ For features where the common attribute or the parent attribute is missing, it would be fine as long as you do not expect isoforms in your annotation (Eukaryote). see B. 4. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
!! You might try to fix the issue by choosing a common tag attribute to use in order to group the features correctly (parameter --ct in agat_convert_sp_gxf2gxf.pl).
=> Version of the Bioperl GFF parser selected by AGAT: 2
------ End parsing (done in 3 second) ------
------ Start checks ------
---------------------------- Check1: feature types -----------------------------
----------------------------------- ontology -----------------------------------
All feature types in agreement with the Ontology.
------------------------------------- agat -------------------------------------
AGAT can deal with all the encountered feature types (3rd column)
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check2: duplicates ------------------------------
None found
------------------------------ done in 0 seconds -------------------------------
-------------------------- Check3: sequential bucket ---------------------------
Nothing to check as sequential bucket!
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check4: l2 linked to l3 ----------------------------
L1 and L2 created:
AC004596.1--HROB HAVANA gene 5645 16068 . + . FI_gene_label "HROB^ENSG00000125319.15" ; ID "AC004596.1--HROB^HROB^ENSG00000125319.15" ; ccdsid "CCDS82136.1" ; exon_id "ENSE00002921986.1" ; exon_number 1 ; gene_id "AC004596.1--HROB^HROB^ENSG00000125319.15" ; gene_name HROB ; gene_type protein_coding ; havana_gene "OTTHUMG00000181808.1" ; havana_transcript "OTTHUMT00000457699.1" ; hgnc_id "HGNC:28460" ; level 1 ; orig_coord_info "chr17,44142143,44142145,+" ; protein_id "ENSP00000245382.5" ; tag basic appris_alternative_2 exp_conf CCDS ; transcript_id "AC004596.1--HROB^ENST00000245382.6" ; transcript_name "HROB-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC004596.1--HROB HAVANA mRNA 5645 16068 . + . FI_gene_label "HROB^ENSG00000125319.15" ; ID "AC004596.1--HROB^ENST00000245382.6" ; Parent "AC004596.1--HROB^HROB^ENSG00000125319.15" ; ccdsid "CCDS82136.1" ; exon_id "ENSE00002921986.1" ; exon_number 1 ; gene_id "AC004596.1--HROB^HROB^ENSG00000125319.15" ; gene_name HROB ; gene_type protein_coding ; havana_gene "OTTHUMG00000181808.1" ; havana_transcript "OTTHUMT00000457699.1" ; hgnc_id "HGNC:28460" ; level 1 ; orig_coord_info "chr17,44142143,44142145,+" ; protein_id "ENSP00000245382.5" ; tag basic appris_alternative_2 exp_conf CCDS ; transcript_id "AC004596.1--HROB^ENST00000245382.6" ; transcript_name "HROB-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
BAG6--CALM2 HAVANA gene 1001 13583 . + . FI_gene_label "BAG6^ENSG00000204463.13" ; ID "BAG6--CALM2^BAG6^ENSG00000204463.13" ; ccdsid "CCDS4709.1" ; exon_id "ENSE00003367273.1" ; exon_number 2 ; gene_id "BAG6--CALM2^BAG6^ENSG00000204463.13" ; gene_name BAG6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031171.11" ; havana_transcript "OTTHUMT00000076322.3" ; hgnc_id "HGNC:13919" ; level 2 ; orig_coord_info "chr6,31651656,31651763,-" ; protein_id "ENSP00000211379.5" ; tag basic appris_principal_2 CCDS ; transcript_id "BAG6--CALM2^ENST00000211379.9" ; transcript_name "BAG6-234" ; transcript_support_level 1 ; transcript_type protein_coding
BAG6--CALM2 HAVANA mRNA 1001 13583 . + . FI_gene_label "BAG6^ENSG00000204463.13" ; ID "BAG6--CALM2^ENST00000211379.9" ; Parent "BAG6--CALM2^BAG6^ENSG00000204463.13" ; ccdsid "CCDS4709.1" ; exon_id "ENSE00003367273.1" ; exon_number 2 ; gene_id "BAG6--CALM2^BAG6^ENSG00000204463.13" ; gene_name BAG6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031171.11" ; havana_transcript "OTTHUMT00000076322.3" ; hgnc_id "HGNC:13919" ; level 2 ; orig_coord_info "chr6,31651656,31651763,-" ; protein_id "ENSP00000211379.5" ; tag basic appris_principal_2 CCDS ; transcript_id "BAG6--CALM2^ENST00000211379.9" ; transcript_name "BAG6-234" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
BAG6--CALM2 HAVANA gene 16994 29093 . + . FI_gene_label "CALM2^ENSG00000143933.19" ; ID "BAG6--CALM2^CALM2^ENSG00000143933.19" ; ccdsid "CCDS1832.1" ; exon_id "ENSE00003845248.1" ; exon_number 1 ; gene_id "BAG6--CALM2^CALM2^ENSG00000143933.19" ; gene_name CALM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128850.11" ; havana_transcript "OTTHUMT00000250789.4" ; hgnc_id "HGNC:1445" ; level 2 ; orig_coord_info "chr2,47176441,47176443,-" ; protein_id "ENSP00000272298.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "BAG6--CALM2^ENST00000272298.12" ; transcript_name "CALM2-201" ; transcript_support_level 1 ; transcript_type protein_coding
BAG6--CALM2 HAVANA mRNA 16994 29093 . + . FI_gene_label "CALM2^ENSG00000143933.19" ; ID "BAG6--CALM2^ENST00000272298.12" ; Parent "BAG6--CALM2^CALM2^ENSG00000143933.19" ; ccdsid "CCDS1832.1" ; exon_id "ENSE00003845248.1" ; exon_number 1 ; gene_id "BAG6--CALM2^CALM2^ENSG00000143933.19" ; gene_name CALM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128850.11" ; havana_transcript "OTTHUMT00000250789.4" ; hgnc_id "HGNC:1445" ; level 2 ; orig_coord_info "chr2,47176441,47176443,-" ; protein_id "ENSP00000272298.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "BAG6--CALM2^ENST00000272298.12" ; transcript_name "CALM2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
BAG6--STPG4 HAVANA gene 1001 13583 . + . FI_gene_label "BAG6^ENSG00000204463.13" ; ID "BAG6--STPG4^BAG6^ENSG00000204463.13" ; ccdsid "CCDS4709.1" ; exon_id "ENSE00003367273.1" ; exon_number 2 ; gene_id "BAG6--STPG4^BAG6^ENSG00000204463.13" ; gene_name BAG6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031171.11" ; havana_transcript "OTTHUMT00000076322.3" ; hgnc_id "HGNC:13919" ; level 2 ; orig_coord_info "chr6,31651656,31651763,-" ; protein_id "ENSP00000211379.5" ; tag basic appris_principal_2 CCDS ; transcript_id "BAG6--STPG4^ENST00000211379.9" ; transcript_name "BAG6-234" ; transcript_support_level 1 ; transcript_type protein_coding
BAG6--STPG4 HAVANA mRNA 1001 13583 . + . FI_gene_label "BAG6^ENSG00000204463.13" ; ID "BAG6--STPG4^ENST00000211379.9" ; Parent "BAG6--STPG4^BAG6^ENSG00000204463.13" ; ccdsid "CCDS4709.1" ; exon_id "ENSE00003367273.1" ; exon_number 2 ; gene_id "BAG6--STPG4^BAG6^ENSG00000204463.13" ; gene_name BAG6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031171.11" ; havana_transcript "OTTHUMT00000076322.3" ; hgnc_id "HGNC:13919" ; level 2 ; orig_coord_info "chr6,31651656,31651763,-" ; protein_id "ENSP00000211379.5" ; tag basic appris_principal_2 CCDS ; transcript_id "BAG6--STPG4^ENST00000211379.9" ; transcript_name "BAG6-234" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
BAG6--STPG4 HAVANA gene 16605 21425 . + . FI_gene_label "STPG4^ENSG00000239605.11" ; ID "BAG6--STPG4^STPG4^ENSG00000239605.11" ; ccdsid "CCDS1831.1" ; exon_id "ENSE00001237735.2" ; exon_number 1 ; gene_id "BAG6--STPG4^STPG4^ENSG00000239605.11" ; gene_name STPG4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128851.4" ; havana_transcript "OTTHUMT00000250790.1" ; hgnc_id "HGNC:26850" ; level 2 ; orig_coord_info "chr2,47155171,47155251,-" ; protein_id "ENSP00000294947.2" ; tag basic CCDS ; transcript_id "BAG6--STPG4^ENST00000294947.2" ; transcript_name "STPG4-201" ; transcript_support_level 1 ; transcript_type protein_coding
BAG6--STPG4 HAVANA mRNA 16605 21425 . + . FI_gene_label "STPG4^ENSG00000239605.11" ; ID "BAG6--STPG4^ENST00000294947.2" ; Parent "BAG6--STPG4^STPG4^ENSG00000239605.11" ; ccdsid "CCDS1831.1" ; exon_id "ENSE00001237735.2" ; exon_number 1 ; gene_id "BAG6--STPG4^STPG4^ENSG00000239605.11" ; gene_name STPG4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128851.4" ; havana_transcript "OTTHUMT00000250790.1" ; hgnc_id "HGNC:26850" ; level 2 ; orig_coord_info "chr2,47155171,47155251,-" ; protein_id "ENSP00000294947.2" ; tag basic CCDS ; transcript_id "BAG6--STPG4^ENST00000294947.2" ; transcript_name "STPG4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CDYL--FARS2 HAVANA gene 23032 32412 . + . FI_gene_label "FARS2^ENSG00000145982.13" ; ID "CDYL--FARS2^FARS2^ENSG00000145982.13" ; ccdsid "CCDS4494.1" ; exon_id "ENSE00001125682.3" ; exon_number 2 ; gene_id "CDYL--FARS2^FARS2^ENSG00000145982.13" ; gene_name FARS2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014178.6" ; havana_transcript "OTTHUMT00000039746.2" ; hgnc_id "HGNC:21062" ; level 2 ; orig_coord_info "chr6,5368571,5369182,+" ; protein_id "ENSP00000274680.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CDYL--FARS2^ENST00000274680.9" ; transcript_name "FARS2-201" ; transcript_support_level 1 ; transcript_type protein_coding
CDYL--FARS2 HAVANA mRNA 23032 32412 . + . FI_gene_label "FARS2^ENSG00000145982.13" ; ID "CDYL--FARS2^ENST00000274680.9" ; Parent "CDYL--FARS2^FARS2^ENSG00000145982.13" ; ccdsid "CCDS4494.1" ; exon_id "ENSE00001125682.3" ; exon_number 2 ; gene_id "CDYL--FARS2^FARS2^ENSG00000145982.13" ; gene_name FARS2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014178.6" ; havana_transcript "OTTHUMT00000039746.2" ; hgnc_id "HGNC:21062" ; level 2 ; orig_coord_info "chr6,5368571,5369182,+" ; protein_id "ENSP00000274680.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CDYL--FARS2^ENST00000274680.9" ; transcript_name "FARS2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CDYL--FARS2 HAVANA gene 1001 19558 . + . FI_gene_label "CDYL^ENSG00000153046.18" ; ID "CDYL--FARS2^CDYL^ENSG00000153046.18" ; exon_id "ENSE00003363007.1" ; exon_number 2 ; gene_id "CDYL--FARS2^CDYL^ENSG00000153046.18" ; gene_name CDYL ; gene_type protein_coding ; havana_gene "OTTHUMG00000014170.7" ; havana_transcript "OTTHUMT00000039736.1" ; hgnc_id "HGNC:1811" ; level 2 ; orig_coord_info "chr6,4715779,4715881,+" ; protein_id "ENSP00000330512.5" ; tag basic ; transcript_id "CDYL--FARS2^ENST00000328908.9" ; transcript_name "CDYL-201" ; transcript_support_level 1 ; transcript_type protein_coding
CDYL--FARS2 HAVANA mRNA 1001 19558 . + . FI_gene_label "CDYL^ENSG00000153046.18" ; ID "CDYL--FARS2^ENST00000328908.9" ; Parent "CDYL--FARS2^CDYL^ENSG00000153046.18" ; exon_id "ENSE00003363007.1" ; exon_number 2 ; gene_id "CDYL--FARS2^CDYL^ENSG00000153046.18" ; gene_name CDYL ; gene_type protein_coding ; havana_gene "OTTHUMG00000014170.7" ; havana_transcript "OTTHUMT00000039736.1" ; hgnc_id "HGNC:1811" ; level 2 ; orig_coord_info "chr6,4715779,4715881,+" ; protein_id "ENSP00000330512.5" ; tag basic ; transcript_id "CDYL--FARS2^ENST00000328908.9" ; transcript_name "CDYL-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CLPTM1L--DNAH5 HAVANA gene 23085 108967 . + . FI_gene_label "DNAH5^ENSG00000039139.10" ; ID "CLPTM1L--DNAH5^DNAH5^ENSG00000039139.10" ; ccdsid "CCDS3882.1" ; exon_id "ENSE00001380907.3" ; exon_number 1 ; gene_id "CLPTM1L--DNAH5^DNAH5^ENSG00000039139.10" ; gene_name DNAH5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000090533.4" ; havana_transcript "OTTHUMT00000207057.2" ; hgnc_id "HGNC:2950" ; level 2 ; orig_coord_info "chr5,13944382,13944438,-" ; protein_id "ENSP00000265104.4" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "CLPTM1L--DNAH5^ENST00000265104.5" ; transcript_name "DNAH5-201" ; transcript_support_level 1 ; transcript_type protein_coding
CLPTM1L--DNAH5 HAVANA mRNA 23085 108967 . + . FI_gene_label "DNAH5^ENSG00000039139.10" ; ID "CLPTM1L--DNAH5^ENST00000265104.5" ; Parent "CLPTM1L--DNAH5^DNAH5^ENSG00000039139.10" ; ccdsid "CCDS3882.1" ; exon_id "ENSE00001380907.3" ; exon_number 1 ; gene_id "CLPTM1L--DNAH5^DNAH5^ENSG00000039139.10" ; gene_name DNAH5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000090533.4" ; havana_transcript "OTTHUMT00000207057.2" ; hgnc_id "HGNC:2950" ; level 2 ; orig_coord_info "chr5,13944382,13944438,-" ; protein_id "ENSP00000265104.4" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "CLPTM1L--DNAH5^ENST00000265104.5" ; transcript_name "DNAH5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CLPTM1L--DNAH5 HAVANA gene 1001 18913 . + . FI_gene_label "CLPTM1L^ENSG00000049656.14" ; ID "CLPTM1L--DNAH5^CLPTM1L^ENSG00000049656.14" ; ccdsid "CCDS3862.1" ; exon_id "ENSE00001830316.1" ; exon_number 1 ; gene_id "CLPTM1L--DNAH5^CLPTM1L^ENSG00000049656.14" ; gene_name CLPTM1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000131015.5" ; havana_transcript "OTTHUMT00000253649.3" ; hgnc_id "HGNC:24308" ; level 2 ; orig_coord_info "chr5,1344680,1344841,-" ; protein_id "ENSP00000313854.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CLPTM1L--DNAH5^ENST00000320895.10" ; transcript_name "CLPTM1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
CLPTM1L--DNAH5 HAVANA mRNA 1001 18913 . + . FI_gene_label "CLPTM1L^ENSG00000049656.14" ; ID "CLPTM1L--DNAH5^ENST00000320895.10" ; Parent "CLPTM1L--DNAH5^CLPTM1L^ENSG00000049656.14" ; ccdsid "CCDS3862.1" ; exon_id "ENSE00001830316.1" ; exon_number 1 ; gene_id "CLPTM1L--DNAH5^CLPTM1L^ENSG00000049656.14" ; gene_name CLPTM1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000131015.5" ; havana_transcript "OTTHUMT00000253649.3" ; hgnc_id "HGNC:24308" ; level 2 ; orig_coord_info "chr5,1344680,1344841,-" ; protein_id "ENSP00000313854.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CLPTM1L--DNAH5^ENST00000320895.10" ; transcript_name "CLPTM1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COBLL1--AC079248.1 HAVANA gene 3021 34428 . + . FI_gene_label "COBLL1^ENSG00000082438.18" ; ID "COBLL1--AC079248.1^COBLL1^ENSG00000082438.18" ; ccdsid "CCDS2223.2" ; exon_id "ENSE00001903629.1" ; exon_number 1 ; gene_id "COBLL1--AC079248.1^COBLL1^ENSG00000082438.18" ; gene_name COBLL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000074019.11" ; havana_transcript "OTTHUMT00000157055.2" ; hgnc_id "HGNC:23571" ; level 2 ; orig_coord_info "chr2,164841156,164841196,-" ; protein_id "ENSP00000341360.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "COBLL1--AC079248.1^ENST00000342193.8" ; transcript_name "COBLL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
COBLL1--AC079248.1 HAVANA mRNA 3021 34428 . + . FI_gene_label "COBLL1^ENSG00000082438.18" ; ID "COBLL1--AC079248.1^ENST00000342193.8" ; Parent "COBLL1--AC079248.1^COBLL1^ENSG00000082438.18" ; ccdsid "CCDS2223.2" ; exon_id "ENSE00001903629.1" ; exon_number 1 ; gene_id "COBLL1--AC079248.1^COBLL1^ENSG00000082438.18" ; gene_name COBLL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000074019.11" ; havana_transcript "OTTHUMT00000157055.2" ; hgnc_id "HGNC:23571" ; level 2 ; orig_coord_info "chr2,164841156,164841196,-" ; protein_id "ENSP00000341360.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "COBLL1--AC079248.1^ENST00000342193.8" ; transcript_name "COBLL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COBLL1--RNU7-2P HAVANA gene 3021 34428 . + . FI_gene_label "COBLL1^ENSG00000082438.18" ; ID "COBLL1--RNU7-2P^COBLL1^ENSG00000082438.18" ; ccdsid "CCDS2223.2" ; exon_id "ENSE00001903629.1" ; exon_number 1 ; gene_id "COBLL1--RNU7-2P^COBLL1^ENSG00000082438.18" ; gene_name COBLL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000074019.11" ; havana_transcript "OTTHUMT00000157055.2" ; hgnc_id "HGNC:23571" ; level 2 ; orig_coord_info "chr2,164841156,164841196,-" ; protein_id "ENSP00000341360.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "COBLL1--RNU7-2P^ENST00000342193.8" ; transcript_name "COBLL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
COBLL1--RNU7-2P HAVANA mRNA 3021 34428 . + . FI_gene_label "COBLL1^ENSG00000082438.18" ; ID "COBLL1--RNU7-2P^ENST00000342193.8" ; Parent "COBLL1--RNU7-2P^COBLL1^ENSG00000082438.18" ; ccdsid "CCDS2223.2" ; exon_id "ENSE00001903629.1" ; exon_number 1 ; gene_id "COBLL1--RNU7-2P^COBLL1^ENSG00000082438.18" ; gene_name COBLL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000074019.11" ; havana_transcript "OTTHUMT00000157055.2" ; hgnc_id "HGNC:23571" ; level 2 ; orig_coord_info "chr2,164841156,164841196,-" ; protein_id "ENSP00000341360.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "COBLL1--RNU7-2P^ENST00000342193.8" ; transcript_name "COBLL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
DIAPH3--RNU7-88P HAVANA gene 1163 31013 . + . FI_gene_label "DIAPH3^ENSG00000139734.19" ; ID "DIAPH3--RNU7-88P^DIAPH3^ENSG00000139734.19" ; ccdsid "CCDS58297.1" ; exon_id "ENSE00001251532.6" ; exon_number 1 ; gene_id "DIAPH3--RNU7-88P^DIAPH3^ENSG00000139734.19" ; gene_name DIAPH3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017004.7" ; havana_transcript "OTTHUMT00000280483.1" ; hgnc_id "HGNC:15480" ; level 2 ; orig_coord_info "chr13,60163587,60163766,-" ; protein_id "ENSP00000267215.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "DIAPH3--RNU7-88P^ENST00000267215.8" ; transcript_name "DIAPH3-201" ; transcript_support_level 1 ; transcript_type protein_coding
DIAPH3--RNU7-88P HAVANA mRNA 1163 31013 . + . FI_gene_label "DIAPH3^ENSG00000139734.19" ; ID "DIAPH3--RNU7-88P^ENST00000267215.8" ; Parent "DIAPH3--RNU7-88P^DIAPH3^ENSG00000139734.19" ; ccdsid "CCDS58297.1" ; exon_id "ENSE00001251532.6" ; exon_number 1 ; gene_id "DIAPH3--RNU7-88P^DIAPH3^ENSG00000139734.19" ; gene_name DIAPH3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017004.7" ; havana_transcript "OTTHUMT00000280483.1" ; hgnc_id "HGNC:15480" ; level 2 ; orig_coord_info "chr13,60163587,60163766,-" ; protein_id "ENSP00000267215.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "DIAPH3--RNU7-88P^ENST00000267215.8" ; transcript_name "DIAPH3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ERAP1--AC104123.1 HAVANA gene 1001 25438 . + . FI_gene_label "ERAP1^ENSG00000164307.13" ; ID "ERAP1--AC104123.1^ERAP1^ENSG00000164307.13" ; ccdsid "CCDS4085.1" ; exon_id "ENSE00001159910.1" ; exon_number 2 ; gene_id "ERAP1--AC104123.1^ERAP1^ENSG00000164307.13" ; gene_name ERAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128721.6" ; havana_transcript "OTTHUMT00000250626.2" ; hgnc_id "HGNC:18173" ; level 2 ; orig_coord_info "chr5,96803403,96803926,-" ; protein_id "ENSP00000296754.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ERAP1--AC104123.1^ENST00000296754.7" ; transcript_name "ERAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
ERAP1--AC104123.1 HAVANA mRNA 1001 25438 . + . FI_gene_label "ERAP1^ENSG00000164307.13" ; ID "ERAP1--AC104123.1^ENST00000296754.7" ; Parent "ERAP1--AC104123.1^ERAP1^ENSG00000164307.13" ; ccdsid "CCDS4085.1" ; exon_id "ENSE00001159910.1" ; exon_number 2 ; gene_id "ERAP1--AC104123.1^ERAP1^ENSG00000164307.13" ; gene_name ERAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128721.6" ; havana_transcript "OTTHUMT00000250626.2" ; hgnc_id "HGNC:18173" ; level 2 ; orig_coord_info "chr5,96803403,96803926,-" ; protein_id "ENSP00000296754.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ERAP1--AC104123.1^ENST00000296754.7" ; transcript_name "ERAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ERAP1--MIR583HG HAVANA gene 1001 25438 . + . FI_gene_label "ERAP1^ENSG00000164307.13" ; ID "ERAP1--MIR583HG^ERAP1^ENSG00000164307.13" ; ccdsid "CCDS4085.1" ; exon_id "ENSE00001159910.1" ; exon_number 2 ; gene_id "ERAP1--MIR583HG^ERAP1^ENSG00000164307.13" ; gene_name ERAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128721.6" ; havana_transcript "OTTHUMT00000250626.2" ; hgnc_id "HGNC:18173" ; level 2 ; orig_coord_info "chr5,96803403,96803926,-" ; protein_id "ENSP00000296754.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ERAP1--MIR583HG^ENST00000296754.7" ; transcript_name "ERAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
ERAP1--MIR583HG HAVANA mRNA 1001 25438 . + . FI_gene_label "ERAP1^ENSG00000164307.13" ; ID "ERAP1--MIR583HG^ENST00000296754.7" ; Parent "ERAP1--MIR583HG^ERAP1^ENSG00000164307.13" ; ccdsid "CCDS4085.1" ; exon_id "ENSE00001159910.1" ; exon_number 2 ; gene_id "ERAP1--MIR583HG^ERAP1^ENSG00000164307.13" ; gene_name ERAP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128721.6" ; havana_transcript "OTTHUMT00000250626.2" ; hgnc_id "HGNC:18173" ; level 2 ; orig_coord_info "chr5,96803403,96803926,-" ; protein_id "ENSP00000296754.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "ERAP1--MIR583HG^ENST00000296754.7" ; transcript_name "ERAP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HSF2--PPP4R1 HAVANA gene 16705 40710 . + . FI_gene_label "PPP4R1^ENSG00000154845.16" ; ID "HSF2--PPP4R1^PPP4R1^ENSG00000154845.16" ; exon_id "ENSE00002239833.1" ; exon_number 1 ; gene_id "HSF2--PPP4R1^PPP4R1^ENSG00000154845.16" ; gene_name PPP4R1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137466.4" ; havana_transcript "OTTHUMT00000443214.1" ; hgnc_id "HGNC:9320" ; level 2 ; orig_coord_info "chr18,9614478,9614484,-" ; protein_id "ENSP00000285124.8" ; transcript_id "HSF2--PPP4R1^ENST00000285124.12" ; transcript_name "PPP4R1-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
HSF2--PPP4R1 HAVANA mRNA 16705 40710 . + . FI_gene_label "PPP4R1^ENSG00000154845.16" ; ID "HSF2--PPP4R1^ENST00000285124.12" ; Parent "HSF2--PPP4R1^PPP4R1^ENSG00000154845.16" ; exon_id "ENSE00002239833.1" ; exon_number 1 ; gene_id "HSF2--PPP4R1^PPP4R1^ENSG00000154845.16" ; gene_name PPP4R1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137466.4" ; havana_transcript "OTTHUMT00000443214.1" ; hgnc_id "HGNC:9320" ; level 2 ; orig_coord_info "chr18,9614478,9614484,-" ; protein_id "ENSP00000285124.8" ; transcript_id "HSF2--PPP4R1^ENST00000285124.12" ; transcript_name "PPP4R1-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
HSF2--PPP4R1 HAVANA gene 1102 12969 . + . FI_gene_label "HSF2^ENSG00000025156.13" ; ID "HSF2--PPP4R1^HSF2^ENSG00000025156.13" ; ccdsid "CCDS5124.1" ; exon_id "ENSE00001907343.2" ; exon_number 1 ; gene_id "HSF2--PPP4R1^HSF2^ENSG00000025156.13" ; gene_name HSF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016216.4" ; havana_transcript "OTTHUMT00000043520.2" ; hgnc_id "HGNC:5225" ; level 2 ; orig_coord_info "chr6,122399738,122399830,+" ; protein_id "ENSP00000357440.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HSF2--PPP4R1^ENST00000368455.9" ; transcript_name "HSF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
HSF2--PPP4R1 HAVANA mRNA 1102 12969 . + . FI_gene_label "HSF2^ENSG00000025156.13" ; ID "HSF2--PPP4R1^ENST00000368455.9" ; Parent "HSF2--PPP4R1^HSF2^ENSG00000025156.13" ; ccdsid "CCDS5124.1" ; exon_id "ENSE00001907343.2" ; exon_number 1 ; gene_id "HSF2--PPP4R1^HSF2^ENSG00000025156.13" ; gene_name HSF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016216.4" ; havana_transcript "OTTHUMT00000043520.2" ; hgnc_id "HGNC:5225" ; level 2 ; orig_coord_info "chr6,122399738,122399830,+" ; protein_id "ENSP00000357440.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HSF2--PPP4R1^ENST00000368455.9" ; transcript_name "HSF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
JPT2--CRAMP1 HAVANA gene 1024 11573 . + . FI_gene_label "JPT2^ENSG00000206053.13" ; ID "JPT2--CRAMP1^JPT2^ENSG00000206053.13" ; ccdsid "CCDS10441.1" ; exon_id "ENSE00002580891.1" ; exon_number 1 ; gene_id "JPT2--CRAMP1^JPT2^ENSG00000206053.13" ; gene_name JPT2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000047859.5" ; havana_transcript "OTTHUMT00000109086.3" ; hgnc_id "HGNC:14137" ; level 2 ; orig_coord_info "chr16,1678313,1678356,+" ; protein_id "ENSP00000248098.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "JPT2--CRAMP1^ENST00000248098.8" ; transcript_name "JPT2-201" ; transcript_support_level 1 ; transcript_type protein_coding
JPT2--CRAMP1 HAVANA mRNA 1024 11573 . + . FI_gene_label "JPT2^ENSG00000206053.13" ; ID "JPT2--CRAMP1^ENST00000248098.8" ; Parent "JPT2--CRAMP1^JPT2^ENSG00000206053.13" ; ccdsid "CCDS10441.1" ; exon_id "ENSE00002580891.1" ; exon_number 1 ; gene_id "JPT2--CRAMP1^JPT2^ENSG00000206053.13" ; gene_name JPT2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000047859.5" ; havana_transcript "OTTHUMT00000109086.3" ; hgnc_id "HGNC:14137" ; level 2 ; orig_coord_info "chr16,1678313,1678356,+" ; protein_id "ENSP00000248098.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "JPT2--CRAMP1^ENST00000248098.8" ; transcript_name "JPT2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
JPT2--CRAMP1 ENSEMBL gene 16090 39381 . + . FI_gene_label "CRAMP1^ENSG00000007545.16" ; ID "JPT2--CRAMP1^CRAMP1^ENSG00000007545.16" ; ccdsid "CCDS10440.2" ; exon_id "ENSE00001784428.1" ; exon_number 1 ; gene_id "JPT2--CRAMP1^CRAMP1^ENSG00000007545.16" ; gene_name CRAMP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000074087.8" ; hgnc_id "HGNC:14122" ; level 3 ; orig_coord_info "chr16,1614640,1614985,+" ; protein_id "ENSP00000293925.5" ; tag basic appris_principal_1 CCDS ; transcript_id "JPT2--CRAMP1^ENST00000293925.9" ; transcript_name "CRAMP1-201" ; transcript_support_level 5 ; transcript_type protein_coding
JPT2--CRAMP1 ENSEMBL mRNA 16090 39381 . + . FI_gene_label "CRAMP1^ENSG00000007545.16" ; ID "JPT2--CRAMP1^ENST00000293925.9" ; Parent "JPT2--CRAMP1^CRAMP1^ENSG00000007545.16" ; ccdsid "CCDS10440.2" ; exon_id "ENSE00001784428.1" ; exon_number 1 ; gene_id "JPT2--CRAMP1^CRAMP1^ENSG00000007545.16" ; gene_name CRAMP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000074087.8" ; hgnc_id "HGNC:14122" ; level 3 ; orig_coord_info "chr16,1614640,1614985,+" ; protein_id "ENSP00000293925.5" ; tag basic appris_principal_1 CCDS ; transcript_id "JPT2--CRAMP1^ENST00000293925.9" ; transcript_name "CRAMP1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
LINC01324--RASAL2 HAVANA gene 7845 40647 . + . FI_gene_label "RASAL2^ENSG00000075391.17" ; ID "LINC01324--RASAL2^RASAL2^ENSG00000075391.17" ; ccdsid "CCDS1321.2" ; exon_id "ENSE00001924890.2" ; exon_number 1 ; gene_id "LINC01324--RASAL2^RASAL2^ENSG00000075391.17" ; gene_name RASAL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000035022.4" ; havana_transcript "OTTHUMT00000352415.1" ; hgnc_id "HGNC:9874" ; level 2 ; orig_coord_info "chr1,178094493,178094694,+" ; protein_id "ENSP00000356621.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LINC01324--RASAL2^ENST00000367649.8" ; transcript_name "RASAL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
LINC01324--RASAL2 HAVANA mRNA 7845 40647 . + . FI_gene_label "RASAL2^ENSG00000075391.17" ; ID "LINC01324--RASAL2^ENST00000367649.8" ; Parent "LINC01324--RASAL2^RASAL2^ENSG00000075391.17" ; ccdsid "CCDS1321.2" ; exon_id "ENSE00001924890.2" ; exon_number 1 ; gene_id "LINC01324--RASAL2^RASAL2^ENSG00000075391.17" ; gene_name RASAL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000035022.4" ; havana_transcript "OTTHUMT00000352415.1" ; hgnc_id "HGNC:9874" ; level 2 ; orig_coord_info "chr1,178094493,178094694,+" ; protein_id "ENSP00000356621.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LINC01324--RASAL2^ENST00000367649.8" ; transcript_name "RASAL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MGAT3--TAB1 HAVANA gene 13792 26149 . + . FI_gene_label "TAB1^ENSG00000100324.14" ; ID "MGAT3--TAB1^TAB1^ENSG00000100324.14" ; ccdsid "CCDS13993.1" ; exon_id "ENSE00001313059.4" ; exon_number 1 ; gene_id "MGAT3--TAB1^TAB1^ENSG00000100324.14" ; gene_name TAB1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151102.4" ; havana_transcript "OTTHUMT00000321313.2" ; hgnc_id "HGNC:18157" ; level 2 ; orig_coord_info "chr22,39399803,39399835,+" ; protein_id "ENSP00000216160.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MGAT3--TAB1^ENST00000216160.11" ; transcript_name "TAB1-201" ; transcript_support_level 1 ; transcript_type protein_coding
MGAT3--TAB1 HAVANA mRNA 13792 26149 . + . FI_gene_label "TAB1^ENSG00000100324.14" ; ID "MGAT3--TAB1^ENST00000216160.11" ; Parent "MGAT3--TAB1^TAB1^ENSG00000100324.14" ; ccdsid "CCDS13993.1" ; exon_id "ENSE00001313059.4" ; exon_number 1 ; gene_id "MGAT3--TAB1^TAB1^ENSG00000100324.14" ; gene_name TAB1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151102.4" ; havana_transcript "OTTHUMT00000321313.2" ; hgnc_id "HGNC:18157" ; level 2 ; orig_coord_info "chr22,39399803,39399835,+" ; protein_id "ENSP00000216160.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MGAT3--TAB1^ENST00000216160.11" ; transcript_name "TAB1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MGAT3--TAB1 HAVANA gene 1001 10789 . + . FI_gene_label "MGAT3^ENSG00000128268.12" ; ID "MGAT3--TAB1^MGAT3^ENSG00000128268.12" ; ccdsid "CCDS13994.2" ; exon_id "ENSE00001525937.2" ; exon_number 2 ; gene_id "MGAT3--TAB1^MGAT3^ENSG00000128268.12" ; gene_name MGAT3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030185.6" ; havana_transcript "OTTHUMT00000075039.3" ; hgnc_id "HGNC:7046" ; level 2 ; orig_coord_info "chr22,39487348,39488946,+" ; protein_id "ENSP00000345270.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MGAT3--TAB1^ENST00000341184.7" ; transcript_name "MGAT3-201" ; transcript_support_level 1 ; transcript_type protein_coding
MGAT3--TAB1 HAVANA mRNA 1001 10789 . + . FI_gene_label "MGAT3^ENSG00000128268.12" ; ID "MGAT3--TAB1^ENST00000341184.7" ; Parent "MGAT3--TAB1^MGAT3^ENSG00000128268.12" ; ccdsid "CCDS13994.2" ; exon_id "ENSE00001525937.2" ; exon_number 2 ; gene_id "MGAT3--TAB1^MGAT3^ENSG00000128268.12" ; gene_name MGAT3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000030185.6" ; havana_transcript "OTTHUMT00000075039.3" ; hgnc_id "HGNC:7046" ; level 2 ; orig_coord_info "chr22,39487348,39488946,+" ; protein_id "ENSP00000345270.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MGAT3--TAB1^ENST00000341184.7" ; transcript_name "MGAT3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MKLN1--DPP6 HAVANA gene 41557 79803 . + . FI_gene_label "DPP6^ENSG00000130226.17" ; ID "MKLN1--DPP6^DPP6^ENSG00000130226.17" ; ccdsid "CCDS75684.1" ; exon_id "ENSE00003647097.1" ; exon_number 1 ; gene_id "MKLN1--DPP6^DPP6^ENSG00000130226.17" ; gene_name DPP6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151511.3" ; havana_transcript "OTTHUMT00000348315.1" ; hgnc_id "HGNC:3010" ; level 2 ; orig_coord_info "chr7,154305495,154305551,+" ; protein_id "ENSP00000328226.3" ; tag basic appris_principal_3 CCDS ; transcript_id "MKLN1--DPP6^ENST00000332007.7" ; transcript_name "DPP6-201" ; transcript_support_level 1 ; transcript_type protein_coding
MKLN1--DPP6 HAVANA mRNA 41557 79803 . + . FI_gene_label "DPP6^ENSG00000130226.17" ; ID "MKLN1--DPP6^ENST00000332007.7" ; Parent "MKLN1--DPP6^DPP6^ENSG00000130226.17" ; ccdsid "CCDS75684.1" ; exon_id "ENSE00003647097.1" ; exon_number 1 ; gene_id "MKLN1--DPP6^DPP6^ENSG00000130226.17" ; gene_name DPP6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151511.3" ; havana_transcript "OTTHUMT00000348315.1" ; hgnc_id "HGNC:3010" ; level 2 ; orig_coord_info "chr7,154305495,154305551,+" ; protein_id "ENSP00000328226.3" ; tag basic appris_principal_3 CCDS ; transcript_id "MKLN1--DPP6^ENST00000332007.7" ; transcript_name "DPP6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MKLN1--DPP6 HAVANA gene 5423 35252 . + . FI_gene_label "MKLN1^ENSG00000128585.18" ; ID "MKLN1--DPP6^MKLN1^ENSG00000128585.18" ; ccdsid "CCDS34754.1" ; exon_id "ENSE00001811486.2" ; exon_number 1 ; gene_id "MKLN1--DPP6^MKLN1^ENSG00000128585.18" ; gene_name MKLN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154880.7" ; havana_transcript "OTTHUMT00000337473.5" ; hgnc_id "HGNC:7109" ; level 1 ; orig_coord_info "chr7,131327900,131327997,+" ; protein_id "ENSP00000323527.6" ; tag basic MANE_Select appris_principal_1 exp_conf CCDS ; transcript_id "MKLN1--DPP6^ENST00000352689.11" ; transcript_name "MKLN1-201" ; transcript_support_level 1 ; transcript_type protein_coding
MKLN1--DPP6 HAVANA mRNA 5423 35252 . + . FI_gene_label "MKLN1^ENSG00000128585.18" ; ID "MKLN1--DPP6^ENST00000352689.11" ; Parent "MKLN1--DPP6^MKLN1^ENSG00000128585.18" ; ccdsid "CCDS34754.1" ; exon_id "ENSE00001811486.2" ; exon_number 1 ; gene_id "MKLN1--DPP6^MKLN1^ENSG00000128585.18" ; gene_name MKLN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154880.7" ; havana_transcript "OTTHUMT00000337473.5" ; hgnc_id "HGNC:7109" ; level 1 ; orig_coord_info "chr7,131327900,131327997,+" ; protein_id "ENSP00000323527.6" ; tag basic MANE_Select appris_principal_1 exp_conf CCDS ; transcript_id "MKLN1--DPP6^ENST00000352689.11" ; transcript_name "MKLN1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NEB--FMNL2 HAVANA gene 160887 192588 . + . FI_gene_label "FMNL2^ENSG00000157827.20" ; ID "NEB--FMNL2^FMNL2^ENSG00000157827.20" ; ccdsid "CCDS46429.1" ; exon_id "ENSE00001578740.2" ; exon_number 1 ; gene_id "NEB--FMNL2^FMNL2^ENSG00000157827.20" ; gene_name FMNL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154035.7" ; havana_transcript "OTTHUMT00000333582.3" ; hgnc_id "HGNC:18267" ; level 2 ; orig_coord_info "chr2,152335604,152335720,+" ; protein_id "ENSP00000288670.9" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NEB--FMNL2^ENST00000288670.14" ; transcript_name "FMNL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
NEB--FMNL2 HAVANA mRNA 160887 192588 . + . FI_gene_label "FMNL2^ENSG00000157827.20" ; ID "NEB--FMNL2^ENST00000288670.14" ; Parent "NEB--FMNL2^FMNL2^ENSG00000157827.20" ; ccdsid "CCDS46429.1" ; exon_id "ENSE00001578740.2" ; exon_number 1 ; gene_id "NEB--FMNL2^FMNL2^ENSG00000157827.20" ; gene_name FMNL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154035.7" ; havana_transcript "OTTHUMT00000333582.3" ; hgnc_id "HGNC:18267" ; level 2 ; orig_coord_info "chr2,152335604,152335720,+" ; protein_id "ENSP00000288670.9" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NEB--FMNL2^ENST00000288670.14" ; transcript_name "FMNL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NEB--FMNL2 HAVANA gene 141584 157883 . + . FI_gene_label "NEB^ENSG00000183091.20" ; ID "NEB--FMNL2^NEB^ENSG00000183091.20" ; exon_id "ENSE00001664282.1" ; exon_number 1 ; gene_id "NEB--FMNL2^NEB^ENSG00000183091.20" ; gene_name NEB ; gene_type protein_coding ; havana_gene "OTTHUMG00000153784.16" ; havana_transcript "OTTHUMT00000333622.2" ; hgnc_id "HGNC:7720" ; level 2 ; orig_coord_info "chr2,151508005,151508042,-" ; protein_id "ENSP00000380498.2" ; tag mRNA_start_NF cds_start_NF ; transcript_id "NEB--FMNL2^ENST00000397337.6" ; transcript_name "NEB-201" ; transcript_support_level 5 ; transcript_type protein_coding
NEB--FMNL2 HAVANA mRNA 141584 157883 . + . FI_gene_label "NEB^ENSG00000183091.20" ; ID "NEB--FMNL2^ENST00000397337.6" ; Parent "NEB--FMNL2^NEB^ENSG00000183091.20" ; exon_id "ENSE00001664282.1" ; exon_number 1 ; gene_id "NEB--FMNL2^NEB^ENSG00000183091.20" ; gene_name NEB ; gene_type protein_coding ; havana_gene "OTTHUMG00000153784.16" ; havana_transcript "OTTHUMT00000333622.2" ; hgnc_id "HGNC:7720" ; level 2 ; orig_coord_info "chr2,151508005,151508042,-" ; protein_id "ENSP00000380498.2" ; tag mRNA_start_NF cds_start_NF ; transcript_id "NEB--FMNL2^ENST00000397337.6" ; transcript_name "NEB-201" ; transcript_support_level 5 ; 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:
PTK2--AGO2 HAVANA gene 64303 98236 . + . FI_gene_label "AGO2^ENSG00000123908.12" ; ID "PTK2--AGO2^AGO2^ENSG00000123908.12" ; ccdsid "CCDS6380.1" ; exon_id "ENSE00002115766.2" ; exon_number 1 ; gene_id "PTK2--AGO2^AGO2^ENSG00000123908.12" ; gene_name AGO2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164232.7" ; havana_transcript "OTTHUMT00000377866.6" ; hgnc_id "HGNC:3263" ; level 2 ; orig_coord_info "chr8,140635485,140635506,-" ; protein_id "ENSP00000220592.5" ; tag 3_standard_supported_extension basic MANE_Select appris_principal_1 CCDS ; transcript_id "PTK2--AGO2^ENST00000220592.10" ; transcript_name "AGO2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PTK2--AGO2 HAVANA mRNA 64303 98236 . + . FI_gene_label "AGO2^ENSG00000123908.12" ; ID "PTK2--AGO2^ENST00000220592.10" ; Parent "PTK2--AGO2^AGO2^ENSG00000123908.12" ; ccdsid "CCDS6380.1" ; exon_id "ENSE00002115766.2" ; exon_number 1 ; gene_id "PTK2--AGO2^AGO2^ENSG00000123908.12" ; gene_name AGO2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164232.7" ; havana_transcript "OTTHUMT00000377866.6" ; hgnc_id "HGNC:3263" ; level 2 ; orig_coord_info "chr8,140635485,140635506,-" ; protein_id "ENSP00000220592.5" ; tag 3_standard_supported_extension basic MANE_Select appris_principal_1 CCDS ; transcript_id "PTK2--AGO2^ENST00000220592.10" ; transcript_name "AGO2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PTK2--AGO2 HAVANA gene 2059 60797 . + . FI_gene_label "PTK2^ENSG00000169398.19" ; ID "PTK2--AGO2^PTK2^ENSG00000169398.19" ; ccdsid "CCDS56557.1" ; exon_id "ENSE00003798215.1" ; exon_number 3 ; gene_id "PTK2--AGO2^PTK2^ENSG00000169398.19" ; gene_name PTK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000067438.25" ; havana_transcript "OTTHUMT00000378103.1" ; hgnc_id "HGNC:9611" ; level 2 ; orig_coord_info "chr8,140890543,140890737,-" ; protein_id "ENSP00000341189.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "PTK2--AGO2^ENST00000340930.7" ; transcript_name "PTK2-201" ; transcript_support_level 2 ; transcript_type protein_coding
PTK2--AGO2 HAVANA mRNA 2059 60797 . + . FI_gene_label "PTK2^ENSG00000169398.19" ; ID "PTK2--AGO2^ENST00000340930.7" ; Parent "PTK2--AGO2^PTK2^ENSG00000169398.19" ; ccdsid "CCDS56557.1" ; exon_id "ENSE00003798215.1" ; exon_number 3 ; gene_id "PTK2--AGO2^PTK2^ENSG00000169398.19" ; gene_name PTK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000067438.25" ; havana_transcript "OTTHUMT00000378103.1" ; hgnc_id "HGNC:9611" ; level 2 ; orig_coord_info "chr8,140890543,140890737,-" ; protein_id "ENSP00000341189.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "PTK2--AGO2^ENST00000340930.7" ; transcript_name "PTK2-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
RALGPS1--PBX3 HAVANA gene 1009 35654 . + . FI_gene_label "RALGPS1^ENSG00000136828.19" ; ID "RALGPS1--PBX3^RALGPS1^ENSG00000136828.19" ; ccdsid "CCDS35143.1" ; exon_id "ENSE00003651353.1" ; exon_number 2 ; gene_id "RALGPS1--PBX3^RALGPS1^ENSG00000136828.19" ; gene_name RALGPS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020696.4" ; havana_transcript "OTTHUMT00000054133.2" ; hgnc_id "HGNC:16851" ; level 2 ; orig_coord_info "chr9,126962290,126962346,+" ; protein_id "ENSP00000259351.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RALGPS1--PBX3^ENST00000259351.10" ; transcript_name "RALGPS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
RALGPS1--PBX3 HAVANA mRNA 1009 35654 . + . FI_gene_label "RALGPS1^ENSG00000136828.19" ; ID "RALGPS1--PBX3^ENST00000259351.10" ; Parent "RALGPS1--PBX3^RALGPS1^ENSG00000136828.19" ; ccdsid "CCDS35143.1" ; exon_id "ENSE00003651353.1" ; exon_number 2 ; gene_id "RALGPS1--PBX3^RALGPS1^ENSG00000136828.19" ; gene_name RALGPS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020696.4" ; havana_transcript "OTTHUMT00000054133.2" ; hgnc_id "HGNC:16851" ; level 2 ; orig_coord_info "chr9,126962290,126962346,+" ; protein_id "ENSP00000259351.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RALGPS1--PBX3^ENST00000259351.10" ; transcript_name "RALGPS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RALGPS1--PBX3 HAVANA gene 38655 58862 . + . FI_gene_label "PBX3^ENSG00000167081.18" ; ID "RALGPS1--PBX3^PBX3^ENSG00000167081.18" ; ccdsid "CCDS83416.1" ; exon_id "ENSE00001460675.3" ; exon_number 1 ; gene_id "RALGPS1--PBX3^PBX3^ENSG00000167081.18" ; gene_name PBX3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020684.6" ; havana_transcript "OTTHUMT00000054100.2" ; hgnc_id "HGNC:8634" ; level 2 ; orig_coord_info "chr9,125747454,125747653,+" ; protein_id "ENSP00000341990.5" ; tag basic appris_alternative_1 CCDS ; transcript_id "RALGPS1--PBX3^ENST00000342287.9" ; transcript_name "PBX3-201" ; transcript_support_level 5 ; transcript_type protein_coding
RALGPS1--PBX3 HAVANA mRNA 38655 58862 . + . FI_gene_label "PBX3^ENSG00000167081.18" ; ID "RALGPS1--PBX3^ENST00000342287.9" ; Parent "RALGPS1--PBX3^PBX3^ENSG00000167081.18" ; ccdsid "CCDS83416.1" ; exon_id "ENSE00001460675.3" ; exon_number 1 ; gene_id "RALGPS1--PBX3^PBX3^ENSG00000167081.18" ; gene_name PBX3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000020684.6" ; havana_transcript "OTTHUMT00000054100.2" ; hgnc_id "HGNC:8634" ; level 2 ; orig_coord_info "chr9,125747454,125747653,+" ; protein_id "ENSP00000341990.5" ; tag basic appris_alternative_1 CCDS ; transcript_id "RALGPS1--PBX3^ENST00000342287.9" ; transcript_name "PBX3-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
RBPMS--AC090095.1 HAVANA gene 1017 29380 . + . FI_gene_label "RBPMS^ENSG00000157110.16" ; ID "RBPMS--AC090095.1^RBPMS^ENSG00000157110.16" ; ccdsid "CCDS34875.1" ; exon_id "ENSE00002099451.1" ; exon_number 1 ; gene_id "RBPMS--AC090095.1^RBPMS^ENSG00000157110.16" ; gene_name RBPMS ; gene_type protein_coding ; havana_gene "OTTHUMG00000163845.8" ; havana_transcript "OTTHUMT00000376358.1" ; hgnc_id "HGNC:19097" ; level 2 ; orig_coord_info "chr8,30385093,30385158,+" ; protein_id "ENSP00000287771.5" ; tag basic CCDS ; transcript_id "RBPMS--AC090095.1^ENST00000287771.9" ; transcript_name "RBPMS-201" ; transcript_support_level 1 ; transcript_type protein_coding
RBPMS--AC090095.1 HAVANA mRNA 1017 29380 . + . FI_gene_label "RBPMS^ENSG00000157110.16" ; ID "RBPMS--AC090095.1^ENST00000287771.9" ; Parent "RBPMS--AC090095.1^RBPMS^ENSG00000157110.16" ; ccdsid "CCDS34875.1" ; exon_id "ENSE00002099451.1" ; exon_number 1 ; gene_id "RBPMS--AC090095.1^RBPMS^ENSG00000157110.16" ; gene_name RBPMS ; gene_type protein_coding ; havana_gene "OTTHUMG00000163845.8" ; havana_transcript "OTTHUMT00000376358.1" ; hgnc_id "HGNC:19097" ; level 2 ; orig_coord_info "chr8,30385093,30385158,+" ; protein_id "ENSP00000287771.5" ; tag basic CCDS ; transcript_id "RBPMS--AC090095.1^ENST00000287771.9" ; transcript_name "RBPMS-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RBPMS--AC090132.1 HAVANA gene 1017 29380 . + . FI_gene_label "RBPMS^ENSG00000157110.16" ; ID "RBPMS--AC090132.1^RBPMS^ENSG00000157110.16" ; ccdsid "CCDS34875.1" ; exon_id "ENSE00002099451.1" ; exon_number 1 ; gene_id "RBPMS--AC090132.1^RBPMS^ENSG00000157110.16" ; gene_name RBPMS ; gene_type protein_coding ; havana_gene "OTTHUMG00000163845.8" ; havana_transcript "OTTHUMT00000376358.1" ; hgnc_id "HGNC:19097" ; level 2 ; orig_coord_info "chr8,30385093,30385158,+" ; protein_id "ENSP00000287771.5" ; tag basic CCDS ; transcript_id "RBPMS--AC090132.1^ENST00000287771.9" ; transcript_name "RBPMS-201" ; transcript_support_level 1 ; transcript_type protein_coding
RBPMS--AC090132.1 HAVANA mRNA 1017 29380 . + . FI_gene_label "RBPMS^ENSG00000157110.16" ; ID "RBPMS--AC090132.1^ENST00000287771.9" ; Parent "RBPMS--AC090132.1^RBPMS^ENSG00000157110.16" ; ccdsid "CCDS34875.1" ; exon_id "ENSE00002099451.1" ; exon_number 1 ; gene_id "RBPMS--AC090132.1^RBPMS^ENSG00000157110.16" ; gene_name RBPMS ; gene_type protein_coding ; havana_gene "OTTHUMG00000163845.8" ; havana_transcript "OTTHUMT00000376358.1" ; hgnc_id "HGNC:19097" ; level 2 ; orig_coord_info "chr8,30385093,30385158,+" ; protein_id "ENSP00000287771.5" ; tag basic CCDS ; transcript_id "RBPMS--AC090132.1^ENST00000287771.9" ; transcript_name "RBPMS-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RNF19B--AL031602.1 HAVANA gene 1001 11503 . + . FI_gene_label "RNF19B^ENSG00000116514.17" ; ID "RNF19B--AL031602.1^RNF19B^ENSG00000116514.17" ; ccdsid "CCDS72754.1" ; exon_id "ENSE00003907808.1" ; exon_number 1 ; gene_id "RNF19B--AL031602.1^RNF19B^ENSG00000116514.17" ; gene_name RNF19B ; gene_type protein_coding ; havana_gene "OTTHUMG00000004013.4" ; havana_transcript "OTTHUMT00000391687.1" ; hgnc_id "HGNC:26886" ; level 2 ; orig_coord_info "chr1,32964051,32964685,-" ; protein_id "ENSP00000235150.4" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "RNF19B--AL031602.1^ENST00000235150.5" ; transcript_name "RNF19B-201" ; transcript_support_level 1 ; transcript_type protein_coding
RNF19B--AL031602.1 HAVANA mRNA 1001 11503 . + . FI_gene_label "RNF19B^ENSG00000116514.17" ; ID "RNF19B--AL031602.1^ENST00000235150.5" ; Parent "RNF19B--AL031602.1^RNF19B^ENSG00000116514.17" ; ccdsid "CCDS72754.1" ; exon_id "ENSE00003907808.1" ; exon_number 1 ; gene_id "RNF19B--AL031602.1^RNF19B^ENSG00000116514.17" ; gene_name RNF19B ; gene_type protein_coding ; havana_gene "OTTHUMG00000004013.4" ; havana_transcript "OTTHUMT00000391687.1" ; hgnc_id "HGNC:26886" ; level 2 ; orig_coord_info "chr1,32964051,32964685,-" ; protein_id "ENSP00000235150.4" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "RNF19B--AL031602.1^ENST00000235150.5" ; transcript_name "RNF19B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RSU1--RBM20 HAVANA gene 1040 12390 . + . FI_gene_label "RSU1^ENSG00000148484.18" ; ID "RSU1--RBM20^RSU1^ENSG00000148484.18" ; ccdsid "CCDS7112.1" ; exon_id "ENSE00002280374.1" ; exon_number 2 ; gene_id "RSU1--RBM20^RSU1^ENSG00000148484.18" ; gene_name RSU1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017740.5" ; havana_transcript "OTTHUMT00000047005.2" ; hgnc_id "HGNC:10464" ; level 2 ; orig_coord_info "chr10,16816973,16817081,-" ; protein_id "ENSP00000339521.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RSU1--RBM20^ENST00000345264.10" ; transcript_name "RSU1-201" ; transcript_support_level 1 ; transcript_type protein_coding
RSU1--RBM20 HAVANA mRNA 1040 12390 . + . FI_gene_label "RSU1^ENSG00000148484.18" ; ID "RSU1--RBM20^ENST00000345264.10" ; Parent "RSU1--RBM20^RSU1^ENSG00000148484.18" ; ccdsid "CCDS7112.1" ; exon_id "ENSE00002280374.1" ; exon_number 2 ; gene_id "RSU1--RBM20^RSU1^ENSG00000148484.18" ; gene_name RSU1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017740.5" ; havana_transcript "OTTHUMT00000047005.2" ; hgnc_id "HGNC:10464" ; level 2 ; orig_coord_info "chr10,16816973,16817081,-" ; protein_id "ENSP00000339521.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RSU1--RBM20^ENST00000345264.10" ; transcript_name "RSU1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RSU1--RBM20 HAVANA gene 15391 37060 . + . FI_gene_label "RBM20^ENSG00000203867.8" ; ID "RSU1--RBM20^RBM20^ENSG00000203867.8" ; ccdsid "CCDS44477.1" ; exon_id "ENSE00001450234.3" ; exon_number 1 ; gene_id "RSU1--RBM20^RBM20^ENSG00000203867.8" ; gene_name RBM20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019043.6" ; havana_transcript "OTTHUMT00000050339.4" ; hgnc_id "HGNC:27424" ; level 2 ; orig_coord_info "chr10,110644455,110644645,+" ; protein_id "ENSP00000358532.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RSU1--RBM20^ENST00000369519.4" ; transcript_name "RBM20-201" ; transcript_support_level 1 ; transcript_type protein_coding
RSU1--RBM20 HAVANA mRNA 15391 37060 . + . FI_gene_label "RBM20^ENSG00000203867.8" ; ID "RSU1--RBM20^ENST00000369519.4" ; Parent "RSU1--RBM20^RBM20^ENSG00000203867.8" ; ccdsid "CCDS44477.1" ; exon_id "ENSE00001450234.3" ; exon_number 1 ; gene_id "RSU1--RBM20^RBM20^ENSG00000203867.8" ; gene_name RBM20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019043.6" ; havana_transcript "OTTHUMT00000050339.4" ; hgnc_id "HGNC:27424" ; level 2 ; orig_coord_info "chr10,110644455,110644645,+" ; protein_id "ENSP00000358532.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RSU1--RBM20^ENST00000369519.4" ; transcript_name "RBM20-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SNX9--SPAG16 ENSEMBL gene 37914 51365 . + . FI_gene_label "SPAG16^ENSG00000144451.19" ; ID "SNX9--SPAG16^SPAG16^ENSG00000144451.19" ; exon_id "ENSE00002172676.2" ; exon_number 1 ; gene_id "SNX9--SPAG16^SPAG16^ENSG00000144451.19" ; gene_name SPAG16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133015.9" ; hgnc_id "HGNC:23225" ; level 3 ; orig_coord_info "chr2,213284484,213284619,+" ; protein_id "ENSP00000272898.8" ; tag basic ; transcript_id "SNX9--SPAG16^ENST00000272898.11" ; transcript_name "SPAG16-201" ; transcript_support_level 5 ; transcript_type protein_coding
SNX9--SPAG16 ENSEMBL mRNA 37914 51365 . + . FI_gene_label "SPAG16^ENSG00000144451.19" ; ID "SNX9--SPAG16^ENST00000272898.11" ; Parent "SNX9--SPAG16^SPAG16^ENSG00000144451.19" ; exon_id "ENSE00002172676.2" ; exon_number 1 ; gene_id "SNX9--SPAG16^SPAG16^ENSG00000144451.19" ; gene_name SPAG16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133015.9" ; hgnc_id "HGNC:23225" ; level 3 ; orig_coord_info "chr2,213284484,213284619,+" ; protein_id "ENSP00000272898.8" ; tag basic ; transcript_id "SNX9--SPAG16^ENST00000272898.11" ; transcript_name "SPAG16-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
SNX9--SPAG16 HAVANA gene 5525 34913 . + . FI_gene_label "SNX9^ENSG00000130340.17" ; ID "SNX9--SPAG16^SNX9^ENSG00000130340.17" ; ccdsid "CCDS5253.1" ; exon_id "ENSE00001381139.5" ; exon_number 1 ; gene_id "SNX9--SPAG16^SNX9^ENSG00000130340.17" ; gene_name SNX9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015903.4" ; havana_transcript "OTTHUMT00000042856.2" ; hgnc_id "HGNC:14973" ; level 2 ; orig_coord_info "chr6,157823435,157823446,+" ; protein_id "ENSP00000376024.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "SNX9--SPAG16^ENST00000392185.8" ; transcript_name "SNX9-201" ; transcript_support_level 1 ; transcript_type protein_coding
SNX9--SPAG16 HAVANA mRNA 5525 34913 . + . FI_gene_label "SNX9^ENSG00000130340.17" ; ID "SNX9--SPAG16^ENST00000392185.8" ; Parent "SNX9--SPAG16^SNX9^ENSG00000130340.17" ; ccdsid "CCDS5253.1" ; exon_id "ENSE00001381139.5" ; exon_number 1 ; gene_id "SNX9--SPAG16^SNX9^ENSG00000130340.17" ; gene_name SNX9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015903.4" ; havana_transcript "OTTHUMT00000042856.2" ; hgnc_id "HGNC:14973" ; level 2 ; orig_coord_info "chr6,157823435,157823446,+" ; protein_id "ENSP00000376024.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "SNX9--SPAG16^ENST00000392185.8" ; transcript_name "SNX9-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
STON1--GTF2A1L HAVANA gene 15060 24138 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "STON1--GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "STON1--GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STON1--GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
STON1--GTF2A1L HAVANA mRNA 15060 24138 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "STON1--GTF2A1L^ENST00000403751.8" ; Parent "STON1--GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "STON1--GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STON1--GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
STON1--GTF2A1L HAVANA gene 1772 12001 . + . FI_gene_label "STON1^ENSG00000243244.7" ; ID "STON1--GTF2A1L^STON1^ENSG00000243244.7" ; ccdsid "CCDS1841.1" ; exon_id "ENSE00003530448.1" ; exon_number 2 ; gene_id "STON1--GTF2A1L^STON1^ENSG00000243244.7" ; gene_name STON1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129169.7" ; havana_transcript "OTTHUMT00000325006.1" ; hgnc_id "HGNC:17003" ; level 2 ; orig_coord_info "chr2,48580634,48582563,+" ; protein_id "ENSP00000385273.1" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "STON1--GTF2A1L^ENST00000404752.6" ; transcript_name "STON1-201" ; transcript_support_level 1 ; transcript_type protein_coding
STON1--GTF2A1L HAVANA mRNA 1772 12001 . + . FI_gene_label "STON1^ENSG00000243244.7" ; ID "STON1--GTF2A1L^ENST00000404752.6" ; Parent "STON1--GTF2A1L^STON1^ENSG00000243244.7" ; ccdsid "CCDS1841.1" ; exon_id "ENSE00003530448.1" ; exon_number 2 ; gene_id "STON1--GTF2A1L^STON1^ENSG00000243244.7" ; gene_name STON1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129169.7" ; havana_transcript "OTTHUMT00000325006.1" ; hgnc_id "HGNC:17003" ; level 2 ; orig_coord_info "chr2,48580634,48582563,+" ; protein_id "ENSP00000385273.1" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "STON1--GTF2A1L^ENST00000404752.6" ; transcript_name "STON1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TANK--ITGA4 HAVANA gene 23591 40053 . + . FI_gene_label "ITGA4^ENSG00000115232.14" ; ID "TANK--ITGA4^ITGA4^ENSG00000115232.14" ; exon_id "ENSE00000783316.4" ; exon_number 1 ; gene_id "TANK--ITGA4^ITGA4^ENSG00000115232.14" ; gene_name ITGA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154212.4" ; havana_transcript "OTTHUMT00000334432.2" ; hgnc_id "HGNC:6140" ; level 2 ; orig_coord_info "chr2,181457655,181457851,+" ; protein_id "ENSP00000233573.6" ; tag mRNA_end_NF cds_end_NF ; transcript_id "TANK--ITGA4^ENST00000233573.6" ; transcript_name "ITGA4-201" ; transcript_support_level 1 ; transcript_type protein_coding
TANK--ITGA4 HAVANA mRNA 23591 40053 . + . FI_gene_label "ITGA4^ENSG00000115232.14" ; ID "TANK--ITGA4^ENST00000233573.6" ; Parent "TANK--ITGA4^ITGA4^ENSG00000115232.14" ; exon_id "ENSE00000783316.4" ; exon_number 1 ; gene_id "TANK--ITGA4^ITGA4^ENSG00000115232.14" ; gene_name ITGA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154212.4" ; havana_transcript "OTTHUMT00000334432.2" ; hgnc_id "HGNC:6140" ; level 2 ; orig_coord_info "chr2,181457655,181457851,+" ; protein_id "ENSP00000233573.6" ; tag mRNA_end_NF cds_end_NF ; transcript_id "TANK--ITGA4^ENST00000233573.6" ; transcript_name "ITGA4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TANK--ITGA4 HAVANA gene 1001 20321 . + . FI_gene_label "TANK^ENSG00000136560.14" ; ID "TANK--ITGA4^TANK^ENSG00000136560.14" ; ccdsid "CCDS2215.1" ; exon_id "ENSE00003538914.1" ; exon_number 2 ; gene_id "TANK--ITGA4^TANK^ENSG00000136560.14" ; gene_name TANK ; gene_type protein_coding ; havana_gene "OTTHUMG00000132037.6" ; havana_transcript "OTTHUMT00000255058.2" ; hgnc_id "HGNC:11562" ; level 2 ; orig_coord_info "chr2,161179663,161179761,+" ; protein_id "ENSP00000259075.2" ; tag basic appris_principal_1 CCDS ; transcript_id "TANK--ITGA4^ENST00000259075.6" ; transcript_name "TANK-201" ; transcript_support_level 1 ; transcript_type protein_coding
TANK--ITGA4 HAVANA mRNA 1001 20321 . + . FI_gene_label "TANK^ENSG00000136560.14" ; ID "TANK--ITGA4^ENST00000259075.6" ; Parent "TANK--ITGA4^TANK^ENSG00000136560.14" ; ccdsid "CCDS2215.1" ; exon_id "ENSE00003538914.1" ; exon_number 2 ; gene_id "TANK--ITGA4^TANK^ENSG00000136560.14" ; gene_name TANK ; gene_type protein_coding ; havana_gene "OTTHUMG00000132037.6" ; havana_transcript "OTTHUMT00000255058.2" ; hgnc_id "HGNC:11562" ; level 2 ; orig_coord_info "chr2,161179663,161179761,+" ; protein_id "ENSP00000259075.2" ; tag basic appris_principal_1 CCDS ; transcript_id "TANK--ITGA4^ENST00000259075.6" ; transcript_name "TANK-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TET1--FHAD1 HAVANA gene 49653 73349 . + . FI_gene_label "FHAD1^ENSG00000142621.19" ; ID "TET1--FHAD1^FHAD1^ENSG00000142621.19" ; exon_id "ENSE00001664836.1" ; exon_number 1 ; gene_id "TET1--FHAD1^FHAD1^ENSG00000142621.19" ; gene_name FHAD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000002088.11" ; havana_transcript "OTTHUMT00000005862.1" ; hgnc_id "HGNC:29408" ; level 2 ; orig_coord_info "chr1,15345431,15345523,+" ; protein_id "ENSP00000318812.9" ; tag mRNA_start_NF cds_start_NF ; transcript_id "TET1--FHAD1^ENST00000314668.13" ; transcript_name "FHAD1-201" ; transcript_support_level 2 ; transcript_type protein_coding
TET1--FHAD1 HAVANA mRNA 49653 73349 . + . FI_gene_label "FHAD1^ENSG00000142621.19" ; ID "TET1--FHAD1^ENST00000314668.13" ; Parent "TET1--FHAD1^FHAD1^ENSG00000142621.19" ; exon_id "ENSE00001664836.1" ; exon_number 1 ; gene_id "TET1--FHAD1^FHAD1^ENSG00000142621.19" ; gene_name FHAD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000002088.11" ; havana_transcript "OTTHUMT00000005862.1" ; hgnc_id "HGNC:29408" ; level 2 ; orig_coord_info "chr1,15345431,15345523,+" ; protein_id "ENSP00000318812.9" ; tag mRNA_start_NF cds_start_NF ; transcript_id "TET1--FHAD1^ENST00000314668.13" ; transcript_name "FHAD1-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
TET1--FHAD1 HAVANA gene 1001 21176 . + . FI_gene_label "TET1^ENSG00000138336.9" ; ID "TET1--FHAD1^TET1^ENSG00000138336.9" ; ccdsid "CCDS7281.1" ; exon_id "ENSE00001461117.1" ; exon_number 2 ; gene_id "TET1--FHAD1^TET1^ENSG00000138336.9" ; gene_name TET1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018359.2" ; havana_transcript "OTTHUMT00000048354.2" ; hgnc_id "HGNC:29484" ; level 2 ; orig_coord_info "chr10,68572339,68574252,+" ; protein_id "ENSP00000362748.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TET1--FHAD1^ENST00000373644.5" ; transcript_name "TET1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TET1--FHAD1 HAVANA mRNA 1001 21176 . + . FI_gene_label "TET1^ENSG00000138336.9" ; ID "TET1--FHAD1^ENST00000373644.5" ; Parent "TET1--FHAD1^TET1^ENSG00000138336.9" ; ccdsid "CCDS7281.1" ; exon_id "ENSE00001461117.1" ; exon_number 2 ; gene_id "TET1--FHAD1^TET1^ENSG00000138336.9" ; gene_name TET1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018359.2" ; havana_transcript "OTTHUMT00000048354.2" ; hgnc_id "HGNC:29484" ; level 2 ; orig_coord_info "chr10,68572339,68574252,+" ; protein_id "ENSP00000362748.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TET1--FHAD1^ENST00000373644.5" ; transcript_name "TET1-201" ; 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:
TMC6--TK1 HAVANA gene 25439 31461 . + . FI_gene_label "TK1^ENSG00000167900.12" ; ID "TMC6--TK1^TK1^ENSG00000167900.12" ; ccdsid "CCDS11754.1" ; exon_id "ENSE00003843293.1" ; exon_number 1 ; gene_id "TMC6--TK1^TK1^ENSG00000167900.12" ; gene_name TK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150674.6" ; havana_transcript "OTTHUMT00000319577.3" ; hgnc_id "HGNC:11830" ; level 2 ; orig_coord_info "chr17,78186929,78186994,-" ; protein_id "ENSP00000301634.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMC6--TK1^ENST00000301634.12" ; transcript_name "TK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMC6--TK1 HAVANA mRNA 25439 31461 . + . FI_gene_label "TK1^ENSG00000167900.12" ; ID "TMC6--TK1^ENST00000301634.12" ; Parent "TMC6--TK1^TK1^ENSG00000167900.12" ; ccdsid "CCDS11754.1" ; exon_id "ENSE00003843293.1" ; exon_number 1 ; gene_id "TMC6--TK1^TK1^ENSG00000167900.12" ; gene_name TK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150674.6" ; havana_transcript "OTTHUMT00000319577.3" ; hgnc_id "HGNC:11830" ; level 2 ; orig_coord_info "chr17,78186929,78186994,-" ; protein_id "ENSP00000301634.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMC6--TK1^ENST00000301634.12" ; transcript_name "TK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMC6--TK1 HAVANA gene 3924 16729 . + . FI_gene_label "TMC6^ENSG00000141524.17" ; ID "TMC6--TK1^TMC6^ENSG00000141524.17" ; exon_id "ENSE00003593893.1" ; exon_number 2 ; gene_id "TMC6--TK1^TMC6^ENSG00000141524.17" ; gene_name TMC6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177466.6" ; havana_transcript "OTTHUMT00000460689.1" ; hgnc_id "HGNC:18021" ; level 2 ; orig_coord_info "chr17,78126777,78126832,-" ; protein_id "ENSP00000306405.6" ; tag basic ; transcript_id "TMC6--TK1^ENST00000306591.11" ; transcript_name "TMC6-201" ; transcript_support_level 5 ; transcript_type protein_coding
TMC6--TK1 HAVANA mRNA 3924 16729 . + . FI_gene_label "TMC6^ENSG00000141524.17" ; ID "TMC6--TK1^ENST00000306591.11" ; Parent "TMC6--TK1^TMC6^ENSG00000141524.17" ; exon_id "ENSE00003593893.1" ; exon_number 2 ; gene_id "TMC6--TK1^TMC6^ENSG00000141524.17" ; gene_name TMC6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177466.6" ; havana_transcript "OTTHUMT00000460689.1" ; hgnc_id "HGNC:18021" ; level 2 ; orig_coord_info "chr17,78126777,78126832,-" ; protein_id "ENSP00000306405.6" ; tag basic ; transcript_id "TMC6--TK1^ENST00000306591.11" ; transcript_name "TMC6-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
TRIP12--C12orf29 HAVANA gene 2093 49627 . + . FI_gene_label "TRIP12^ENSG00000153827.14" ; ID "TRIP12--C12orf29^TRIP12^ENSG00000153827.14" ; ccdsid "CCDS33391.1" ; exon_id "ENSE00003460176.1" ; exon_number 2 ; gene_id "TRIP12--C12orf29^TRIP12^ENSG00000153827.14" ; gene_name TRIP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000153623.6" ; havana_transcript "OTTHUMT00000331861.3" ; hgnc_id "HGNC:12306" ; level 2 ; orig_coord_info "chr2,229879982,229880079,-" ; protein_id "ENSP00000283943.4" ; tag basic CCDS ; transcript_id "TRIP12--C12orf29^ENST00000283943.9" ; transcript_name "TRIP12-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRIP12--C12orf29 HAVANA mRNA 2093 49627 . + . FI_gene_label "TRIP12^ENSG00000153827.14" ; ID "TRIP12--C12orf29^ENST00000283943.9" ; Parent "TRIP12--C12orf29^TRIP12^ENSG00000153827.14" ; ccdsid "CCDS33391.1" ; exon_id "ENSE00003460176.1" ; exon_number 2 ; gene_id "TRIP12--C12orf29^TRIP12^ENSG00000153827.14" ; gene_name TRIP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000153623.6" ; havana_transcript "OTTHUMT00000331861.3" ; hgnc_id "HGNC:12306" ; level 2 ; orig_coord_info "chr2,229879982,229880079,-" ; protein_id "ENSP00000283943.4" ; tag basic CCDS ; transcript_id "TRIP12--C12orf29^ENST00000283943.9" ; transcript_name "TRIP12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TRIP12--C12orf29 HAVANA gene 54102 64934 . + . FI_gene_label "C12orf29^ENSG00000133641.18" ; ID "TRIP12--C12orf29^C12orf29^ENSG00000133641.18" ; ccdsid "CCDS31866.1" ; exon_id "ENSE00002374024.1" ; exon_number 1 ; gene_id "TRIP12--C12orf29^C12orf29^ENSG00000133641.18" ; gene_name C12orf29 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169870.4" ; havana_transcript "OTTHUMT00000406335.2" ; hgnc_id "HGNC:25322" ; level 2 ; orig_coord_info "chr12,88035649,88035738,+" ; protein_id "ENSP00000349358.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TRIP12--C12orf29^ENST00000356891.4" ; transcript_name "C12orf29-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRIP12--C12orf29 HAVANA mRNA 54102 64934 . + . FI_gene_label "C12orf29^ENSG00000133641.18" ; ID "TRIP12--C12orf29^ENST00000356891.4" ; Parent "TRIP12--C12orf29^C12orf29^ENSG00000133641.18" ; ccdsid "CCDS31866.1" ; exon_id "ENSE00002374024.1" ; exon_number 1 ; gene_id "TRIP12--C12orf29^C12orf29^ENSG00000133641.18" ; gene_name C12orf29 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169870.4" ; havana_transcript "OTTHUMT00000406335.2" ; hgnc_id "HGNC:25322" ; level 2 ; orig_coord_info "chr12,88035649,88035738,+" ; protein_id "ENSP00000349358.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TRIP12--C12orf29^ENST00000356891.4" ; transcript_name "C12orf29-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TRPS1--AC025366.1 HAVANA gene 3960 20612 . + . FI_gene_label "TRPS1^ENSG00000104447.13" ; ID "TRPS1--AC025366.1^TRPS1^ENSG00000104447.13" ; ccdsid "CCDS83316.1" ; exon_id "ENSE00003549754.1" ; exon_number 2 ; gene_id "TRPS1--AC025366.1^TRPS1^ENSG00000104447.13" ; gene_name TRPS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000142829.6" ; havana_transcript "OTTHUMT00000286436.3" ; hgnc_id "HGNC:12340" ; level 2 ; orig_coord_info "chr8,115619132,115620058,-" ; protein_id "ENSP00000220888.5" ; tag basic appris_alternative_1 CCDS ; transcript_id "TRPS1--AC025366.1^ENST00000220888.9" ; transcript_name "TRPS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRPS1--AC025366.1 HAVANA mRNA 3960 20612 . + . FI_gene_label "TRPS1^ENSG00000104447.13" ; ID "TRPS1--AC025366.1^ENST00000220888.9" ; Parent "TRPS1--AC025366.1^TRPS1^ENSG00000104447.13" ; ccdsid "CCDS83316.1" ; exon_id "ENSE00003549754.1" ; exon_number 2 ; gene_id "TRPS1--AC025366.1^TRPS1^ENSG00000104447.13" ; gene_name TRPS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000142829.6" ; havana_transcript "OTTHUMT00000286436.3" ; hgnc_id "HGNC:12340" ; level 2 ; orig_coord_info "chr8,115619132,115620058,-" ; protein_id "ENSP00000220888.5" ; tag basic appris_alternative_1 CCDS ; transcript_id "TRPS1--AC025366.1^ENST00000220888.9" ; transcript_name "TRPS1-201" ; 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:
ZNRD1ASP--RNF39 HAVANA gene 29754 34166 . + . FI_gene_label "RNF39^ENSG00000204618.9" ; ID "ZNRD1ASP--RNF39^RNF39^ENSG00000204618.9" ; exon_id "ENSE00001825510.1" ; exon_number 1 ; gene_id "ZNRD1ASP--RNF39^RNF39^ENSG00000204618.9" ; gene_name RNF39 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031288.3" ; havana_transcript "OTTHUMT00000076625.3" ; hgnc_id "HGNC:18064" ; level 2 ; orig_coord_info "chr6,30075223,30075585,-" ; protein_id "ENSP00000244360.7" ; tag upstream_ATG basic appris_principal_1 ; transcript_id "ZNRD1ASP--RNF39^ENST00000244360.7" ; transcript_name "RNF39-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNRD1ASP--RNF39 HAVANA mRNA 29754 34166 . + . FI_gene_label "RNF39^ENSG00000204618.9" ; ID "ZNRD1ASP--RNF39^ENST00000244360.7" ; Parent "ZNRD1ASP--RNF39^RNF39^ENSG00000204618.9" ; exon_id "ENSE00001825510.1" ; exon_number 1 ; gene_id "ZNRD1ASP--RNF39^RNF39^ENSG00000204618.9" ; gene_name RNF39 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031288.3" ; havana_transcript "OTTHUMT00000076625.3" ; hgnc_id "HGNC:18064" ; level 2 ; orig_coord_info "chr6,30075223,30075585,-" ; protein_id "ENSP00000244360.7" ; tag upstream_ATG basic appris_principal_1 ; transcript_id "ZNRD1ASP--RNF39^ENST00000244360.7" ; transcript_name "RNF39-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZYG11B--AL033530.1 HAVANA gene 1001 20785 . + . FI_gene_label "ZYG11B^ENSG00000162378.13" ; ID "ZYG11B--AL033530.1^ZYG11B^ENSG00000162378.13" ; ccdsid "CCDS30717.1" ; exon_id "ENSE00001935167.2" ; exon_number 1 ; gene_id "ZYG11B--AL033530.1^ZYG11B^ENSG00000162378.13" ; gene_name ZYG11B ; gene_type protein_coding ; havana_gene "OTTHUMG00000008938.2" ; havana_transcript "OTTHUMT00000024749.2" ; hgnc_id "HGNC:25820" ; level 2 ; orig_coord_info "chr1,52726654,52726683,+" ; protein_id "ENSP00000294353.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZYG11B--AL033530.1^ENST00000294353.7" ; transcript_name "ZYG11B-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZYG11B--AL033530.1 HAVANA mRNA 1001 20785 . + . FI_gene_label "ZYG11B^ENSG00000162378.13" ; ID "ZYG11B--AL033530.1^ENST00000294353.7" ; Parent "ZYG11B--AL033530.1^ZYG11B^ENSG00000162378.13" ; ccdsid "CCDS30717.1" ; exon_id "ENSE00001935167.2" ; exon_number 1 ; gene_id "ZYG11B--AL033530.1^ZYG11B^ENSG00000162378.13" ; gene_name ZYG11B ; gene_type protein_coding ; havana_gene "OTTHUMG00000008938.2" ; havana_transcript "OTTHUMT00000024749.2" ; hgnc_id "HGNC:25820" ; level 2 ; orig_coord_info "chr1,52726654,52726683,+" ; protein_id "ENSP00000294353.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZYG11B--AL033530.1^ENST00000294353.7" ; transcript_name "ZYG11B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC004596.1--HROB HAVANA gene 1001 2528 . + . FI_gene_label "AC004596.1^ENSG00000267394.1" ; ID "AC004596.1--HROB^AC004596.1^ENSG00000267394.1" ; exon_id "ENSE00002960041.1" ; exon_number 1 ; gene_id "AC004596.1--HROB^AC004596.1^ENSG00000267394.1" ; gene_name "AC004596.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000181813.1" ; havana_transcript "OTTHUMT00000457735.1" ; level 2 ; orig_coord_info "chr17,44198882,44198934,+" ; tag basic ; transcript_id "AC004596.1--HROB^ENST00000586560.1" ; transcript_name "AC004596.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
AC004596.1--HROB HAVANA RNA 1001 2528 . + . FI_gene_label "AC004596.1^ENSG00000267394.1" ; ID "AC004596.1--HROB^ENST00000586560.1" ; Parent "AC004596.1--HROB^AC004596.1^ENSG00000267394.1" ; exon_id "ENSE00002960041.1" ; exon_number 1 ; gene_id "AC004596.1--HROB^AC004596.1^ENSG00000267394.1" ; gene_name "AC004596.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000181813.1" ; havana_transcript "OTTHUMT00000457735.1" ; level 2 ; orig_coord_info "chr17,44198882,44198934,+" ; tag basic ; transcript_id "AC004596.1--HROB^ENST00000586560.1" ; transcript_name "AC004596.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
COBLL1--AC079248.1 HAVANA gene 49861 52985 . + . FI_gene_label "AC079248.1^ENSG00000233842.2" ; ID "COBLL1--AC079248.1^AC079248.1^ENSG00000233842.2" ; exon_id "ENSE00001715823.1" ; exon_number 1 ; gene_id "COBLL1--AC079248.1^AC079248.1^ENSG00000233842.2" ; gene_name "AC079248.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000153722.3" ; havana_transcript "OTTHUMT00000332224.1" ; level 2 ; orig_coord_info "chr2,145915090,145915205,+" ; tag basic ; transcript_id "COBLL1--AC079248.1^ENST00000414967.1" ; transcript_name "AC079248.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
COBLL1--AC079248.1 HAVANA RNA 49861 52985 . + . FI_gene_label "AC079248.1^ENSG00000233842.2" ; ID "COBLL1--AC079248.1^ENST00000414967.1" ; Parent "COBLL1--AC079248.1^AC079248.1^ENSG00000233842.2" ; exon_id "ENSE00001715823.1" ; exon_number 1 ; gene_id "COBLL1--AC079248.1^AC079248.1^ENSG00000233842.2" ; gene_name "AC079248.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000153722.3" ; havana_transcript "OTTHUMT00000332224.1" ; level 2 ; orig_coord_info "chr2,145915090,145915205,+" ; tag basic ; transcript_id "COBLL1--AC079248.1^ENST00000414967.1" ; transcript_name "AC079248.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
COBLL1--RNU7-2P ENSEMBL gene 44352 44413 . + . FI_gene_label "RNU7-2P^ENSG00000251905.1" ; ID "COBLL1--RNU7-2P^RNU7-2P^ENSG00000251905.1" ; exon_id "ENSE00002088373.1" ; exon_number 1 ; gene_id "COBLL1--RNU7-2P^RNU7-2P^ENSG00000251905.1" ; gene_name "RNU7-2P" ; gene_type snRNA ; hgnc_id "HGNC:34098" ; level 3 ; orig_coord_info "chr2,146145156,146145217,+" ; tag basic ; transcript_id "COBLL1--RNU7-2P^ENST00000516096.1" ; transcript_name "RNU7-2P-201" ; transcript_support_level NA ; transcript_type snRNA
COBLL1--RNU7-2P ENSEMBL RNA 44352 44413 . + . FI_gene_label "RNU7-2P^ENSG00000251905.1" ; ID "COBLL1--RNU7-2P^ENST00000516096.1" ; Parent "COBLL1--RNU7-2P^RNU7-2P^ENSG00000251905.1" ; exon_id "ENSE00002088373.1" ; exon_number 1 ; gene_id "COBLL1--RNU7-2P^RNU7-2P^ENSG00000251905.1" ; gene_name "RNU7-2P" ; gene_type snRNA ; hgnc_id "HGNC:34098" ; level 3 ; orig_coord_info "chr2,146145156,146145217,+" ; tag basic ; transcript_id "COBLL1--RNU7-2P^ENST00000516096.1" ; transcript_name "RNU7-2P-201" ; transcript_support_level NA ; transcript_type snRNA
L1 and L2 created:
DIAPH3--RNU7-88P ENSEMBL gene 39403 39465 . + . FI_gene_label "RNU7-88P^ENSG00000239003.1" ; ID "DIAPH3--RNU7-88P^RNU7-88P^ENSG00000239003.1" ; exon_id "ENSE00001809069.1" ; exon_number 1 ; gene_id "DIAPH3--RNU7-88P^RNU7-88P^ENSG00000239003.1" ; gene_name "RNU7-88P" ; gene_type snRNA ; hgnc_id "HGNC:42617" ; level 3 ; orig_coord_info "chr13,59480070,59480132,+" ; tag basic ; transcript_id "DIAPH3--RNU7-88P^ENST00000458752.1" ; transcript_name "RNU7-88P-201" ; transcript_support_level NA ; transcript_type snRNA
DIAPH3--RNU7-88P ENSEMBL RNA 39403 39465 . + . FI_gene_label "RNU7-88P^ENSG00000239003.1" ; ID "DIAPH3--RNU7-88P^ENST00000458752.1" ; Parent "DIAPH3--RNU7-88P^RNU7-88P^ENSG00000239003.1" ; exon_id "ENSE00001809069.1" ; exon_number 1 ; gene_id "DIAPH3--RNU7-88P^RNU7-88P^ENSG00000239003.1" ; gene_name "RNU7-88P" ; gene_type snRNA ; hgnc_id "HGNC:42617" ; level 3 ; orig_coord_info "chr13,59480070,59480132,+" ; tag basic ; transcript_id "DIAPH3--RNU7-88P^ENST00000458752.1" ; transcript_name "RNU7-88P-201" ; transcript_support_level NA ; transcript_type snRNA
L1 and L2 created:
ERAP1--AC104123.1 HAVANA gene 28439 34926 . + . FI_gene_label "AC104123.1^ENSG00000251314.2" ; ID "ERAP1--AC104123.1^AC104123.1^ENSG00000251314.2" ; exon_id "ENSE00002082950.1" ; exon_number 1 ; gene_id "ERAP1--AC104123.1^AC104123.1^ENSG00000251314.2" ; gene_name "AC104123.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000162821.1" ; havana_transcript "OTTHUMT00000370533.1" ; level 2 ; orig_coord_info "chr5,95962001,95962036,+" ; tag basic ; transcript_id "ERAP1--AC104123.1^ENST00000502645.2" ; transcript_name "AC104123.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
ERAP1--AC104123.1 HAVANA RNA 28439 34926 . + . FI_gene_label "AC104123.1^ENSG00000251314.2" ; ID "ERAP1--AC104123.1^ENST00000502645.2" ; Parent "ERAP1--AC104123.1^AC104123.1^ENSG00000251314.2" ; exon_id "ENSE00002082950.1" ; exon_number 1 ; gene_id "ERAP1--AC104123.1^AC104123.1^ENSG00000251314.2" ; gene_name "AC104123.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000162821.1" ; havana_transcript "OTTHUMT00000370533.1" ; level 2 ; orig_coord_info "chr5,95962001,95962036,+" ; tag basic ; transcript_id "ERAP1--AC104123.1^ENST00000502645.2" ; transcript_name "AC104123.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
ERAP1--MIR583HG HAVANA gene 28439 31142 . + . FI_gene_label "MIR583HG^ENSG00000250551.1" ; ID "ERAP1--MIR583HG^MIR583HG^ENSG00000250551.1" ; exon_id "ENSE00002036725.1" ; exon_number 1 ; gene_id "ERAP1--MIR583HG^MIR583HG^ENSG00000250551.1" ; gene_name MIR583HG ; gene_type lncRNA ; havana_gene "OTTHUMG00000162825.1" ; havana_transcript "OTTHUMT00000370578.1" ; hgnc_id "HGNC:53061" ; level 2 ; orig_coord_info "chr5,96050115,96050201,+" ; tag basic ; transcript_id "ERAP1--MIR583HG^ENST00000507997.1" ; transcript_name "MIR583HG-201" ; transcript_support_level 2 ; transcript_type lncRNA
ERAP1--MIR583HG HAVANA RNA 28439 31142 . + . FI_gene_label "MIR583HG^ENSG00000250551.1" ; ID "ERAP1--MIR583HG^ENST00000507997.1" ; Parent "ERAP1--MIR583HG^MIR583HG^ENSG00000250551.1" ; exon_id "ENSE00002036725.1" ; exon_number 1 ; gene_id "ERAP1--MIR583HG^MIR583HG^ENSG00000250551.1" ; gene_name MIR583HG ; gene_type lncRNA ; havana_gene "OTTHUMG00000162825.1" ; havana_transcript "OTTHUMT00000370578.1" ; hgnc_id "HGNC:53061" ; level 2 ; orig_coord_info "chr5,96050115,96050201,+" ; tag basic ; transcript_id "ERAP1--MIR583HG^ENST00000507997.1" ; transcript_name "MIR583HG-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
LINC01324--RASAL2 HAVANA gene 2072 4844 . + . FI_gene_label "LINC01324^ENSG00000241767.2" ; ID "LINC01324--RASAL2^LINC01324^ENSG00000241767.2" ; exon_id "ENSE00001819995.1" ; exon_number 1 ; gene_id "LINC01324--RASAL2^LINC01324^ENSG00000241767.2" ; gene_name LINC01324 ; gene_type lncRNA ; havana_gene "OTTHUMG00000158064.2" ; havana_transcript "OTTHUMT00000350115.1" ; hgnc_id "HGNC:50530" ; level 1 ; orig_coord_info "chr3,164730872,164731036,-" ; tag exp_conf ; transcript_id "LINC01324--RASAL2^ENST00000463978.1" ; transcript_name "LINC01324-201" ; transcript_support_level 2 ; transcript_type lncRNA
LINC01324--RASAL2 HAVANA RNA 2072 4844 . + . FI_gene_label "LINC01324^ENSG00000241767.2" ; ID "LINC01324--RASAL2^ENST00000463978.1" ; Parent "LINC01324--RASAL2^LINC01324^ENSG00000241767.2" ; exon_id "ENSE00001819995.1" ; exon_number 1 ; gene_id "LINC01324--RASAL2^LINC01324^ENSG00000241767.2" ; gene_name LINC01324 ; gene_type lncRNA ; havana_gene "OTTHUMG00000158064.2" ; havana_transcript "OTTHUMT00000350115.1" ; hgnc_id "HGNC:50530" ; level 1 ; orig_coord_info "chr3,164730872,164731036,-" ; tag exp_conf ; transcript_id "LINC01324--RASAL2^ENST00000463978.1" ; transcript_name "LINC01324-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
RBPMS--AC090095.1 HAVANA gene 32381 33251 . + . FI_gene_label "AC090095.1^ENSG00000254189.1" ; ID "RBPMS--AC090095.1^AC090095.1^ENSG00000254189.1" ; exon_id "ENSE00002120384.1" ; exon_number 1 ; gene_id "RBPMS--AC090095.1^AC090095.1^ENSG00000254189.1" ; gene_name "AC090095.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164607.1" ; havana_transcript "OTTHUMT00000379377.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,83099976,83100846,-" ; tag pseudo_consens basic ; transcript_id "RBPMS--AC090095.1^ENST00000519275.1" ; transcript_name "AC090095.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
RBPMS--AC090095.1 HAVANA RNA 32381 33251 . + . FI_gene_label "AC090095.1^ENSG00000254189.1" ; ID "RBPMS--AC090095.1^ENST00000519275.1" ; Parent "RBPMS--AC090095.1^AC090095.1^ENSG00000254189.1" ; exon_id "ENSE00002120384.1" ; exon_number 1 ; gene_id "RBPMS--AC090095.1^AC090095.1^ENSG00000254189.1" ; gene_name "AC090095.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164607.1" ; havana_transcript "OTTHUMT00000379377.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,83099976,83100846,-" ; tag pseudo_consens basic ; transcript_id "RBPMS--AC090095.1^ENST00000519275.1" ; transcript_name "AC090095.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
RBPMS--AC090132.1 HAVANA gene 32381 33860 . + . FI_gene_label "AC090132.1^ENSG00000253423.1" ; ID "RBPMS--AC090132.1^AC090132.1^ENSG00000253423.1" ; exon_id "ENSE00002118045.1" ; exon_number 1 ; gene_id "RBPMS--AC090132.1^AC090132.1^ENSG00000253423.1" ; gene_name "AC090132.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164608.1" ; havana_transcript "OTTHUMT00000379378.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,83200952,83202431,-" ; tag pseudo_consens basic ; transcript_id "RBPMS--AC090132.1^ENST00000524071.1" ; transcript_name "AC090132.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
RBPMS--AC090132.1 HAVANA RNA 32381 33860 . + . FI_gene_label "AC090132.1^ENSG00000253423.1" ; ID "RBPMS--AC090132.1^ENST00000524071.1" ; Parent "RBPMS--AC090132.1^AC090132.1^ENSG00000253423.1" ; exon_id "ENSE00002118045.1" ; exon_number 1 ; gene_id "RBPMS--AC090132.1^AC090132.1^ENSG00000253423.1" ; gene_name "AC090132.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164608.1" ; havana_transcript "OTTHUMT00000379378.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,83200952,83202431,-" ; tag pseudo_consens basic ; transcript_id "RBPMS--AC090132.1^ENST00000524071.1" ; transcript_name "AC090132.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
RNF19B--AL031602.1 ENSEMBL gene 14622 14996 . + . FI_gene_label "AL031602.1^ENSG00000278966.2" ; ID "RNF19B--AL031602.1^AL031602.1^ENSG00000278966.2" ; exon_id "ENSE00003759812.1" ; exon_number 1 ; gene_id "RNF19B--AL031602.1^AL031602.1^ENSG00000278966.2" ; gene_name "AL031602.1" ; gene_type TEC ; havana_gene "OTTHUMG00000191421.1" ; level 3 ; orig_coord_info "chr1,32973667,32974041,+" ; transcript_id "RNF19B--AL031602.1^ENST00000623226.1" ; transcript_name "AL031602.1-202" ; transcript_support_level NA ; transcript_type TEC
RNF19B--AL031602.1 ENSEMBL RNA 14622 14996 . + . FI_gene_label "AL031602.1^ENSG00000278966.2" ; ID "RNF19B--AL031602.1^ENST00000623226.1" ; Parent "RNF19B--AL031602.1^AL031602.1^ENSG00000278966.2" ; exon_id "ENSE00003759812.1" ; exon_number 1 ; gene_id "RNF19B--AL031602.1^AL031602.1^ENSG00000278966.2" ; gene_name "AL031602.1" ; gene_type TEC ; havana_gene "OTTHUMG00000191421.1" ; level 3 ; orig_coord_info "chr1,32973667,32974041,+" ; transcript_id "RNF19B--AL031602.1^ENST00000623226.1" ; transcript_name "AL031602.1-202" ; transcript_support_level NA ; transcript_type TEC
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:
TRPS1--AC025366.1 HAVANA gene 27666 29867 . + . FI_gene_label "AC025366.1^ENSG00000253122.1" ; ID "TRPS1--AC025366.1^AC025366.1^ENSG00000253122.1" ; exon_id "ENSE00002098681.1" ; exon_number 1 ; gene_id "TRPS1--AC025366.1^AC025366.1^ENSG00000253122.1" ; gene_name "AC025366.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000164915.1" ; havana_transcript "OTTHUMT00000380899.1" ; level 2 ; orig_coord_info "chr8,110609241,110609306,+" ; tag basic ; transcript_id "TRPS1--AC025366.1^ENST00000523264.1" ; transcript_name "AC025366.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
TRPS1--AC025366.1 HAVANA RNA 27666 29867 . + . FI_gene_label "AC025366.1^ENSG00000253122.1" ; ID "TRPS1--AC025366.1^ENST00000523264.1" ; Parent "TRPS1--AC025366.1^AC025366.1^ENSG00000253122.1" ; exon_id "ENSE00002098681.1" ; exon_number 1 ; gene_id "TRPS1--AC025366.1^AC025366.1^ENSG00000253122.1" ; gene_name "AC025366.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000164915.1" ; havana_transcript "OTTHUMT00000380899.1" ; level 2 ; orig_coord_info "chr8,110609241,110609306,+" ; tag basic ; transcript_id "TRPS1--AC025366.1^ENST00000523264.1" ; transcript_name "AC025366.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
ZNRD1ASP--RNF39 HAVANA gene 1497 26753 . + . FI_gene_label "ZNRD1ASP^ENSG00000204623.9" ; ID "ZNRD1ASP--RNF39^ZNRD1ASP^ENSG00000204623.9" ; exon_id "ENSE00001771825.1" ; exon_number 1 ; gene_id "ZNRD1ASP--RNF39^ZNRD1ASP^ENSG00000204623.9" ; gene_name ZNRD1ASP ; gene_type transcribed_unitary_pseudogene ; havana_gene "OTTHUMG00000191729.3" ; havana_transcript "OTTHUMT00000253083.1" ; hgnc_id "HGNC:13924" ; level 1 ; orig_coord_info "chr6,30060962,30061144,-" ; tag basic exp_conf ; transcript_id "ZNRD1ASP--RNF39^ENST00000376797.7" ; transcript_name "ZNRD1ASP-211" ; transcript_support_level 2 ; transcript_type processed_transcript
ZNRD1ASP--RNF39 HAVANA RNA 1497 26753 . + . FI_gene_label "ZNRD1ASP^ENSG00000204623.9" ; ID "ZNRD1ASP--RNF39^ENST00000376797.7" ; Parent "ZNRD1ASP--RNF39^ZNRD1ASP^ENSG00000204623.9" ; exon_id "ENSE00001771825.1" ; exon_number 1 ; gene_id "ZNRD1ASP--RNF39^ZNRD1ASP^ENSG00000204623.9" ; gene_name ZNRD1ASP ; gene_type transcribed_unitary_pseudogene ; havana_gene "OTTHUMG00000191729.3" ; havana_transcript "OTTHUMT00000253083.1" ; hgnc_id "HGNC:13924" ; level 1 ; orig_coord_info "chr6,30060962,30061144,-" ; tag basic exp_conf ; transcript_id "ZNRD1ASP--RNF39^ENST00000376797.7" ; transcript_name "ZNRD1ASP-211" ; transcript_support_level 2 ; transcript_type processed_transcript
L1 and L2 created:
ZYG11B--AL033530.1 HAVANA gene 23786 34472 . + . FI_gene_label "AL033530.1^ENSG00000285407.1" ; ID "ZYG11B--AL033530.1^AL033530.1^ENSG00000285407.1" ; exon_id "ENSE00003823033.1" ; exon_number 1 ; gene_id "ZYG11B--AL033530.1^AL033530.1^ENSG00000285407.1" ; gene_name "AL033530.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000192366.1" ; havana_transcript "OTTHUMT00000493740.1" ; level 2 ; orig_coord_info "chr1,68679202,68679494,+" ; tag RNA_Seq_supported_only basic ; transcript_id "ZYG11B--AL033530.1^ENST00000643361.1" ; transcript_name "AL033530.1-201" ; transcript_type lncRNA
ZYG11B--AL033530.1 HAVANA RNA 23786 34472 . + . FI_gene_label "AL033530.1^ENSG00000285407.1" ; ID "ZYG11B--AL033530.1^ENST00000643361.1" ; Parent "ZYG11B--AL033530.1^AL033530.1^ENSG00000285407.1" ; exon_id "ENSE00003823033.1" ; exon_number 1 ; gene_id "ZYG11B--AL033530.1^AL033530.1^ENSG00000285407.1" ; gene_name "AL033530.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000192366.1" ; havana_transcript "OTTHUMT00000493740.1" ; level 2 ; orig_coord_info "chr1,68679202,68679494,+" ; tag RNA_Seq_supported_only basic ; transcript_id "ZYG11B--AL033530.1^ENST00000643361.1" ; transcript_name "AL033530.1-201" ; transcript_type lncRNA
732 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 0 seconds -------------------------------
----------------------------- Check10: check utrs ------------------------------
1284 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 0 second) ------
GFF3 file parsed