Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/1ecb5e20579eee744eff4d5b2c82ff/fi_workdir/aih-tih-sc-b6a2e8-R1_A23YTGFLT4_1.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/84/28e9949ed60ceefd478828c08085b0/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/84/28e9949ed60ceefd478828c08085b0/.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: 10912
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 10912
=> 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:10912
=> 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:
ABAT--GSG1L HAVANA gene 1022 30992 . + . FI_gene_label "ABAT^ENSG00000183044.12" ; ID "ABAT--GSG1L^ABAT^ENSG00000183044.12" ; ccdsid "CCDS10534.1" ; exon_id "ENSE00003498841.1" ; exon_number 2 ; gene_id "ABAT--GSG1L^ABAT^ENSG00000183044.12" ; gene_name ABAT ; gene_type protein_coding ; havana_gene "OTTHUMG00000048201.6" ; havana_transcript "OTTHUMT00000109648.3" ; hgnc_id "HGNC:23" ; level 2 ; orig_coord_info "chr16,8735740,8735809,+" ; protein_id "ENSP00000268251.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ABAT--GSG1L^ENST00000268251.13" ; transcript_name "ABAT-201" ; transcript_support_level 1 ; transcript_type protein_coding
ABAT--GSG1L HAVANA mRNA 1022 30992 . + . FI_gene_label "ABAT^ENSG00000183044.12" ; ID "ABAT--GSG1L^ENST00000268251.13" ; Parent "ABAT--GSG1L^ABAT^ENSG00000183044.12" ; ccdsid "CCDS10534.1" ; exon_id "ENSE00003498841.1" ; exon_number 2 ; gene_id "ABAT--GSG1L^ABAT^ENSG00000183044.12" ; gene_name ABAT ; gene_type protein_coding ; havana_gene "OTTHUMG00000048201.6" ; havana_transcript "OTTHUMT00000109648.3" ; hgnc_id "HGNC:23" ; level 2 ; orig_coord_info "chr16,8735740,8735809,+" ; protein_id "ENSP00000268251.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ABAT--GSG1L^ENST00000268251.13" ; transcript_name "ABAT-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ABAT--GSG1L HAVANA gene 36685 45056 . + . FI_gene_label "GSG1L^ENSG00000169181.13" ; ID "ABAT--GSG1L^GSG1L^ENSG00000169181.13" ; ccdsid "CCDS10631.1" ; exon_id "ENSE00003551945.1" ; exon_number 2 ; gene_id "ABAT--GSG1L^GSG1L^ENSG00000169181.13" ; gene_name GSG1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000131676.6" ; havana_transcript "OTTHUMT00000254579.1" ; hgnc_id "HGNC:28283" ; level 2 ; orig_coord_info "chr16,27884486,27884570,-" ; protein_id "ENSP00000370282.3" ; tag basic CCDS ; transcript_id "ABAT--GSG1L^ENST00000380897.7" ; transcript_name "GSG1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
ABAT--GSG1L HAVANA mRNA 36685 45056 . + . FI_gene_label "GSG1L^ENSG00000169181.13" ; ID "ABAT--GSG1L^ENST00000380897.7" ; Parent "ABAT--GSG1L^GSG1L^ENSG00000169181.13" ; ccdsid "CCDS10631.1" ; exon_id "ENSE00003551945.1" ; exon_number 2 ; gene_id "ABAT--GSG1L^GSG1L^ENSG00000169181.13" ; gene_name GSG1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000131676.6" ; havana_transcript "OTTHUMT00000254579.1" ; hgnc_id "HGNC:28283" ; level 2 ; orig_coord_info "chr16,27884486,27884570,-" ; protein_id "ENSP00000370282.3" ; tag basic CCDS ; transcript_id "ABAT--GSG1L^ENST00000380897.7" ; transcript_name "GSG1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AKAP10--AC090453.1 HAVANA gene 1516 20087 . + . FI_gene_label "AKAP10^ENSG00000108599.15" ; ID "AKAP10--AC090453.1^AKAP10^ENSG00000108599.15" ; ccdsid "CCDS11214.1" ; exon_id "ENSE00002672716.1" ; exon_number 1 ; gene_id "AKAP10--AC090453.1^AKAP10^ENSG00000108599.15" ; gene_name AKAP10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059515.9" ; havana_transcript "OTTHUMT00000132380.3" ; hgnc_id "HGNC:368" ; level 2 ; orig_coord_info "chr17,19977592,19977679,-" ; protein_id "ENSP00000225737.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AKAP10--AC090453.1^ENST00000225737.11" ; transcript_name "AKAP10-201" ; transcript_support_level 1 ; transcript_type protein_coding
AKAP10--AC090453.1 HAVANA mRNA 1516 20087 . + . FI_gene_label "AKAP10^ENSG00000108599.15" ; ID "AKAP10--AC090453.1^ENST00000225737.11" ; Parent "AKAP10--AC090453.1^AKAP10^ENSG00000108599.15" ; ccdsid "CCDS11214.1" ; exon_id "ENSE00002672716.1" ; exon_number 1 ; gene_id "AKAP10--AC090453.1^AKAP10^ENSG00000108599.15" ; gene_name AKAP10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059515.9" ; havana_transcript "OTTHUMT00000132380.3" ; hgnc_id "HGNC:368" ; level 2 ; orig_coord_info "chr17,19977592,19977679,-" ; protein_id "ENSP00000225737.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AKAP10--AC090453.1^ENST00000225737.11" ; transcript_name "AKAP10-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AKAP10--KCNU1 HAVANA gene 1516 20087 . + . FI_gene_label "AKAP10^ENSG00000108599.15" ; ID "AKAP10--KCNU1^AKAP10^ENSG00000108599.15" ; ccdsid "CCDS11214.1" ; exon_id "ENSE00002672716.1" ; exon_number 1 ; gene_id "AKAP10--KCNU1^AKAP10^ENSG00000108599.15" ; gene_name AKAP10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059515.9" ; havana_transcript "OTTHUMT00000132380.3" ; hgnc_id "HGNC:368" ; level 2 ; orig_coord_info "chr17,19977592,19977679,-" ; protein_id "ENSP00000225737.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AKAP10--KCNU1^ENST00000225737.11" ; transcript_name "AKAP10-201" ; transcript_support_level 1 ; transcript_type protein_coding
AKAP10--KCNU1 HAVANA mRNA 1516 20087 . + . FI_gene_label "AKAP10^ENSG00000108599.15" ; ID "AKAP10--KCNU1^ENST00000225737.11" ; Parent "AKAP10--KCNU1^AKAP10^ENSG00000108599.15" ; ccdsid "CCDS11214.1" ; exon_id "ENSE00002672716.1" ; exon_number 1 ; gene_id "AKAP10--KCNU1^AKAP10^ENSG00000108599.15" ; gene_name AKAP10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059515.9" ; havana_transcript "OTTHUMT00000132380.3" ; hgnc_id "HGNC:368" ; level 2 ; orig_coord_info "chr17,19977592,19977679,-" ; protein_id "ENSP00000225737.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AKAP10--KCNU1^ENST00000225737.11" ; transcript_name "AKAP10-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AKAP10--KCNU1 HAVANA gene 23138 52298 . + . FI_gene_label "KCNU1^ENSG00000215262.8" ; ID "AKAP10--KCNU1^KCNU1^ENSG00000215262.8" ; ccdsid "CCDS55220.1" ; exon_id "ENSE00002090678.1" ; exon_number 1 ; gene_id "AKAP10--KCNU1^KCNU1^ENSG00000215262.8" ; gene_name KCNU1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163981.3" ; havana_transcript "OTTHUMT00000376631.2" ; hgnc_id "HGNC:18867" ; level 2 ; orig_coord_info "chr8,36784411,36784605,+" ; protein_id "ENSP00000382770.3" ; tag non_canonical_conserved basic MANE_Select appris_principal_1 CCDS ; transcript_id "AKAP10--KCNU1^ENST00000399881.8" ; transcript_name "KCNU1-201" ; transcript_support_level 2 ; transcript_type protein_coding
AKAP10--KCNU1 HAVANA mRNA 23138 52298 . + . FI_gene_label "KCNU1^ENSG00000215262.8" ; ID "AKAP10--KCNU1^ENST00000399881.8" ; Parent "AKAP10--KCNU1^KCNU1^ENSG00000215262.8" ; ccdsid "CCDS55220.1" ; exon_id "ENSE00002090678.1" ; exon_number 1 ; gene_id "AKAP10--KCNU1^KCNU1^ENSG00000215262.8" ; gene_name KCNU1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163981.3" ; havana_transcript "OTTHUMT00000376631.2" ; hgnc_id "HGNC:18867" ; level 2 ; orig_coord_info "chr8,36784411,36784605,+" ; protein_id "ENSP00000382770.3" ; tag non_canonical_conserved basic MANE_Select appris_principal_1 CCDS ; transcript_id "AKAP10--KCNU1^ENST00000399881.8" ; transcript_name "KCNU1-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
AP3M2--NRG1 ENSEMBL gene 1001 13593 . + . FI_gene_label "AP3M2^ENSG00000070718.12" ; ID "AP3M2--NRG1^AP3M2^ENSG00000070718.12" ; ccdsid "CCDS6125.1" ; exon_id "ENSE00001633313.1" ; exon_number 2 ; gene_id "AP3M2--NRG1^AP3M2^ENSG00000070718.12" ; gene_name AP3M2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164060.6" ; hgnc_id "HGNC:570" ; level 3 ; orig_coord_info "chr8,42154688,42154960,+" ; protein_id "ENSP00000174653.3" ; tag basic appris_principal_1 CCDS ; transcript_id "AP3M2--NRG1^ENST00000174653.3" ; transcript_name "AP3M2-201" ; transcript_support_level 5 ; transcript_type protein_coding
AP3M2--NRG1 ENSEMBL mRNA 1001 13593 . + . FI_gene_label "AP3M2^ENSG00000070718.12" ; ID "AP3M2--NRG1^ENST00000174653.3" ; Parent "AP3M2--NRG1^AP3M2^ENSG00000070718.12" ; ccdsid "CCDS6125.1" ; exon_id "ENSE00001633313.1" ; exon_number 2 ; gene_id "AP3M2--NRG1^AP3M2^ENSG00000070718.12" ; gene_name AP3M2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164060.6" ; hgnc_id "HGNC:570" ; level 3 ; orig_coord_info "chr8,42154688,42154960,+" ; protein_id "ENSP00000174653.3" ; tag basic appris_principal_1 CCDS ; transcript_id "AP3M2--NRG1^ENST00000174653.3" ; transcript_name "AP3M2-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
AP3M2--NRG1 HAVANA gene 24783 49576 . + . FI_gene_label "NRG1^ENSG00000157168.20" ; ID "AP3M2--NRG1^NRG1^ENSG00000157168.20" ; ccdsid "CCDS6083.1" ; exon_id "ENSE00003752907.2" ; exon_number 1 ; gene_id "AP3M2--NRG1^NRG1^ENSG00000157168.20" ; gene_name NRG1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163918.29" ; havana_transcript "OTTHUMT00000483442.1" ; hgnc_id "HGNC:7997" ; level 2 ; orig_coord_info "chr8,32548727,32548826,+" ; protein_id "ENSP00000287842.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "AP3M2--NRG1^ENST00000287842.7" ; transcript_name "NRG1-201" ; transcript_support_level 1 ; transcript_type protein_coding
AP3M2--NRG1 HAVANA mRNA 24783 49576 . + . FI_gene_label "NRG1^ENSG00000157168.20" ; ID "AP3M2--NRG1^ENST00000287842.7" ; Parent "AP3M2--NRG1^NRG1^ENSG00000157168.20" ; ccdsid "CCDS6083.1" ; exon_id "ENSE00003752907.2" ; exon_number 1 ; gene_id "AP3M2--NRG1^NRG1^ENSG00000157168.20" ; gene_name NRG1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163918.29" ; havana_transcript "OTTHUMT00000483442.1" ; hgnc_id "HGNC:7997" ; level 2 ; orig_coord_info "chr8,32548727,32548826,+" ; protein_id "ENSP00000287842.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "AP3M2--NRG1^ENST00000287842.7" ; transcript_name "NRG1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CCDC169--SOHLH2 HAVANA gene 1027 13795 . + . FI_gene_label "CCDC169^ENSG00000242715.8" ; ID "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8" ; ccdsid "CCDS45028.1" ; exon_id "ENSE00003461130.2" ; exon_number 1 ; gene_id "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8" ; gene_name CCDC169 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016731.4" ; havana_transcript "OTTHUMT00000368255.2" ; hgnc_id "HGNC:34361" ; level 2 ; orig_coord_info "chr13,36297637,36297719,-" ; protein_id "ENSP00000239859.7" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000239859.8" ; transcript_name "CCDC169-201" ; transcript_support_level 5 ; transcript_type protein_coding
CCDC169--SOHLH2 HAVANA mRNA 1027 13795 . + . FI_gene_label "CCDC169^ENSG00000242715.8" ; ID "CCDC169--SOHLH2^ENST00000239859.8" ; Parent "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8" ; ccdsid "CCDS45028.1" ; exon_id "ENSE00003461130.2" ; exon_number 1 ; gene_id "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8" ; gene_name CCDC169 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016731.4" ; havana_transcript "OTTHUMT00000368255.2" ; hgnc_id "HGNC:34361" ; level 2 ; orig_coord_info "chr13,36297637,36297719,-" ; protein_id "ENSP00000239859.7" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000239859.8" ; transcript_name "CCDC169-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
CCDC169--SOHLH2 HAVANA gene 23170 30158 . + . FI_gene_label "SOHLH2^ENSG00000120669.16" ; ID "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16" ; ccdsid "CCDS61309.1" ; exon_id "ENSE00001482819.2" ; exon_number 1 ; gene_id "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16" ; gene_name SOHLH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016728.4" ; havana_transcript "OTTHUMT00000368257.1" ; hgnc_id "HGNC:26026" ; level 1 ; orig_coord_info "chr13,36214479,36214526,-" ; protein_id "ENSP00000326838.6" ; tag basic exp_conf CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000317764.6" ; transcript_name "SOHLH2-201" ; transcript_support_level 1 ; transcript_type protein_coding
CCDC169--SOHLH2 HAVANA mRNA 23170 30158 . + . FI_gene_label "SOHLH2^ENSG00000120669.16" ; ID "CCDC169--SOHLH2^ENST00000317764.6" ; Parent "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16" ; ccdsid "CCDS61309.1" ; exon_id "ENSE00001482819.2" ; exon_number 1 ; gene_id "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16" ; gene_name SOHLH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016728.4" ; havana_transcript "OTTHUMT00000368257.1" ; hgnc_id "HGNC:26026" ; level 1 ; orig_coord_info "chr13,36214479,36214526,-" ; protein_id "ENSP00000326838.6" ; tag basic exp_conf CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000317764.6" ; transcript_name "SOHLH2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CCDC189--MROH1 ENSEMBL gene 11430 45691 . + . FI_gene_label "MROH1^ENSG00000179832.17" ; ID "CCDC189--MROH1^MROH1^ENSG00000179832.17" ; ccdsid "CCDS47938.1" ; exon_id "ENSE00002236754.1" ; exon_number 1 ; gene_id "CCDC189--MROH1^MROH1^ENSG00000179832.17" ; gene_name MROH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165781.1" ; hgnc_id "HGNC:26958" ; level 3 ; orig_coord_info "chr8,144163827,144163848,+" ; protein_id "ENSP00000321737.5" ; tag basic appris_principal_4 CCDS ; transcript_id "CCDC189--MROH1^ENST00000326134.9" ; transcript_name "MROH1-201" ; transcript_support_level 5 ; transcript_type protein_coding
CCDC189--MROH1 ENSEMBL mRNA 11430 45691 . + . FI_gene_label "MROH1^ENSG00000179832.17" ; ID "CCDC189--MROH1^ENST00000326134.9" ; Parent "CCDC189--MROH1^MROH1^ENSG00000179832.17" ; ccdsid "CCDS47938.1" ; exon_id "ENSE00002236754.1" ; exon_number 1 ; gene_id "CCDC189--MROH1^MROH1^ENSG00000179832.17" ; gene_name MROH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165781.1" ; hgnc_id "HGNC:26958" ; level 3 ; orig_coord_info "chr8,144163827,144163848,+" ; protein_id "ENSP00000321737.5" ; tag basic appris_principal_4 CCDS ; transcript_id "CCDC189--MROH1^ENST00000326134.9" ; transcript_name "MROH1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
CCDC189--MROH1 HAVANA gene 3498 5440 . + . FI_gene_label "CCDC189^ENSG00000196118.12" ; ID "CCDC189--MROH1^CCDC189^ENSG00000196118.12" ; exon_id "ENSE00003469179.1" ; exon_number 1 ; gene_id "CCDC189--MROH1^CCDC189^ENSG00000196118.12" ; gene_name CCDC189 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167926.5" ; havana_transcript "OTTHUMT00000397083.2" ; hgnc_id "HGNC:28078" ; level 2 ; orig_coord_info "chr16,30759654,30759724,-" ; protein_id "ENSP00000442644.2" ; tag mRNA_start_NF cds_start_NF ; transcript_id "CCDC189--MROH1^ENST00000535476.6" ; transcript_name "CCDC189-202" ; transcript_support_level 5 ; transcript_type protein_coding
CCDC189--MROH1 HAVANA mRNA 3498 5440 . + . FI_gene_label "CCDC189^ENSG00000196118.12" ; ID "CCDC189--MROH1^ENST00000535476.6" ; Parent "CCDC189--MROH1^CCDC189^ENSG00000196118.12" ; exon_id "ENSE00003469179.1" ; exon_number 1 ; gene_id "CCDC189--MROH1^CCDC189^ENSG00000196118.12" ; gene_name CCDC189 ; gene_type protein_coding ; havana_gene "OTTHUMG00000167926.5" ; havana_transcript "OTTHUMT00000397083.2" ; hgnc_id "HGNC:28078" ; level 2 ; orig_coord_info "chr16,30759654,30759724,-" ; protein_id "ENSP00000442644.2" ; tag mRNA_start_NF cds_start_NF ; transcript_id "CCDC189--MROH1^ENST00000535476.6" ; transcript_name "CCDC189-202" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
CMTM8--CNTN6 HAVANA gene 1002 5170 . + . FI_gene_label "CMTM8^ENSG00000170293.9" ; ID "CMTM8--CNTN6^CMTM8^ENSG00000170293.9" ; ccdsid "CCDS2652.1" ; exon_id "ENSE00003844828.1" ; exon_number 1 ; gene_id "CMTM8--CNTN6^CMTM8^ENSG00000170293.9" ; gene_name CMTM8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130753.3" ; havana_transcript "OTTHUMT00000253253.2" ; hgnc_id "HGNC:19179" ; level 2 ; orig_coord_info "chr3,32238973,32239119,+" ; protein_id "ENSP00000307741.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CMTM8--CNTN6^ENST00000307526.4" ; transcript_name "CMTM8-201" ; transcript_support_level 1 ; transcript_type protein_coding
CMTM8--CNTN6 HAVANA mRNA 1002 5170 . + . FI_gene_label "CMTM8^ENSG00000170293.9" ; ID "CMTM8--CNTN6^ENST00000307526.4" ; Parent "CMTM8--CNTN6^CMTM8^ENSG00000170293.9" ; ccdsid "CCDS2652.1" ; exon_id "ENSE00003844828.1" ; exon_number 1 ; gene_id "CMTM8--CNTN6^CMTM8^ENSG00000170293.9" ; gene_name CMTM8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130753.3" ; havana_transcript "OTTHUMT00000253253.2" ; hgnc_id "HGNC:19179" ; level 2 ; orig_coord_info "chr3,32238973,32239119,+" ; protein_id "ENSP00000307741.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CMTM8--CNTN6^ENST00000307526.4" ; transcript_name "CMTM8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CMTM8--CNTN6 HAVANA gene 8174 33630 . + . FI_gene_label "CNTN6^ENSG00000134115.13" ; ID "CMTM8--CNTN6^CNTN6^ENSG00000134115.13" ; ccdsid "CCDS2557.1" ; exon_id "ENSE00003560125.1" ; exon_number 2 ; gene_id "CMTM8--CNTN6^CNTN6^ENSG00000134115.13" ; gene_name CNTN6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000119030.3" ; havana_transcript "OTTHUMT00000337490.1" ; hgnc_id "HGNC:2176" ; level 2 ; orig_coord_info "chr3,1148009,1148063,+" ; protein_id "ENSP00000341882.2" ; tag basic appris_principal_1 CCDS ; transcript_id "CMTM8--CNTN6^ENST00000350110.2" ; transcript_name "CNTN6-201" ; transcript_support_level 1 ; transcript_type protein_coding
CMTM8--CNTN6 HAVANA mRNA 8174 33630 . + . FI_gene_label "CNTN6^ENSG00000134115.13" ; ID "CMTM8--CNTN6^ENST00000350110.2" ; Parent "CMTM8--CNTN6^CNTN6^ENSG00000134115.13" ; ccdsid "CCDS2557.1" ; exon_id "ENSE00003560125.1" ; exon_number 2 ; gene_id "CMTM8--CNTN6^CNTN6^ENSG00000134115.13" ; gene_name CNTN6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000119030.3" ; havana_transcript "OTTHUMT00000337490.1" ; hgnc_id "HGNC:2176" ; level 2 ; orig_coord_info "chr3,1148009,1148063,+" ; protein_id "ENSP00000341882.2" ; tag basic appris_principal_1 CCDS ; transcript_id "CMTM8--CNTN6^ENST00000350110.2" ; transcript_name "CNTN6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CMTM8--RN7SL120P HAVANA gene 1002 5170 . + . FI_gene_label "CMTM8^ENSG00000170293.9" ; ID "CMTM8--RN7SL120P^CMTM8^ENSG00000170293.9" ; ccdsid "CCDS2652.1" ; exon_id "ENSE00003844828.1" ; exon_number 1 ; gene_id "CMTM8--RN7SL120P^CMTM8^ENSG00000170293.9" ; gene_name CMTM8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130753.3" ; havana_transcript "OTTHUMT00000253253.2" ; hgnc_id "HGNC:19179" ; level 2 ; orig_coord_info "chr3,32238973,32239119,+" ; protein_id "ENSP00000307741.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CMTM8--RN7SL120P^ENST00000307526.4" ; transcript_name "CMTM8-201" ; transcript_support_level 1 ; transcript_type protein_coding
CMTM8--RN7SL120P HAVANA mRNA 1002 5170 . + . FI_gene_label "CMTM8^ENSG00000170293.9" ; ID "CMTM8--RN7SL120P^ENST00000307526.4" ; Parent "CMTM8--RN7SL120P^CMTM8^ENSG00000170293.9" ; ccdsid "CCDS2652.1" ; exon_id "ENSE00003844828.1" ; exon_number 1 ; gene_id "CMTM8--RN7SL120P^CMTM8^ENSG00000170293.9" ; gene_name CMTM8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130753.3" ; havana_transcript "OTTHUMT00000253253.2" ; hgnc_id "HGNC:19179" ; level 2 ; orig_coord_info "chr3,32238973,32239119,+" ; protein_id "ENSP00000307741.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CMTM8--RN7SL120P^ENST00000307526.4" ; transcript_name "CMTM8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CUL1--RBMS3 HAVANA gene 48420 68366 . + . FI_gene_label "RBMS3^ENSG00000144642.22" ; ID "CUL1--RBMS3^RBMS3^ENSG00000144642.22" ; ccdsid "CCDS33726.1" ; exon_id "ENSE00001291257.7" ; exon_number 1 ; gene_id "CUL1--RBMS3^RBMS3^ENSG00000144642.22" ; gene_name RBMS3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155699.10" ; havana_transcript "OTTHUMT00000341302.1" ; hgnc_id "HGNC:13427" ; level 2 ; orig_coord_info "chr3,29281682,29281756,+" ; protein_id "ENSP00000273139.9" ; tag basic appris_principal_4 CCDS ; transcript_id "CUL1--RBMS3^ENST00000273139.13" ; transcript_name "RBMS3-201" ; transcript_support_level 1 ; transcript_type protein_coding
CUL1--RBMS3 HAVANA mRNA 48420 68366 . + . FI_gene_label "RBMS3^ENSG00000144642.22" ; ID "CUL1--RBMS3^ENST00000273139.13" ; Parent "CUL1--RBMS3^RBMS3^ENSG00000144642.22" ; ccdsid "CCDS33726.1" ; exon_id "ENSE00001291257.7" ; exon_number 1 ; gene_id "CUL1--RBMS3^RBMS3^ENSG00000144642.22" ; gene_name RBMS3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155699.10" ; havana_transcript "OTTHUMT00000341302.1" ; hgnc_id "HGNC:13427" ; level 2 ; orig_coord_info "chr3,29281682,29281756,+" ; protein_id "ENSP00000273139.9" ; tag basic appris_principal_4 CCDS ; transcript_id "CUL1--RBMS3^ENST00000273139.13" ; transcript_name "RBMS3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CUL1--RBMS3 HAVANA gene 1990 24472 . + . FI_gene_label "CUL1^ENSG00000055130.17" ; ID "CUL1--RBMS3^CUL1^ENSG00000055130.17" ; ccdsid "CCDS34772.1" ; exon_id "ENSE00000909624.6" ; exon_number 2 ; gene_id "CUL1--RBMS3^CUL1^ENSG00000055130.17" ; gene_name CUL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152776.7" ; havana_transcript "OTTHUMT00000467785.2" ; hgnc_id "HGNC:2551" ; level 2 ; orig_coord_info "chr7,148730123,148730262,+" ; protein_id "ENSP00000326804.3" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "CUL1--RBMS3^ENST00000325222.9" ; transcript_name "CUL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CUL1--RBMS3 HAVANA mRNA 1990 24472 . + . FI_gene_label "CUL1^ENSG00000055130.17" ; ID "CUL1--RBMS3^ENST00000325222.9" ; Parent "CUL1--RBMS3^CUL1^ENSG00000055130.17" ; ccdsid "CCDS34772.1" ; exon_id "ENSE00000909624.6" ; exon_number 2 ; gene_id "CUL1--RBMS3^CUL1^ENSG00000055130.17" ; gene_name CUL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152776.7" ; havana_transcript "OTTHUMT00000467785.2" ; hgnc_id "HGNC:2551" ; level 2 ; orig_coord_info "chr7,148730123,148730262,+" ; protein_id "ENSP00000326804.3" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "CUL1--RBMS3^ENST00000325222.9" ; transcript_name "CUL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
EZH1--TBC1D16 HAVANA gene 26482 49669 . + . FI_gene_label "TBC1D16^ENSG00000167291.16" ; ID "EZH1--TBC1D16^TBC1D16^ENSG00000167291.16" ; ccdsid "CCDS11766.1" ; exon_id "ENSE00001382516.1" ; exon_number 2 ; gene_id "EZH1--TBC1D16^TBC1D16^ENSG00000167291.16" ; gene_name TBC1D16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177489.5" ; havana_transcript "OTTHUMT00000437145.2" ; hgnc_id "HGNC:28356" ; level 2 ; orig_coord_info "chr17,80013367,80013547,-" ; protein_id "ENSP00000309794.2" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "EZH1--TBC1D16^ENST00000310924.7" ; transcript_name "TBC1D16-201" ; transcript_support_level 1 ; transcript_type protein_coding
EZH1--TBC1D16 HAVANA mRNA 26482 49669 . + . FI_gene_label "TBC1D16^ENSG00000167291.16" ; ID "EZH1--TBC1D16^ENST00000310924.7" ; Parent "EZH1--TBC1D16^TBC1D16^ENSG00000167291.16" ; ccdsid "CCDS11766.1" ; exon_id "ENSE00001382516.1" ; exon_number 2 ; gene_id "EZH1--TBC1D16^TBC1D16^ENSG00000167291.16" ; gene_name TBC1D16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177489.5" ; havana_transcript "OTTHUMT00000437145.2" ; hgnc_id "HGNC:28356" ; level 2 ; orig_coord_info "chr17,80013367,80013547,-" ; protein_id "ENSP00000309794.2" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "EZH1--TBC1D16^ENST00000310924.7" ; transcript_name "TBC1D16-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
EZH1--TBC1D16 HAVANA gene 1008 23481 . + . FI_gene_label "EZH1^ENSG00000108799.13" ; ID "EZH1--TBC1D16^EZH1^ENSG00000108799.13" ; ccdsid "CCDS82130.1" ; exon_id "ENSE00003458786.1" ; exon_number 3 ; gene_id "EZH1--TBC1D16^EZH1^ENSG00000108799.13" ; gene_name EZH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180645.3" ; havana_transcript "OTTHUMT00000452348.1" ; hgnc_id "HGNC:3526" ; level 2 ; orig_coord_info "chr17,42728825,42728941,-" ; protein_id "ENSP00000407869.2" ; tag basic CCDS ; transcript_id "EZH1--TBC1D16^ENST00000415827.6" ; transcript_name "EZH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
EZH1--TBC1D16 HAVANA mRNA 1008 23481 . + . FI_gene_label "EZH1^ENSG00000108799.13" ; ID "EZH1--TBC1D16^ENST00000415827.6" ; Parent "EZH1--TBC1D16^EZH1^ENSG00000108799.13" ; ccdsid "CCDS82130.1" ; exon_id "ENSE00003458786.1" ; exon_number 3 ; gene_id "EZH1--TBC1D16^EZH1^ENSG00000108799.13" ; gene_name EZH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180645.3" ; havana_transcript "OTTHUMT00000452348.1" ; hgnc_id "HGNC:3526" ; level 2 ; orig_coord_info "chr17,42728825,42728941,-" ; protein_id "ENSP00000407869.2" ; tag basic CCDS ; transcript_id "EZH1--TBC1D16^ENST00000415827.6" ; transcript_name "EZH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GBE1--FOXP1 HAVANA gene 25506 61788 . + . FI_gene_label "FOXP1^ENSG00000114861.23" ; ID "GBE1--FOXP1^FOXP1^ENSG00000114861.23" ; ccdsid "CCDS33785.1" ; exon_id "ENSE00002710535.1" ; exon_number 6 ; gene_id "GBE1--FOXP1^FOXP1^ENSG00000114861.23" ; gene_name FOXP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158803.19" ; havana_transcript "OTTHUMT00000352262.1" ; hgnc_id "HGNC:3823" ; level 2 ; orig_coord_info "chr3,71198202,71198381,-" ; protein_id "ENSP00000318721.3" ; tag basic CCDS ; transcript_id "GBE1--FOXP1^ENST00000318779.7" ; transcript_name "FOXP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
GBE1--FOXP1 HAVANA mRNA 25506 61788 . + . FI_gene_label "FOXP1^ENSG00000114861.23" ; ID "GBE1--FOXP1^ENST00000318779.7" ; Parent "GBE1--FOXP1^FOXP1^ENSG00000114861.23" ; ccdsid "CCDS33785.1" ; exon_id "ENSE00002710535.1" ; exon_number 6 ; gene_id "GBE1--FOXP1^FOXP1^ENSG00000114861.23" ; gene_name FOXP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158803.19" ; havana_transcript "OTTHUMT00000352262.1" ; hgnc_id "HGNC:3823" ; level 2 ; orig_coord_info "chr3,71198202,71198381,-" ; protein_id "ENSP00000318721.3" ; tag basic CCDS ; transcript_id "GBE1--FOXP1^ENST00000318779.7" ; transcript_name "FOXP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GBE1--FOXP1 HAVANA gene 1001 22455 . + . FI_gene_label "GBE1^ENSG00000114480.13" ; ID "GBE1--FOXP1^GBE1^ENSG00000114480.13" ; ccdsid "CCDS54612.1" ; exon_id "ENSE00001227661.6" ; exon_number 1 ; gene_id "GBE1--FOXP1^GBE1^ENSG00000114480.13" ; gene_name GBE1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158978.3" ; havana_transcript "OTTHUMT00000352760.3" ; hgnc_id "HGNC:4180" ; level 2 ; orig_coord_info "chr3,81761375,81761517,-" ; protein_id "ENSP00000410833.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GBE1--FOXP1^ENST00000429644.7" ; transcript_name "GBE1-201" ; transcript_support_level 1 ; transcript_type protein_coding
GBE1--FOXP1 HAVANA mRNA 1001 22455 . + . FI_gene_label "GBE1^ENSG00000114480.13" ; ID "GBE1--FOXP1^ENST00000429644.7" ; Parent "GBE1--FOXP1^GBE1^ENSG00000114480.13" ; ccdsid "CCDS54612.1" ; exon_id "ENSE00001227661.6" ; exon_number 1 ; gene_id "GBE1--FOXP1^GBE1^ENSG00000114480.13" ; gene_name GBE1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158978.3" ; havana_transcript "OTTHUMT00000352760.3" ; hgnc_id "HGNC:4180" ; level 2 ; orig_coord_info "chr3,81761375,81761517,-" ; protein_id "ENSP00000410833.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GBE1--FOXP1^ENST00000429644.7" ; transcript_name "GBE1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GSG1L--AJ003147.2 HAVANA gene 3688 12059 . + . FI_gene_label "GSG1L^ENSG00000169181.13" ; ID "GSG1L--AJ003147.2^GSG1L^ENSG00000169181.13" ; ccdsid "CCDS10631.1" ; exon_id "ENSE00003551945.1" ; exon_number 2 ; gene_id "GSG1L--AJ003147.2^GSG1L^ENSG00000169181.13" ; gene_name GSG1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000131676.6" ; havana_transcript "OTTHUMT00000254579.1" ; hgnc_id "HGNC:28283" ; level 2 ; orig_coord_info "chr16,27884486,27884570,-" ; protein_id "ENSP00000370282.3" ; tag basic CCDS ; transcript_id "GSG1L--AJ003147.2^ENST00000380897.7" ; transcript_name "GSG1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
GSG1L--AJ003147.2 HAVANA mRNA 3688 12059 . + . FI_gene_label "GSG1L^ENSG00000169181.13" ; ID "GSG1L--AJ003147.2^ENST00000380897.7" ; Parent "GSG1L--AJ003147.2^GSG1L^ENSG00000169181.13" ; ccdsid "CCDS10631.1" ; exon_id "ENSE00003551945.1" ; exon_number 2 ; gene_id "GSG1L--AJ003147.2^GSG1L^ENSG00000169181.13" ; gene_name GSG1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000131676.6" ; havana_transcript "OTTHUMT00000254579.1" ; hgnc_id "HGNC:28283" ; level 2 ; orig_coord_info "chr16,27884486,27884570,-" ; protein_id "ENSP00000370282.3" ; tag basic CCDS ; transcript_id "GSG1L--AJ003147.2^ENST00000380897.7" ; transcript_name "GSG1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HSD17B7P2--RAD18 HAVANA gene 13532 32033 . + . FI_gene_label "RAD18^ENSG00000070950.10" ; ID "HSD17B7P2--RAD18^RAD18^ENSG00000070950.10" ; ccdsid "CCDS2571.1" ; exon_id "ENSE00003462847.2" ; exon_number 1 ; gene_id "HSD17B7P2--RAD18^RAD18^ENSG00000070950.10" ; gene_name RAD18 ; gene_type protein_coding ; havana_gene "OTTHUMG00000090545.6" ; havana_transcript "OTTHUMT00000207071.3" ; hgnc_id "HGNC:18278" ; level 2 ; orig_coord_info "chr3,8963335,8963385,-" ; protein_id "ENSP00000264926.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HSD17B7P2--RAD18^ENST00000264926.7" ; transcript_name "RAD18-201" ; transcript_support_level 1 ; transcript_type protein_coding
HSD17B7P2--RAD18 HAVANA mRNA 13532 32033 . + . FI_gene_label "RAD18^ENSG00000070950.10" ; ID "HSD17B7P2--RAD18^ENST00000264926.7" ; Parent "HSD17B7P2--RAD18^RAD18^ENSG00000070950.10" ; ccdsid "CCDS2571.1" ; exon_id "ENSE00003462847.2" ; exon_number 1 ; gene_id "HSD17B7P2--RAD18^RAD18^ENSG00000070950.10" ; gene_name RAD18 ; gene_type protein_coding ; havana_gene "OTTHUMG00000090545.6" ; havana_transcript "OTTHUMT00000207071.3" ; hgnc_id "HGNC:18278" ; level 2 ; orig_coord_info "chr3,8963335,8963385,-" ; protein_id "ENSP00000264926.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HSD17B7P2--RAD18^ENST00000264926.7" ; transcript_name "RAD18-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
IKZF2--LINC01953 HAVANA gene 3090 19227 . + . FI_gene_label "IKZF2^ENSG00000030419.16" ; ID "IKZF2--LINC01953^IKZF2^ENSG00000030419.16" ; exon_id "ENSE00003626229.1" ; exon_number 1 ; gene_id "IKZF2--LINC01953^IKZF2^ENSG00000030419.16" ; gene_name IKZF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133005.7" ; havana_transcript "OTTHUMT00000256594.1" ; hgnc_id "HGNC:13177" ; level 2 ; orig_coord_info "chr2,213150181,213150183,-" ; protein_id "ENSP00000342876.2" ; tag basic appris_alternative_1 ; transcript_id "IKZF2--LINC01953^ENST00000342002.6" ; transcript_name "IKZF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
IKZF2--LINC01953 HAVANA mRNA 3090 19227 . + . FI_gene_label "IKZF2^ENSG00000030419.16" ; ID "IKZF2--LINC01953^ENST00000342002.6" ; Parent "IKZF2--LINC01953^IKZF2^ENSG00000030419.16" ; exon_id "ENSE00003626229.1" ; exon_number 1 ; gene_id "IKZF2--LINC01953^IKZF2^ENSG00000030419.16" ; gene_name IKZF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133005.7" ; havana_transcript "OTTHUMT00000256594.1" ; hgnc_id "HGNC:13177" ; level 2 ; orig_coord_info "chr2,213150181,213150183,-" ; protein_id "ENSP00000342876.2" ; tag basic appris_alternative_1 ; transcript_id "IKZF2--LINC01953^ENST00000342002.6" ; transcript_name "IKZF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LRMDA--ADK HAVANA gene 30493 51985 . + . FI_gene_label "ADK^ENSG00000156110.15" ; ID "LRMDA--ADK^ADK^ENSG00000156110.15" ; exon_id "ENSE00001248887.4" ; exon_number 1 ; gene_id "LRMDA--ADK^ADK^ENSG00000156110.15" ; gene_name ADK ; gene_type protein_coding ; havana_gene "OTTHUMG00000018506.4" ; havana_transcript "OTTHUMT00000529318.1" ; hgnc_id "HGNC:257" ; level 2 ; orig_coord_info "chr10,74151279,74151343,+" ; protein_id "ENSP00000286621.3" ; tag RNA_Seq_supported_only basic ; transcript_id "LRMDA--ADK^ENST00000286621.7" ; transcript_name "ADK-201" ; transcript_support_level 1 ; transcript_type protein_coding
LRMDA--ADK HAVANA mRNA 30493 51985 . + . FI_gene_label "ADK^ENSG00000156110.15" ; ID "LRMDA--ADK^ENST00000286621.7" ; Parent "LRMDA--ADK^ADK^ENSG00000156110.15" ; exon_id "ENSE00001248887.4" ; exon_number 1 ; gene_id "LRMDA--ADK^ADK^ENSG00000156110.15" ; gene_name ADK ; gene_type protein_coding ; havana_gene "OTTHUMG00000018506.4" ; havana_transcript "OTTHUMT00000529318.1" ; hgnc_id "HGNC:257" ; level 2 ; orig_coord_info "chr10,74151279,74151343,+" ; protein_id "ENSP00000286621.3" ; tag RNA_Seq_supported_only basic ; transcript_id "LRMDA--ADK^ENST00000286621.7" ; transcript_name "ADK-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LRMDA--ADK HAVANA gene 5410 24677 . + . FI_gene_label "LRMDA^ENSG00000148655.15" ; ID "LRMDA--ADK^LRMDA^ENSG00000148655.15" ; ccdsid "CCDS7351.1" ; exon_id "ENSE00001457957.1" ; exon_number 1 ; gene_id "LRMDA--ADK^LRMDA^ENSG00000148655.15" ; gene_name LRMDA ; gene_type protein_coding ; havana_gene "OTTHUMG00000018532.5" ; havana_transcript "OTTHUMT00000048839.1" ; hgnc_id "HGNC:23405" ; level 2 ; orig_coord_info "chr10,75782976,75783022,+" ; protein_id "ENSP00000361577.1" ; tag basic CCDS ; transcript_id "LRMDA--ADK^ENST00000372499.5" ; transcript_name "LRMDA-201" ; transcript_support_level 1 ; transcript_type protein_coding
LRMDA--ADK HAVANA mRNA 5410 24677 . + . FI_gene_label "LRMDA^ENSG00000148655.15" ; ID "LRMDA--ADK^ENST00000372499.5" ; Parent "LRMDA--ADK^LRMDA^ENSG00000148655.15" ; ccdsid "CCDS7351.1" ; exon_id "ENSE00001457957.1" ; exon_number 1 ; gene_id "LRMDA--ADK^LRMDA^ENSG00000148655.15" ; gene_name LRMDA ; gene_type protein_coding ; havana_gene "OTTHUMG00000018532.5" ; havana_transcript "OTTHUMT00000048839.1" ; hgnc_id "HGNC:23405" ; level 2 ; orig_coord_info "chr10,75782976,75783022,+" ; protein_id "ENSP00000361577.1" ; tag basic CCDS ; transcript_id "LRMDA--ADK^ENST00000372499.5" ; transcript_name "LRMDA-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
N4BP2L2--LITAFD HAVANA gene 1104 21623 . + . FI_gene_label "N4BP2L2^ENSG00000244754.9" ; ID "N4BP2L2--LITAFD^N4BP2L2^ENSG00000244754.9" ; ccdsid "CCDS9346.1" ; exon_id "ENSE00003755930.1" ; exon_number 2 ; gene_id "N4BP2L2--LITAFD^N4BP2L2^ENSG00000244754.9" ; gene_name N4BP2L2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016700.22" ; havana_transcript "OTTHUMT00000044421.2" ; hgnc_id "HGNC:26916" ; level 2 ; orig_coord_info "chr13,32535769,32537027,-" ; protein_id "ENSP00000267068.3" ; tag basic appris_principal_2 CCDS ; transcript_id "N4BP2L2--LITAFD^ENST00000267068.5" ; transcript_name "N4BP2L2-201" ; transcript_support_level 1 ; transcript_type protein_coding
N4BP2L2--LITAFD HAVANA mRNA 1104 21623 . + . FI_gene_label "N4BP2L2^ENSG00000244754.9" ; ID "N4BP2L2--LITAFD^ENST00000267068.5" ; Parent "N4BP2L2--LITAFD^N4BP2L2^ENSG00000244754.9" ; ccdsid "CCDS9346.1" ; exon_id "ENSE00003755930.1" ; exon_number 2 ; gene_id "N4BP2L2--LITAFD^N4BP2L2^ENSG00000244754.9" ; gene_name N4BP2L2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016700.22" ; havana_transcript "OTTHUMT00000044421.2" ; hgnc_id "HGNC:26916" ; level 2 ; orig_coord_info "chr13,32535769,32537027,-" ; protein_id "ENSP00000267068.3" ; tag basic appris_principal_2 CCDS ; transcript_id "N4BP2L2--LITAFD^ENST00000267068.5" ; transcript_name "N4BP2L2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
N4BP2L2--LITAFD HAVANA gene 36952 40621 . + . FI_gene_label "LITAFD^ENSG00000283516.1" ; ID "N4BP2L2--LITAFD^LITAFD^ENSG00000283516.1" ; exon_id "ENSE00003794227.1" ; exon_number 3 ; gene_id "N4BP2L2--LITAFD^LITAFD^ENSG00000283516.1" ; gene_name LITAFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000176581.3" ; havana_transcript "OTTHUMT00000490125.1" ; hgnc_id "HGNC:53927" ; level 2 ; orig_coord_info "chr16,8884356,8884465,+" ; protein_id "ENSP00000490685.1" ; tag alternative_5_UTR basic appris_principal_1 ; transcript_id "N4BP2L2--LITAFD^ENST00000636296.1" ; transcript_name "LITAFD-201" ; transcript_support_level 5 ; transcript_type protein_coding
N4BP2L2--LITAFD HAVANA mRNA 36952 40621 . + . FI_gene_label "LITAFD^ENSG00000283516.1" ; ID "N4BP2L2--LITAFD^ENST00000636296.1" ; Parent "N4BP2L2--LITAFD^LITAFD^ENSG00000283516.1" ; exon_id "ENSE00003794227.1" ; exon_number 3 ; gene_id "N4BP2L2--LITAFD^LITAFD^ENSG00000283516.1" ; gene_name LITAFD ; gene_type protein_coding ; havana_gene "OTTHUMG00000176581.3" ; havana_transcript "OTTHUMT00000490125.1" ; hgnc_id "HGNC:53927" ; level 2 ; orig_coord_info "chr16,8884356,8884465,+" ; protein_id "ENSP00000490685.1" ; tag alternative_5_UTR basic appris_principal_1 ; transcript_id "N4BP2L2--LITAFD^ENST00000636296.1" ; transcript_name "LITAFD-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:
PCDHA3--PCDHA13 HAVANA gene 8595 17035 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA3--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 "PCDHA3--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA3--PCDHA13 HAVANA mRNA 8595 17035 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA3--PCDHA13^ENST00000289272.3" ; Parent "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA3--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 "PCDHA3--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHA13 HAVANA gene 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHA13^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA3--PCDHA13 HAVANA mRNA 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHA13^ENST00000532566.3" ; Parent "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHA13^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC1 HAVANA gene 8595 18610 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA3--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 "PCDHA3--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA3--PCDHAC1 HAVANA mRNA 8595 18610 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA3--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA3--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 "PCDHA3--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC1 HAVANA gene 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC1^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA3--PCDHAC1 HAVANA mRNA 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC1^ENST00000532566.3" ; Parent "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC1^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC2 HAVANA gene 8601 19336 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA3--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 "PCDHA3--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA3--PCDHAC2 HAVANA mRNA 8601 19336 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA3--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA3--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 "PCDHA3--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC2 HAVANA gene 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC2^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA3--PCDHAC2 HAVANA mRNA 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC2^ENST00000532566.3" ; Parent "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC2^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
STX16--NPEPL1 HAVANA gene 1021 7754 . + . FI_gene_label "STX16^ENSG00000124222.22" ; ID "STX16--NPEPL1^STX16^ENSG00000124222.22" ; exon_id "ENSE00003459479.1" ; exon_number 3 ; gene_id "STX16--NPEPL1^STX16^ENSG00000124222.22" ; gene_name STX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033084.8" ; havana_transcript "OTTHUMT00000267911.2" ; hgnc_id "HGNC:11431" ; level 2 ; orig_coord_info "chr20,58667505,58667597,+" ; protein_id "ENSP00000312086.8" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "STX16--NPEPL1^ENST00000312283.12" ; transcript_name "STX16-201" ; transcript_support_level 3 ; transcript_type protein_coding
STX16--NPEPL1 HAVANA mRNA 1021 7754 . + . FI_gene_label "STX16^ENSG00000124222.22" ; ID "STX16--NPEPL1^ENST00000312283.12" ; Parent "STX16--NPEPL1^STX16^ENSG00000124222.22" ; exon_id "ENSE00003459479.1" ; exon_number 3 ; gene_id "STX16--NPEPL1^STX16^ENSG00000124222.22" ; gene_name STX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033084.8" ; havana_transcript "OTTHUMT00000267911.2" ; hgnc_id "HGNC:11431" ; level 2 ; orig_coord_info "chr20,58667505,58667597,+" ; protein_id "ENSP00000312086.8" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "STX16--NPEPL1^ENST00000312283.12" ; transcript_name "STX16-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
STX16--NPEPL1 HAVANA gene 18353 29399 . + . FI_gene_label "NPEPL1^ENSG00000215440.12" ; ID "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; ccdsid "CCDS46621.1" ; exon_id "ENSE00001408052.7" ; exon_number 1 ; gene_id "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; gene_name NPEPL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033060.8" ; havana_transcript "OTTHUMT00000080402.7" ; hgnc_id "HGNC:16244" ; level 2 ; orig_coord_info "chr20,58692901,58693050,+" ; protein_id "ENSP00000348395.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX16--NPEPL1^ENST00000356091.11" ; transcript_name "NPEPL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
STX16--NPEPL1 HAVANA mRNA 18353 29399 . + . FI_gene_label "NPEPL1^ENSG00000215440.12" ; ID "STX16--NPEPL1^ENST00000356091.11" ; Parent "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; ccdsid "CCDS46621.1" ; exon_id "ENSE00001408052.7" ; exon_number 1 ; gene_id "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; gene_name NPEPL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033060.8" ; havana_transcript "OTTHUMT00000080402.7" ; hgnc_id "HGNC:16244" ; level 2 ; orig_coord_info "chr20,58692901,58693050,+" ; protein_id "ENSP00000348395.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX16--NPEPL1^ENST00000356091.11" ; transcript_name "NPEPL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SUCLG2--CNTN3 HAVANA gene 18953 43144 . + . FI_gene_label "CNTN3^ENSG00000113805.8" ; ID "SUCLG2--CNTN3^CNTN3^ENSG00000113805.8" ; ccdsid "CCDS33790.1" ; exon_id "ENSE00001498194.2" ; exon_number 1 ; gene_id "SUCLG2--CNTN3^CNTN3^ENSG00000113805.8" ; gene_name CNTN3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158813.1" ; havana_transcript "OTTHUMT00000352306.1" ; hgnc_id "HGNC:2173" ; level 2 ; orig_coord_info "chr3,74521058,74521112,-" ; protein_id "ENSP00000263665.6" ; tag basic appris_principal_1 CCDS ; transcript_id "SUCLG2--CNTN3^ENST00000263665.6" ; transcript_name "CNTN3-201" ; transcript_support_level 1 ; transcript_type protein_coding
SUCLG2--CNTN3 HAVANA mRNA 18953 43144 . + . FI_gene_label "CNTN3^ENSG00000113805.8" ; ID "SUCLG2--CNTN3^ENST00000263665.6" ; Parent "SUCLG2--CNTN3^CNTN3^ENSG00000113805.8" ; ccdsid "CCDS33790.1" ; exon_id "ENSE00001498194.2" ; exon_number 1 ; gene_id "SUCLG2--CNTN3^CNTN3^ENSG00000113805.8" ; gene_name CNTN3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158813.1" ; havana_transcript "OTTHUMT00000352306.1" ; hgnc_id "HGNC:2173" ; level 2 ; orig_coord_info "chr3,74521058,74521112,-" ; protein_id "ENSP00000263665.6" ; tag basic appris_principal_1 CCDS ; transcript_id "SUCLG2--CNTN3^ENST00000263665.6" ; transcript_name "CNTN3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SUCLG2--CNTN3 HAVANA gene 1001 14643 . + . FI_gene_label "SUCLG2^ENSG00000172340.15" ; ID "SUCLG2--CNTN3^SUCLG2^ENSG00000172340.15" ; ccdsid "CCDS43104.1" ; exon_id "ENSE00002701843.2" ; exon_number 1 ; gene_id "SUCLG2--CNTN3^SUCLG2^ENSG00000172340.15" ; gene_name SUCLG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158740.1" ; havana_transcript "OTTHUMT00000351993.1" ; hgnc_id "HGNC:11450" ; level 2 ; orig_coord_info "chr3,67654503,67654586,-" ; protein_id "ENSP00000307432.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SUCLG2--CNTN3^ENST00000307227.10" ; transcript_name "SUCLG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
SUCLG2--CNTN3 HAVANA mRNA 1001 14643 . + . FI_gene_label "SUCLG2^ENSG00000172340.15" ; ID "SUCLG2--CNTN3^ENST00000307227.10" ; Parent "SUCLG2--CNTN3^SUCLG2^ENSG00000172340.15" ; ccdsid "CCDS43104.1" ; exon_id "ENSE00002701843.2" ; exon_number 1 ; gene_id "SUCLG2--CNTN3^SUCLG2^ENSG00000172340.15" ; gene_name SUCLG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158740.1" ; havana_transcript "OTTHUMT00000351993.1" ; hgnc_id "HGNC:11450" ; level 2 ; orig_coord_info "chr3,67654503,67654586,-" ; protein_id "ENSP00000307432.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SUCLG2--CNTN3^ENST00000307227.10" ; transcript_name "SUCLG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SUCLG2--NIPA2P2 HAVANA gene 1001 14643 . + . FI_gene_label "SUCLG2^ENSG00000172340.15" ; ID "SUCLG2--NIPA2P2^SUCLG2^ENSG00000172340.15" ; ccdsid "CCDS43104.1" ; exon_id "ENSE00002701843.2" ; exon_number 1 ; gene_id "SUCLG2--NIPA2P2^SUCLG2^ENSG00000172340.15" ; gene_name SUCLG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158740.1" ; havana_transcript "OTTHUMT00000351993.1" ; hgnc_id "HGNC:11450" ; level 2 ; orig_coord_info "chr3,67654503,67654586,-" ; protein_id "ENSP00000307432.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SUCLG2--NIPA2P2^ENST00000307227.10" ; transcript_name "SUCLG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
SUCLG2--NIPA2P2 HAVANA mRNA 1001 14643 . + . FI_gene_label "SUCLG2^ENSG00000172340.15" ; ID "SUCLG2--NIPA2P2^ENST00000307227.10" ; Parent "SUCLG2--NIPA2P2^SUCLG2^ENSG00000172340.15" ; ccdsid "CCDS43104.1" ; exon_id "ENSE00002701843.2" ; exon_number 1 ; gene_id "SUCLG2--NIPA2P2^SUCLG2^ENSG00000172340.15" ; gene_name SUCLG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158740.1" ; havana_transcript "OTTHUMT00000351993.1" ; hgnc_id "HGNC:11450" ; level 2 ; orig_coord_info "chr3,67654503,67654586,-" ; protein_id "ENSP00000307432.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SUCLG2--NIPA2P2^ENST00000307227.10" ; transcript_name "SUCLG2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SUCLG2-AS1--PTPRG HAVANA gene 28827 67716 . + . FI_gene_label "PTPRG^ENSG00000144724.20" ; ID "SUCLG2-AS1--PTPRG^PTPRG^ENSG00000144724.20" ; exon_id "ENSE00001873446.1" ; exon_number 1 ; gene_id "SUCLG2-AS1--PTPRG^PTPRG^ENSG00000144724.20" ; gene_name PTPRG ; gene_type protein_coding ; havana_gene "OTTHUMG00000158660.2" ; havana_transcript "OTTHUMT00000351675.1" ; hgnc_id "HGNC:9671" ; level 2 ; orig_coord_info "chr3,61562288,61562372,+" ; protein_id "ENSP00000295874.10" ; tag basic appris_alternative_2 ; transcript_id "SUCLG2-AS1--PTPRG^ENST00000295874.14" ; transcript_name "PTPRG-201" ; transcript_support_level 1 ; transcript_type protein_coding
SUCLG2-AS1--PTPRG HAVANA mRNA 28827 67716 . + . FI_gene_label "PTPRG^ENSG00000144724.20" ; ID "SUCLG2-AS1--PTPRG^ENST00000295874.14" ; Parent "SUCLG2-AS1--PTPRG^PTPRG^ENSG00000144724.20" ; exon_id "ENSE00001873446.1" ; exon_number 1 ; gene_id "SUCLG2-AS1--PTPRG^PTPRG^ENSG00000144724.20" ; gene_name PTPRG ; gene_type protein_coding ; havana_gene "OTTHUMG00000158660.2" ; havana_transcript "OTTHUMT00000351675.1" ; hgnc_id "HGNC:9671" ; level 2 ; orig_coord_info "chr3,61562288,61562372,+" ; protein_id "ENSP00000295874.10" ; tag basic appris_alternative_2 ; transcript_id "SUCLG2-AS1--PTPRG^ENST00000295874.14" ; transcript_name "PTPRG-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TCF4--HNRNPA1P57 HAVANA gene 8468 68064 . + . FI_gene_label "TCF4^ENSG00000196628.20" ; ID "TCF4--HNRNPA1P57^TCF4^ENSG00000196628.20" ; ccdsid "CCDS42438.1" ; exon_id "ENSE00003540131.1" ; exon_number 2 ; gene_id "TCF4--HNRNPA1P57^TCF4^ENSG00000196628.20" ; gene_name TCF4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132713.34" ; havana_transcript "OTTHUMT00000421628.6" ; hgnc_id "HGNC:11634" ; level 2 ; orig_coord_info "chr18,55587045,55587116,-" ; protein_id "ENSP00000346440.3" ; tag basic MANE_Select appris_alternative_1 CCDS ; transcript_id "TCF4--HNRNPA1P57^ENST00000354452.8" ; transcript_name "TCF4-201" ; transcript_support_level 5 ; transcript_type protein_coding
TCF4--HNRNPA1P57 HAVANA mRNA 8468 68064 . + . FI_gene_label "TCF4^ENSG00000196628.20" ; ID "TCF4--HNRNPA1P57^ENST00000354452.8" ; Parent "TCF4--HNRNPA1P57^TCF4^ENSG00000196628.20" ; ccdsid "CCDS42438.1" ; exon_id "ENSE00003540131.1" ; exon_number 2 ; gene_id "TCF4--HNRNPA1P57^TCF4^ENSG00000196628.20" ; gene_name TCF4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132713.34" ; havana_transcript "OTTHUMT00000421628.6" ; hgnc_id "HGNC:11634" ; level 2 ; orig_coord_info "chr18,55587045,55587116,-" ; protein_id "ENSP00000346440.3" ; tag basic MANE_Select appris_alternative_1 CCDS ; transcript_id "TCF4--HNRNPA1P57^ENST00000354452.8" ; transcript_name "TCF4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
TDRD1--HECTD2 ENSEMBL gene 1001 25359 . + . FI_gene_label "TDRD1^ENSG00000095627.9" ; ID "TDRD1--HECTD2^TDRD1^ENSG00000095627.9" ; ccdsid "CCDS7588.1" ; exon_id "ENSE00003519815.1" ; exon_number 2 ; gene_id "TDRD1--HECTD2^TDRD1^ENSG00000095627.9" ; gene_name TDRD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019083.2" ; hgnc_id "HGNC:11712" ; level 3 ; orig_coord_info "chr10,114187832,114188156,+" ; protein_id "ENSP00000251864.2" ; tag basic appris_principal_2 CCDS ; transcript_id "TDRD1--HECTD2^ENST00000251864.6" ; transcript_name "TDRD1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TDRD1--HECTD2 ENSEMBL mRNA 1001 25359 . + . FI_gene_label "TDRD1^ENSG00000095627.9" ; ID "TDRD1--HECTD2^ENST00000251864.6" ; Parent "TDRD1--HECTD2^TDRD1^ENSG00000095627.9" ; ccdsid "CCDS7588.1" ; exon_id "ENSE00003519815.1" ; exon_number 2 ; gene_id "TDRD1--HECTD2^TDRD1^ENSG00000095627.9" ; gene_name TDRD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019083.2" ; hgnc_id "HGNC:11712" ; level 3 ; orig_coord_info "chr10,114187832,114188156,+" ; protein_id "ENSP00000251864.2" ; tag basic appris_principal_2 CCDS ; transcript_id "TDRD1--HECTD2^ENST00000251864.6" ; transcript_name "TDRD1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TDRD1--HECTD2 HAVANA gene 29424 56994 . + . FI_gene_label "HECTD2^ENSG00000165338.17" ; ID "TDRD1--HECTD2^HECTD2^ENSG00000165338.17" ; ccdsid "CCDS7414.1" ; exon_id "ENSE00001881111.1" ; exon_number 1 ; gene_id "TDRD1--HECTD2^HECTD2^ENSG00000165338.17" ; gene_name HECTD2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018742.6" ; havana_transcript "OTTHUMT00000098620.1" ; hgnc_id "HGNC:26736" ; level 2 ; orig_coord_info "chr10,91410439,91410576,+" ; protein_id "ENSP00000298068.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TDRD1--HECTD2^ENST00000298068.10" ; transcript_name "HECTD2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TDRD1--HECTD2 HAVANA mRNA 29424 56994 . + . FI_gene_label "HECTD2^ENSG00000165338.17" ; ID "TDRD1--HECTD2^ENST00000298068.10" ; Parent "TDRD1--HECTD2^HECTD2^ENSG00000165338.17" ; ccdsid "CCDS7414.1" ; exon_id "ENSE00001881111.1" ; exon_number 1 ; gene_id "TDRD1--HECTD2^HECTD2^ENSG00000165338.17" ; gene_name HECTD2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018742.6" ; havana_transcript "OTTHUMT00000098620.1" ; hgnc_id "HGNC:26736" ; level 2 ; orig_coord_info "chr10,91410439,91410576,+" ; protein_id "ENSP00000298068.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TDRD1--HECTD2^ENST00000298068.10" ; transcript_name "HECTD2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TDRD1--RPS27P1 ENSEMBL gene 1001 25359 . + . FI_gene_label "TDRD1^ENSG00000095627.9" ; ID "TDRD1--RPS27P1^TDRD1^ENSG00000095627.9" ; ccdsid "CCDS7588.1" ; exon_id "ENSE00003519815.1" ; exon_number 2 ; gene_id "TDRD1--RPS27P1^TDRD1^ENSG00000095627.9" ; gene_name TDRD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019083.2" ; hgnc_id "HGNC:11712" ; level 3 ; orig_coord_info "chr10,114187832,114188156,+" ; protein_id "ENSP00000251864.2" ; tag basic appris_principal_2 CCDS ; transcript_id "TDRD1--RPS27P1^ENST00000251864.6" ; transcript_name "TDRD1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TDRD1--RPS27P1 ENSEMBL mRNA 1001 25359 . + . FI_gene_label "TDRD1^ENSG00000095627.9" ; ID "TDRD1--RPS27P1^ENST00000251864.6" ; Parent "TDRD1--RPS27P1^TDRD1^ENSG00000095627.9" ; ccdsid "CCDS7588.1" ; exon_id "ENSE00003519815.1" ; exon_number 2 ; gene_id "TDRD1--RPS27P1^TDRD1^ENSG00000095627.9" ; gene_name TDRD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019083.2" ; hgnc_id "HGNC:11712" ; level 3 ; orig_coord_info "chr10,114187832,114188156,+" ; protein_id "ENSP00000251864.2" ; tag basic appris_principal_2 CCDS ; transcript_id "TDRD1--RPS27P1^ENST00000251864.6" ; transcript_name "TDRD1-201" ; 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:
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:
XRN2--GRM7 HAVANA gene 31111 60433 . + . FI_gene_label "GRM7^ENSG00000196277.16" ; ID "XRN2--GRM7^GRM7^ENSG00000196277.16" ; ccdsid "CCDS43042.1" ; exon_id "ENSE00001761182.1" ; exon_number 1 ; gene_id "XRN2--GRM7^GRM7^ENSG00000196277.16" ; gene_name GRM7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000125549.16" ; havana_transcript "OTTHUMT00000246895.4" ; hgnc_id "HGNC:4599" ; level 2 ; orig_coord_info "chr3,6861389,6861907,+" ; protein_id "ENSP00000350348.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "XRN2--GRM7^ENST00000357716.9" ; transcript_name "GRM7-201" ; transcript_support_level 1 ; transcript_type protein_coding
XRN2--GRM7 HAVANA mRNA 31111 60433 . + . FI_gene_label "GRM7^ENSG00000196277.16" ; ID "XRN2--GRM7^ENST00000357716.9" ; Parent "XRN2--GRM7^GRM7^ENSG00000196277.16" ; ccdsid "CCDS43042.1" ; exon_id "ENSE00001761182.1" ; exon_number 1 ; gene_id "XRN2--GRM7^GRM7^ENSG00000196277.16" ; gene_name GRM7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000125549.16" ; havana_transcript "OTTHUMT00000246895.4" ; hgnc_id "HGNC:4599" ; level 2 ; orig_coord_info "chr3,6861389,6861907,+" ; protein_id "ENSP00000350348.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "XRN2--GRM7^ENST00000357716.9" ; transcript_name "GRM7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
XRN2--GRM7 HAVANA gene 1001 24823 . + . FI_gene_label "XRN2^ENSG00000088930.8" ; ID "XRN2--GRM7^XRN2^ENSG00000088930.8" ; ccdsid "CCDS13144.1" ; exon_id "ENSE00001473202.4" ; exon_number 1 ; gene_id "XRN2--GRM7^XRN2^ENSG00000088930.8" ; gene_name XRN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032025.4" ; havana_transcript "OTTHUMT00000078273.4" ; hgnc_id "HGNC:12836" ; level 2 ; orig_coord_info "chr20,21303399,21303473,+" ; protein_id "ENSP00000366396.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "XRN2--GRM7^ENST00000377191.5" ; transcript_name "XRN2-201" ; transcript_support_level 1 ; transcript_type protein_coding
XRN2--GRM7 HAVANA mRNA 1001 24823 . + . FI_gene_label "XRN2^ENSG00000088930.8" ; ID "XRN2--GRM7^ENST00000377191.5" ; Parent "XRN2--GRM7^XRN2^ENSG00000088930.8" ; ccdsid "CCDS13144.1" ; exon_id "ENSE00001473202.4" ; exon_number 1 ; gene_id "XRN2--GRM7^XRN2^ENSG00000088930.8" ; gene_name XRN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032025.4" ; havana_transcript "OTTHUMT00000078273.4" ; hgnc_id "HGNC:12836" ; level 2 ; orig_coord_info "chr20,21303399,21303473,+" ; protein_id "ENSP00000366396.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "XRN2--GRM7^ENST00000377191.5" ; transcript_name "XRN2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZC3HAV1--CNTNAP2 HAVANA gene 2226 21299 . + . FI_gene_label "ZC3HAV1^ENSG00000105939.14" ; ID "ZC3HAV1--CNTNAP2^ZC3HAV1^ENSG00000105939.14" ; ccdsid "CCDS5851.1" ; exon_id "ENSE00001826847.2" ; exon_number 1 ; gene_id "ZC3HAV1--CNTNAP2^ZC3HAV1^ENSG00000105939.14" ; gene_name ZC3HAV1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157471.2" ; havana_transcript "OTTHUMT00000348915.2" ; hgnc_id "HGNC:23721" ; level 2 ; orig_coord_info "chr7,139109024,139109331,-" ; protein_id "ENSP00000242351.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ZC3HAV1--CNTNAP2^ENST00000242351.10" ; transcript_name "ZC3HAV1-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZC3HAV1--CNTNAP2 HAVANA mRNA 2226 21299 . + . FI_gene_label "ZC3HAV1^ENSG00000105939.14" ; ID "ZC3HAV1--CNTNAP2^ENST00000242351.10" ; Parent "ZC3HAV1--CNTNAP2^ZC3HAV1^ENSG00000105939.14" ; ccdsid "CCDS5851.1" ; exon_id "ENSE00001826847.2" ; exon_number 1 ; gene_id "ZC3HAV1--CNTNAP2^ZC3HAV1^ENSG00000105939.14" ; gene_name ZC3HAV1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157471.2" ; havana_transcript "OTTHUMT00000348915.2" ; hgnc_id "HGNC:23721" ; level 2 ; orig_coord_info "chr7,139109024,139109331,-" ; protein_id "ENSP00000242351.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ZC3HAV1--CNTNAP2^ENST00000242351.10" ; transcript_name "ZC3HAV1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZC3HAV1--CNTNAP2 HAVANA gene 25099 85132 . + . FI_gene_label "CNTNAP2^ENSG00000174469.23" ; ID "ZC3HAV1--CNTNAP2^CNTNAP2^ENSG00000174469.23" ; ccdsid "CCDS5889.1" ; exon_id "ENSE00001384688.4" ; exon_number 1 ; gene_id "ZC3HAV1--CNTNAP2^CNTNAP2^ENSG00000174469.23" ; gene_name CNTNAP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152743.11" ; havana_transcript "OTTHUMT00000327668.3" ; hgnc_id "HGNC:13830" ; level 2 ; orig_coord_info "chr7,146116877,146116973,+" ; protein_id "ENSP00000354778.3" ; tag CAGE_supported_TSS basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZC3HAV1--CNTNAP2^ENST00000361727.8" ; transcript_name "CNTNAP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZC3HAV1--CNTNAP2 HAVANA mRNA 25099 85132 . + . FI_gene_label "CNTNAP2^ENSG00000174469.23" ; ID "ZC3HAV1--CNTNAP2^ENST00000361727.8" ; Parent "ZC3HAV1--CNTNAP2^CNTNAP2^ENSG00000174469.23" ; ccdsid "CCDS5889.1" ; exon_id "ENSE00001384688.4" ; exon_number 1 ; gene_id "ZC3HAV1--CNTNAP2^CNTNAP2^ENSG00000174469.23" ; gene_name CNTNAP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152743.11" ; havana_transcript "OTTHUMT00000327668.3" ; hgnc_id "HGNC:13830" ; level 2 ; orig_coord_info "chr7,146116877,146116973,+" ; protein_id "ENSP00000354778.3" ; tag CAGE_supported_TSS basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZC3HAV1--CNTNAP2^ENST00000361727.8" ; transcript_name "CNTNAP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF267--SPECC1 HAVANA gene 23041 54018 . + . FI_gene_label "SPECC1^ENSG00000128487.18" ; ID "ZNF267--SPECC1^SPECC1^ENSG00000128487.18" ; ccdsid "CCDS32590.1" ; exon_id "ENSE00003538827.1" ; exon_number 2 ; gene_id "ZNF267--SPECC1^SPECC1^ENSG00000128487.18" ; gene_name SPECC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179808.4" ; havana_transcript "OTTHUMT00000441206.1" ; hgnc_id "HGNC:30615" ; level 2 ; orig_coord_info "chr17,20096652,20096798,+" ; protein_id "ENSP00000261503.5" ; tag basic appris_principal_3 CCDS ; transcript_id "ZNF267--SPECC1^ENST00000261503.9" ; transcript_name "SPECC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF267--SPECC1 HAVANA mRNA 23041 54018 . + . FI_gene_label "SPECC1^ENSG00000128487.18" ; ID "ZNF267--SPECC1^ENST00000261503.9" ; Parent "ZNF267--SPECC1^SPECC1^ENSG00000128487.18" ; ccdsid "CCDS32590.1" ; exon_id "ENSE00003538827.1" ; exon_number 2 ; gene_id "ZNF267--SPECC1^SPECC1^ENSG00000128487.18" ; gene_name SPECC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179808.4" ; havana_transcript "OTTHUMT00000441206.1" ; hgnc_id "HGNC:30615" ; level 2 ; orig_coord_info "chr17,20096652,20096798,+" ; protein_id "ENSP00000261503.5" ; tag basic appris_principal_3 CCDS ; transcript_id "ZNF267--SPECC1^ENST00000261503.9" ; transcript_name "SPECC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF267--SPECC1 HAVANA gene 1001 11803 . + . FI_gene_label "ZNF267^ENSG00000185947.15" ; ID "ZNF267--SPECC1^ZNF267^ENSG00000185947.15" ; ccdsid "CCDS32440.1" ; exon_id "ENSE00002247619.2" ; exon_number 1 ; gene_id "ZNF267--SPECC1^ZNF267^ENSG00000185947.15" ; gene_name ZNF267 ; gene_type protein_coding ; havana_gene "OTTHUMG00000176535.18" ; havana_transcript "OTTHUMT00000432446.4" ; hgnc_id "HGNC:13060" ; level 2 ; orig_coord_info "chr16,31873967,31873969,+" ; protein_id "ENSP00000300870.10" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF267--SPECC1^ENST00000300870.15" ; transcript_name "ZNF267-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF267--SPECC1 HAVANA mRNA 1001 11803 . + . FI_gene_label "ZNF267^ENSG00000185947.15" ; ID "ZNF267--SPECC1^ENST00000300870.15" ; Parent "ZNF267--SPECC1^ZNF267^ENSG00000185947.15" ; ccdsid "CCDS32440.1" ; exon_id "ENSE00002247619.2" ; exon_number 1 ; gene_id "ZNF267--SPECC1^ZNF267^ENSG00000185947.15" ; gene_name ZNF267 ; gene_type protein_coding ; havana_gene "OTTHUMG00000176535.18" ; havana_transcript "OTTHUMT00000432446.4" ; hgnc_id "HGNC:13060" ; level 2 ; orig_coord_info "chr16,31873967,31873969,+" ; protein_id "ENSP00000300870.10" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF267--SPECC1^ENST00000300870.15" ; transcript_name "ZNF267-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AKAP10--AC090453.1 HAVANA gene 23088 23523 . + . FI_gene_label "AC090453.1^ENSG00000243503.2" ; ID "AKAP10--AC090453.1^AC090453.1^ENSG00000243503.2" ; exon_id "ENSE00001896700.2" ; exon_number 1 ; gene_id "AKAP10--AC090453.1^AC090453.1^ENSG00000243503.2" ; gene_name "AC090453.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158604.2" ; havana_transcript "OTTHUMT00000351453.2" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,36987977,36988412,-" ; tag pseudo_consens basic ; transcript_id "AKAP10--AC090453.1^ENST00000495560.2" ; transcript_name "AC090453.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
AKAP10--AC090453.1 HAVANA RNA 23088 23523 . + . FI_gene_label "AC090453.1^ENSG00000243503.2" ; ID "AKAP10--AC090453.1^ENST00000495560.2" ; Parent "AKAP10--AC090453.1^AC090453.1^ENSG00000243503.2" ; exon_id "ENSE00001896700.2" ; exon_number 1 ; gene_id "AKAP10--AC090453.1^AC090453.1^ENSG00000243503.2" ; gene_name "AC090453.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158604.2" ; havana_transcript "OTTHUMT00000351453.2" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,36987977,36988412,-" ; tag pseudo_consens basic ; transcript_id "AKAP10--AC090453.1^ENST00000495560.2" ; transcript_name "AC090453.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
CMTM8--RN7SL120P ENSEMBL gene 8171 8466 . + . FI_gene_label "RN7SL120P^ENSG00000244169.3" ; ID "CMTM8--RN7SL120P^RN7SL120P^ENSG00000244169.3" ; exon_id "ENSE00001917252.3" ; exon_number 1 ; gene_id "CMTM8--RN7SL120P^RN7SL120P^ENSG00000244169.3" ; gene_name RN7SL120P ; gene_type misc_RNA ; hgnc_id "HGNC:46136" ; level 3 ; orig_coord_info "chr3,1065580,1065875,-" ; tag basic ; transcript_id "CMTM8--RN7SL120P^ENST00000463924.3" ; transcript_name "RN7SL120P-201" ; transcript_support_level NA ; transcript_type misc_RNA
CMTM8--RN7SL120P ENSEMBL RNA 8171 8466 . + . FI_gene_label "RN7SL120P^ENSG00000244169.3" ; ID "CMTM8--RN7SL120P^ENST00000463924.3" ; Parent "CMTM8--RN7SL120P^RN7SL120P^ENSG00000244169.3" ; exon_id "ENSE00001917252.3" ; exon_number 1 ; gene_id "CMTM8--RN7SL120P^RN7SL120P^ENSG00000244169.3" ; gene_name RN7SL120P ; gene_type misc_RNA ; hgnc_id "HGNC:46136" ; level 3 ; orig_coord_info "chr3,1065580,1065875,-" ; tag basic ; transcript_id "CMTM8--RN7SL120P^ENST00000463924.3" ; transcript_name "RN7SL120P-201" ; transcript_support_level NA ; transcript_type misc_RNA
L1 and L2 created:
GSG1L--AJ003147.2 HAVANA gene 18434 24276 . + . FI_gene_label "AJ003147.2^ENSG00000262668.2" ; ID "GSG1L--AJ003147.2^AJ003147.2^ENSG00000262668.2" ; exon_id "ENSE00002645726.1" ; exon_number 1 ; gene_id "GSG1L--AJ003147.2^AJ003147.2^ENSG00000262668.2" ; gene_name "AJ003147.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000177553.2" ; havana_transcript "OTTHUMT00000437543.1" ; level 2 ; orig_coord_info "chr16,3188212,3188479,+" ; transcript_id "GSG1L--AJ003147.2^ENST00000576468.1" ; transcript_name "AJ003147.2-202" ; transcript_support_level 3 ; transcript_type lncRNA
GSG1L--AJ003147.2 HAVANA RNA 18434 24276 . + . FI_gene_label "AJ003147.2^ENSG00000262668.2" ; ID "GSG1L--AJ003147.2^ENST00000576468.1" ; Parent "GSG1L--AJ003147.2^AJ003147.2^ENSG00000262668.2" ; exon_id "ENSE00002645726.1" ; exon_number 1 ; gene_id "GSG1L--AJ003147.2^AJ003147.2^ENSG00000262668.2" ; gene_name "AJ003147.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000177553.2" ; havana_transcript "OTTHUMT00000437543.1" ; level 2 ; orig_coord_info "chr16,3188212,3188479,+" ; transcript_id "GSG1L--AJ003147.2^ENST00000576468.1" ; transcript_name "AJ003147.2-202" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
HSD17B7P2--RAD18 HAVANA gene 1076 9832 . + . FI_gene_label "HSD17B7P2^ENSG00000099251.14" ; ID "HSD17B7P2--RAD18^HSD17B7P2^ENSG00000099251.14" ; exon_id "ENSE00001825404.1" ; exon_number 1 ; gene_id "HSD17B7P2--RAD18^HSD17B7P2^ENSG00000099251.14" ; gene_name HSD17B7P2 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000017993.2" ; havana_transcript "OTTHUMT00000047632.2" ; hgnc_id "HGNC:28120" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr10,38356455,38356489,+" ; tag basic ; transcript_id "HSD17B7P2--RAD18^ENST00000471365.1" ; transcript_name "HSD17B7P2-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
HSD17B7P2--RAD18 HAVANA RNA 1076 9832 . + . FI_gene_label "HSD17B7P2^ENSG00000099251.14" ; ID "HSD17B7P2--RAD18^ENST00000471365.1" ; Parent "HSD17B7P2--RAD18^HSD17B7P2^ENSG00000099251.14" ; exon_id "ENSE00001825404.1" ; exon_number 1 ; gene_id "HSD17B7P2--RAD18^HSD17B7P2^ENSG00000099251.14" ; gene_name HSD17B7P2 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000017993.2" ; havana_transcript "OTTHUMT00000047632.2" ; hgnc_id "HGNC:28120" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr10,38356455,38356489,+" ; tag basic ; transcript_id "HSD17B7P2--RAD18^ENST00000471365.1" ; transcript_name "HSD17B7P2-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
IKZF2--LINC01953 HAVANA gene 27900 29616 . + . FI_gene_label "LINC01953^ENSG00000236193.3" ; ID "IKZF2--LINC01953^LINC01953^ENSG00000236193.3" ; exon_id "ENSE00001668924.1" ; exon_number 1 ; gene_id "IKZF2--LINC01953^LINC01953^ENSG00000236193.3" ; gene_name LINC01953 ; gene_type lncRNA ; havana_gene "OTTHUMG00000186255.1" ; havana_transcript "OTTHUMT00000472502.1" ; hgnc_id "HGNC:52776" ; level 2 ; orig_coord_info "chr2,213167393,213167712,-" ; tag basic ; transcript_id "IKZF2--LINC01953^ENST00000426870.1" ; transcript_name "LINC01953-201" ; transcript_support_level 5 ; transcript_type lncRNA
IKZF2--LINC01953 HAVANA RNA 27900 29616 . + . FI_gene_label "LINC01953^ENSG00000236193.3" ; ID "IKZF2--LINC01953^ENST00000426870.1" ; Parent "IKZF2--LINC01953^LINC01953^ENSG00000236193.3" ; exon_id "ENSE00001668924.1" ; exon_number 1 ; gene_id "IKZF2--LINC01953^LINC01953^ENSG00000236193.3" ; gene_name LINC01953 ; gene_type lncRNA ; havana_gene "OTTHUMG00000186255.1" ; havana_transcript "OTTHUMT00000472502.1" ; hgnc_id "HGNC:52776" ; level 2 ; orig_coord_info "chr2,213167393,213167712,-" ; tag basic ; transcript_id "IKZF2--LINC01953^ENST00000426870.1" ; transcript_name "LINC01953-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
SUCLG2--NIPA2P2 HAVANA gene 18953 20035 . + . FI_gene_label "NIPA2P2^ENSG00000241022.1" ; ID "SUCLG2--NIPA2P2^NIPA2P2^ENSG00000241022.1" ; exon_id "ENSE00001823833.1" ; exon_number 1 ; gene_id "SUCLG2--NIPA2P2^NIPA2P2^ENSG00000241022.1" ; gene_name NIPA2P2 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158821.1" ; havana_transcript "OTTHUMT00000352333.1" ; hgnc_id "HGNC:42042" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr3,75084155,75085237,+" ; tag pseudo_consens basic ; transcript_id "SUCLG2--NIPA2P2^ENST00000496376.1" ; transcript_name "NIPA2P2-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
SUCLG2--NIPA2P2 HAVANA RNA 18953 20035 . + . FI_gene_label "NIPA2P2^ENSG00000241022.1" ; ID "SUCLG2--NIPA2P2^ENST00000496376.1" ; Parent "SUCLG2--NIPA2P2^NIPA2P2^ENSG00000241022.1" ; exon_id "ENSE00001823833.1" ; exon_number 1 ; gene_id "SUCLG2--NIPA2P2^NIPA2P2^ENSG00000241022.1" ; gene_name NIPA2P2 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158821.1" ; havana_transcript "OTTHUMT00000352333.1" ; hgnc_id "HGNC:42042" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr3,75084155,75085237,+" ; tag pseudo_consens basic ; transcript_id "SUCLG2--NIPA2P2^ENST00000496376.1" ; transcript_name "NIPA2P2-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
SUCLG2-AS1--PTPRG HAVANA gene 1009 8481 . + . FI_gene_label "SUCLG2-AS1^ENSG00000241316.8" ; ID "SUCLG2-AS1--PTPRG^SUCLG2-AS1^ENSG00000241316.8" ; exon_id "ENSE00001882785.2" ; exon_number 1 ; gene_id "SUCLG2-AS1--PTPRG^SUCLG2-AS1^ENSG00000241316.8" ; gene_name "SUCLG2-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000158739.4" ; havana_transcript "OTTHUMT00000351991.2" ; hgnc_id "HGNC:49643" ; level 2 ; orig_coord_info "chr3,67654677,67655102,+" ; tag TAGENE ; transcript_id "SUCLG2-AS1--PTPRG^ENST00000464420.6" ; transcript_name "SUCLG2-AS1-201" ; transcript_support_level 1 ; transcript_type lncRNA
SUCLG2-AS1--PTPRG HAVANA RNA 1009 8481 . + . FI_gene_label "SUCLG2-AS1^ENSG00000241316.8" ; ID "SUCLG2-AS1--PTPRG^ENST00000464420.6" ; Parent "SUCLG2-AS1--PTPRG^SUCLG2-AS1^ENSG00000241316.8" ; exon_id "ENSE00001882785.2" ; exon_number 1 ; gene_id "SUCLG2-AS1--PTPRG^SUCLG2-AS1^ENSG00000241316.8" ; gene_name "SUCLG2-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000158739.4" ; havana_transcript "OTTHUMT00000351991.2" ; hgnc_id "HGNC:49643" ; level 2 ; orig_coord_info "chr3,67654677,67655102,+" ; tag TAGENE ; transcript_id "SUCLG2-AS1--PTPRG^ENST00000464420.6" ; transcript_name "SUCLG2-AS1-201" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
TCF4--HNRNPA1P57 HAVANA gene 71065 73594 . + . FI_gene_label "HNRNPA1P57^ENSG00000237442.3" ; ID "TCF4--HNRNPA1P57^HNRNPA1P57^ENSG00000237442.3" ; exon_id "ENSE00001703605.1" ; exon_number 1 ; gene_id "TCF4--HNRNPA1P57^HNRNPA1P57^ENSG00000237442.3" ; gene_name HNRNPA1P57 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000152297.3" ; havana_transcript "OTTHUMT00000470771.1" ; hgnc_id "HGNC:48787" ; level 2 ; orig_coord_info "chr2,41143780,41143958,+" ; tag basic ; transcript_id "TCF4--HNRNPA1P57^ENST00000431359.1" ; transcript_name "HNRNPA1P57-201" ; transcript_support_level 4 ; transcript_type processed_transcript
TCF4--HNRNPA1P57 HAVANA RNA 71065 73594 . + . FI_gene_label "HNRNPA1P57^ENSG00000237442.3" ; ID "TCF4--HNRNPA1P57^ENST00000431359.1" ; Parent "TCF4--HNRNPA1P57^HNRNPA1P57^ENSG00000237442.3" ; exon_id "ENSE00001703605.1" ; exon_number 1 ; gene_id "TCF4--HNRNPA1P57^HNRNPA1P57^ENSG00000237442.3" ; gene_name HNRNPA1P57 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000152297.3" ; havana_transcript "OTTHUMT00000470771.1" ; hgnc_id "HGNC:48787" ; level 2 ; orig_coord_info "chr2,41143780,41143958,+" ; tag basic ; transcript_id "TCF4--HNRNPA1P57^ENST00000431359.1" ; transcript_name "HNRNPA1P57-201" ; transcript_support_level 4 ; transcript_type processed_transcript
L1 and L2 created:
TDRD1--RPS27P1 HAVANA gene 28360 28606 . + . FI_gene_label "RPS27P1^ENSG00000223876.1" ; ID "TDRD1--RPS27P1^RPS27P1^ENSG00000223876.1" ; exon_id "ENSE00001616131.1" ; exon_number 1 ; gene_id "TDRD1--RPS27P1^RPS27P1^ENSG00000223876.1" ; gene_name RPS27P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018741.1" ; havana_transcript "OTTHUMT00000049366.1" ; hgnc_id "HGNC:23740" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr10,91544852,91545098,+" ; tag pseudo_consens basic ; transcript_id "TDRD1--RPS27P1^ENST00000450552.1" ; transcript_name "RPS27P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
TDRD1--RPS27P1 HAVANA RNA 28360 28606 . + . FI_gene_label "RPS27P1^ENSG00000223876.1" ; ID "TDRD1--RPS27P1^ENST00000450552.1" ; Parent "TDRD1--RPS27P1^RPS27P1^ENSG00000223876.1" ; exon_id "ENSE00001616131.1" ; exon_number 1 ; gene_id "TDRD1--RPS27P1^RPS27P1^ENSG00000223876.1" ; gene_name RPS27P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018741.1" ; havana_transcript "OTTHUMT00000049366.1" ; hgnc_id "HGNC:23740" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr10,91544852,91545098,+" ; tag pseudo_consens basic ; transcript_id "TDRD1--RPS27P1^ENST00000450552.1" ; transcript_name "RPS27P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
TLK2P1--AC110079.1 HAVANA RNA 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^ENST00000530992.1" ; Parent "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
TLK2P1--AC110079.1 HAVANA RNA 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^ENST00000567913.2" ; Parent "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
748 cases fixed where L3 features have parent feature(s) missing
------------------------------ 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 ------------------------------
1737 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