Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f5/a83afa28871f4cbc6aaffedc2016ec/fi_workdir/aih-tih-sc-550807-R1_A23WJ53LT4_1.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/61/1ee4222d41815034bc9b37a46b8950/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/61/1ee4222d41815034bc9b37a46b8950/.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: 9722
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 9722
=> Number of feature type (3rd column): 2
* Level1: 0 =>
* level2: 0 =>
* level3: 2 => exon CDS
* unknown: 0 =>
=>Check because only level3 features:
* Number of feature with Parent attribute:0
* Number of feature with a common attribute:9722
=> Some common attributes and some Parent attributes missing.
/!\ For features where both are missing A single Level2 features (e.g. mRNA) and a single level1 (e.g. gene) will be created by AGAT, and all level3 feautres (e,g, CDS,exon) will be attached to them. This is probably not what you want...
see B. 2.2 and 3. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
/!\ For features where the common attribute or the parent attribute is missing, it would be fine as long as you do not expect isoforms in your annotation (Eukaryote). see B. 4. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
!! You might try to fix the issue by choosing a common tag attribute to use in order to group the features correctly (parameter --ct in agat_convert_sp_gxf2gxf.pl).
=> Version of the Bioperl GFF parser selected by AGAT: 2
------ End parsing (done in 2 second) ------
------ Start checks ------
---------------------------- Check1: feature types -----------------------------
----------------------------------- ontology -----------------------------------
All feature types in agreement with the Ontology.
------------------------------------- agat -------------------------------------
AGAT can deal with all the encountered feature types (3rd column)
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check2: duplicates ------------------------------
None found
------------------------------ done in 0 seconds -------------------------------
-------------------------- Check3: sequential bucket ---------------------------
Nothing to check as sequential bucket!
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check4: l2 linked to l3 ----------------------------
L1 and L2 created:
AC092807.3--DDAH1 HAVANA gene 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC092807.3--DDAH1 HAVANA mRNA 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^ENST00000284031.13" ; Parent "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC107294.2--GABRP HAVANA gene 19724 31532 . + . FI_gene_label "GABRP^ENSG00000094755.17" ; ID "AC107294.2--GABRP^GABRP^ENSG00000094755.17" ; ccdsid "CCDS4375.1" ; exon_id "ENSE00003895416.1" ; exon_number 2 ; gene_id "AC107294.2--GABRP^GABRP^ENSG00000094755.17" ; gene_name GABRP ; gene_type protein_coding ; havana_gene "OTTHUMG00000130443.5" ; havana_transcript "OTTHUMT00000504387.1" ; hgnc_id "HGNC:4089" ; level 2 ; orig_coord_info "chr5,170788616,170788668,+" ; protein_id "ENSP00000265294.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC107294.2--GABRP^ENST00000265294.9" ; transcript_name "GABRP-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC107294.2--GABRP HAVANA mRNA 19724 31532 . + . FI_gene_label "GABRP^ENSG00000094755.17" ; ID "AC107294.2--GABRP^ENST00000265294.9" ; Parent "AC107294.2--GABRP^GABRP^ENSG00000094755.17" ; ccdsid "CCDS4375.1" ; exon_id "ENSE00003895416.1" ; exon_number 2 ; gene_id "AC107294.2--GABRP^GABRP^ENSG00000094755.17" ; gene_name GABRP ; gene_type protein_coding ; havana_gene "OTTHUMG00000130443.5" ; havana_transcript "OTTHUMT00000504387.1" ; hgnc_id "HGNC:4089" ; level 2 ; orig_coord_info "chr5,170788616,170788668,+" ; protein_id "ENSP00000265294.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC107294.2--GABRP^ENST00000265294.9" ; transcript_name "GABRP-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ALG12--IL17REL HAVANA gene 1001 11501 . + . FI_gene_label "ALG12^ENSG00000182858.14" ; ID "ALG12--IL17REL^ALG12^ENSG00000182858.14" ; ccdsid "CCDS14081.1" ; exon_id "ENSE00002270589.1" ; exon_number 2 ; gene_id "ALG12--IL17REL^ALG12^ENSG00000182858.14" ; gene_name ALG12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150289.4" ; havana_transcript "OTTHUMT00000317405.3" ; hgnc_id "HGNC:19358" ; level 2 ; orig_coord_info "chr22,49913604,49913765,-" ; protein_id "ENSP00000333813.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ALG12--IL17REL^ENST00000330817.11" ; transcript_name "ALG12-201" ; transcript_support_level 1 ; transcript_type protein_coding
ALG12--IL17REL HAVANA mRNA 1001 11501 . + . FI_gene_label "ALG12^ENSG00000182858.14" ; ID "ALG12--IL17REL^ENST00000330817.11" ; Parent "ALG12--IL17REL^ALG12^ENSG00000182858.14" ; ccdsid "CCDS14081.1" ; exon_id "ENSE00002270589.1" ; exon_number 2 ; gene_id "ALG12--IL17REL^ALG12^ENSG00000182858.14" ; gene_name ALG12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150289.4" ; havana_transcript "OTTHUMT00000317405.3" ; hgnc_id "HGNC:19358" ; level 2 ; orig_coord_info "chr22,49913604,49913765,-" ; protein_id "ENSP00000333813.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ALG12--IL17REL^ENST00000330817.11" ; transcript_name "ALG12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ALG12--IL17REL ENSEMBL gene 15988 23762 . + . FI_gene_label "IL17REL^ENSG00000188263.10" ; ID "ALG12--IL17REL^IL17REL^ENSG00000188263.10" ; ccdsid "CCDS33679.1" ; exon_id "ENSE00001389784.2" ; exon_number 2 ; gene_id "ALG12--IL17REL^IL17REL^ENSG00000188263.10" ; gene_name IL17REL ; gene_type protein_coding ; havana_gene "OTTHUMG00000150242.1" ; hgnc_id "HGNC:33808" ; level 3 ; orig_coord_info "chr22,50001082,50001190,-" ; protein_id "ENSP00000342520.5" ; tag basic appris_principal_1 CCDS ; transcript_id "ALG12--IL17REL^ENST00000341280.5" ; transcript_name "IL17REL-201" ; transcript_support_level 5 ; transcript_type protein_coding
ALG12--IL17REL ENSEMBL mRNA 15988 23762 . + . FI_gene_label "IL17REL^ENSG00000188263.10" ; ID "ALG12--IL17REL^ENST00000341280.5" ; Parent "ALG12--IL17REL^IL17REL^ENSG00000188263.10" ; ccdsid "CCDS33679.1" ; exon_id "ENSE00001389784.2" ; exon_number 2 ; gene_id "ALG12--IL17REL^IL17REL^ENSG00000188263.10" ; gene_name IL17REL ; gene_type protein_coding ; havana_gene "OTTHUMG00000150242.1" ; hgnc_id "HGNC:33808" ; level 3 ; orig_coord_info "chr22,50001082,50001190,-" ; protein_id "ENSP00000342520.5" ; tag basic appris_principal_1 CCDS ; transcript_id "ALG12--IL17REL^ENST00000341280.5" ; transcript_name "IL17REL-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
CAPN7--FGD5 HAVANA gene 1095 23919 . + . FI_gene_label "CAPN7^ENSG00000131375.10" ; ID "CAPN7--FGD5^CAPN7^ENSG00000131375.10" ; ccdsid "CCDS2624.1" ; exon_id "ENSE00000901305.5" ; exon_number 1 ; gene_id "CAPN7--FGD5^CAPN7^ENSG00000131375.10" ; gene_name CAPN7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129863.5" ; havana_transcript "OTTHUMT00000252105.3" ; hgnc_id "HGNC:1484" ; level 2 ; orig_coord_info "chr3,15206496,15206597,+" ; protein_id "ENSP00000253693.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CAPN7--FGD5^ENST00000253693.7" ; transcript_name "CAPN7-201" ; transcript_support_level 1 ; transcript_type protein_coding
CAPN7--FGD5 HAVANA mRNA 1095 23919 . + . FI_gene_label "CAPN7^ENSG00000131375.10" ; ID "CAPN7--FGD5^ENST00000253693.7" ; Parent "CAPN7--FGD5^CAPN7^ENSG00000131375.10" ; ccdsid "CCDS2624.1" ; exon_id "ENSE00000901305.5" ; exon_number 1 ; gene_id "CAPN7--FGD5^CAPN7^ENSG00000131375.10" ; gene_name CAPN7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129863.5" ; havana_transcript "OTTHUMT00000252105.3" ; hgnc_id "HGNC:1484" ; level 2 ; orig_coord_info "chr3,15206496,15206597,+" ; protein_id "ENSP00000253693.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CAPN7--FGD5^ENST00000253693.7" ; transcript_name "CAPN7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CAPN7--FGD5 HAVANA gene 27939 51973 . + . FI_gene_label "FGD5^ENSG00000154783.12" ; ID "CAPN7--FGD5^FGD5^ENSG00000154783.12" ; ccdsid "CCDS46767.1" ; exon_id "ENSE00001287677.7" ; exon_number 1 ; gene_id "CAPN7--FGD5^FGD5^ENSG00000154783.12" ; gene_name FGD5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155556.7" ; havana_transcript "OTTHUMT00000340628.2" ; hgnc_id "HGNC:19117" ; level 2 ; orig_coord_info "chr3,14819072,14821596,+" ; protein_id "ENSP00000285046.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CAPN7--FGD5^ENST00000285046.10" ; transcript_name "FGD5-201" ; transcript_support_level 1 ; transcript_type protein_coding
CAPN7--FGD5 HAVANA mRNA 27939 51973 . + . FI_gene_label "FGD5^ENSG00000154783.12" ; ID "CAPN7--FGD5^ENST00000285046.10" ; Parent "CAPN7--FGD5^FGD5^ENSG00000154783.12" ; ccdsid "CCDS46767.1" ; exon_id "ENSE00001287677.7" ; exon_number 1 ; gene_id "CAPN7--FGD5^FGD5^ENSG00000154783.12" ; gene_name FGD5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155556.7" ; havana_transcript "OTTHUMT00000340628.2" ; hgnc_id "HGNC:19117" ; level 2 ; orig_coord_info "chr3,14819072,14821596,+" ; protein_id "ENSP00000285046.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CAPN7--FGD5^ENST00000285046.10" ; transcript_name "FGD5-201" ; 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:
CENPE--ACTB HAVANA gene 1103 43890 . + . FI_gene_label "CENPE^ENSG00000138778.13" ; ID "CENPE--ACTB^CENPE^ENSG00000138778.13" ; ccdsid "CCDS34042.1" ; exon_id "ENSE00002045919.2" ; exon_number 1 ; gene_id "CENPE--ACTB^CENPE^ENSG00000138778.13" ; gene_name CENPE ; gene_type protein_coding ; havana_gene "OTTHUMG00000160980.9" ; havana_transcript "OTTHUMT00000368899.4" ; hgnc_id "HGNC:1856" ; level 2 ; orig_coord_info "chr4,103198264,103198319,-" ; protein_id "ENSP00000265148.3" ; tag CAGE_supported_TSS NAGNAG_splice_site basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CENPE--ACTB^ENST00000265148.9" ; transcript_name "CENPE-201" ; transcript_support_level 2 ; transcript_type protein_coding
CENPE--ACTB HAVANA mRNA 1103 43890 . + . FI_gene_label "CENPE^ENSG00000138778.13" ; ID "CENPE--ACTB^ENST00000265148.9" ; Parent "CENPE--ACTB^CENPE^ENSG00000138778.13" ; ccdsid "CCDS34042.1" ; exon_id "ENSE00002045919.2" ; exon_number 1 ; gene_id "CENPE--ACTB^CENPE^ENSG00000138778.13" ; gene_name CENPE ; gene_type protein_coding ; havana_gene "OTTHUMG00000160980.9" ; havana_transcript "OTTHUMT00000368899.4" ; hgnc_id "HGNC:1856" ; level 2 ; orig_coord_info "chr4,103198264,103198319,-" ; protein_id "ENSP00000265148.3" ; tag CAGE_supported_TSS NAGNAG_splice_site basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CENPE--ACTB^ENST00000265148.9" ; transcript_name "CENPE-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
CENPE--ACTB HAVANA gene 48465 52845 . + . FI_gene_label "ACTB^ENSG00000075624.17" ; ID "CENPE--ACTB^ACTB^ENSG00000075624.17" ; exon_id "ENSE00003542066.1" ; exon_number 3 ; gene_id "CENPE--ACTB^ACTB^ENSG00000075624.17" ; gene_name ACTB ; gene_type protein_coding ; havana_gene "OTTHUMG00000023268.12" ; havana_transcript "OTTHUMT00000324028.2" ; hgnc_id "HGNC:132" ; level 2 ; orig_coord_info "chr7,5529535,5529657,-" ; protein_id "ENSP00000401032.1" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF dotter_confirmed ; transcript_id "CENPE--ACTB^ENST00000414620.1" ; transcript_name "ACTB-201" ; transcript_support_level 4 ; transcript_type protein_coding
CENPE--ACTB HAVANA mRNA 48465 52845 . + . FI_gene_label "ACTB^ENSG00000075624.17" ; ID "CENPE--ACTB^ENST00000414620.1" ; Parent "CENPE--ACTB^ACTB^ENSG00000075624.17" ; exon_id "ENSE00003542066.1" ; exon_number 3 ; gene_id "CENPE--ACTB^ACTB^ENSG00000075624.17" ; gene_name ACTB ; gene_type protein_coding ; havana_gene "OTTHUMG00000023268.12" ; havana_transcript "OTTHUMT00000324028.2" ; hgnc_id "HGNC:132" ; level 2 ; orig_coord_info "chr7,5529535,5529657,-" ; protein_id "ENSP00000401032.1" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF dotter_confirmed ; transcript_id "CENPE--ACTB^ENST00000414620.1" ; transcript_name "ACTB-201" ; transcript_support_level 4 ; transcript_type protein_coding
L1 and L2 created:
COQ10B--ZSWIM9 HAVANA gene 1001 7821 . + . FI_gene_label "COQ10B^ENSG00000115520.8" ; ID "COQ10B--ZSWIM9^COQ10B^ENSG00000115520.8" ; ccdsid "CCDS2319.1" ; exon_id "ENSE00001157118.2" ; exon_number 1 ; gene_id "COQ10B--ZSWIM9^COQ10B^ENSG00000115520.8" ; gene_name COQ10B ; gene_type protein_coding ; havana_gene "OTTHUMG00000132745.2" ; havana_transcript "OTTHUMT00000256105.2" ; hgnc_id "HGNC:25819" ; level 2 ; orig_coord_info "chr2,197453561,197453664,+" ; protein_id "ENSP00000263960.2" ; tag basic appris_principal_2 CCDS ; transcript_id "COQ10B--ZSWIM9^ENST00000263960.6" ; transcript_name "COQ10B-201" ; transcript_support_level 1 ; transcript_type protein_coding
COQ10B--ZSWIM9 HAVANA mRNA 1001 7821 . + . FI_gene_label "COQ10B^ENSG00000115520.8" ; ID "COQ10B--ZSWIM9^ENST00000263960.6" ; Parent "COQ10B--ZSWIM9^COQ10B^ENSG00000115520.8" ; ccdsid "CCDS2319.1" ; exon_id "ENSE00001157118.2" ; exon_number 1 ; gene_id "COQ10B--ZSWIM9^COQ10B^ENSG00000115520.8" ; gene_name COQ10B ; gene_type protein_coding ; havana_gene "OTTHUMG00000132745.2" ; havana_transcript "OTTHUMT00000256105.2" ; hgnc_id "HGNC:25819" ; level 2 ; orig_coord_info "chr2,197453561,197453664,+" ; protein_id "ENSP00000263960.2" ; tag basic appris_principal_2 CCDS ; transcript_id "COQ10B--ZSWIM9^ENST00000263960.6" ; transcript_name "COQ10B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COQ10B--ZSWIM9 HAVANA gene 10834 18584 . + . FI_gene_label "ZSWIM9^ENSG00000185453.13" ; ID "COQ10B--ZSWIM9^ZSWIM9^ENSG00000185453.13" ; exon_id "ENSE00001336251.5" ; exon_number 2 ; gene_id "COQ10B--ZSWIM9^ZSWIM9^ENSG00000185453.13" ; gene_name ZSWIM9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000183190.3" ; havana_transcript "OTTHUMT00000504509.1" ; hgnc_id "HGNC:34495" ; level 2 ; orig_coord_info "chr19,48171803,48172077,+" ; protein_id "ENSP00000331363.7" ; tag non_canonical_TEC basic appris_alternative_2 ; transcript_id "COQ10B--ZSWIM9^ENST00000328759.11" ; transcript_name "ZSWIM9-201" ; transcript_support_level 1 ; transcript_type protein_coding
COQ10B--ZSWIM9 HAVANA mRNA 10834 18584 . + . FI_gene_label "ZSWIM9^ENSG00000185453.13" ; ID "COQ10B--ZSWIM9^ENST00000328759.11" ; Parent "COQ10B--ZSWIM9^ZSWIM9^ENSG00000185453.13" ; exon_id "ENSE00001336251.5" ; exon_number 2 ; gene_id "COQ10B--ZSWIM9^ZSWIM9^ENSG00000185453.13" ; gene_name ZSWIM9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000183190.3" ; havana_transcript "OTTHUMT00000504509.1" ; hgnc_id "HGNC:34495" ; level 2 ; orig_coord_info "chr19,48171803,48172077,+" ; protein_id "ENSP00000331363.7" ; tag non_canonical_TEC basic appris_alternative_2 ; transcript_id "COQ10B--ZSWIM9^ENST00000328759.11" ; transcript_name "ZSWIM9-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CUX1--PKNOX1 HAVANA gene 57688 75019 . + . FI_gene_label "PKNOX1^ENSG00000160199.15" ; ID "CUX1--PKNOX1^PKNOX1^ENSG00000160199.15" ; ccdsid "CCDS13692.1" ; exon_id "ENSE00003491838.1" ; exon_number 2 ; gene_id "CUX1--PKNOX1^PKNOX1^ENSG00000160199.15" ; gene_name PKNOX1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000086833.6" ; havana_transcript "OTTHUMT00000195520.5" ; hgnc_id "HGNC:9022" ; level 2 ; orig_coord_info "chr21,43004382,43004432,+" ; protein_id "ENSP00000291547.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CUX1--PKNOX1^ENST00000291547.10" ; transcript_name "PKNOX1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CUX1--PKNOX1 HAVANA mRNA 57688 75019 . + . FI_gene_label "PKNOX1^ENSG00000160199.15" ; ID "CUX1--PKNOX1^ENST00000291547.10" ; Parent "CUX1--PKNOX1^PKNOX1^ENSG00000160199.15" ; ccdsid "CCDS13692.1" ; exon_id "ENSE00003491838.1" ; exon_number 2 ; gene_id "CUX1--PKNOX1^PKNOX1^ENSG00000160199.15" ; gene_name PKNOX1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000086833.6" ; havana_transcript "OTTHUMT00000195520.5" ; hgnc_id "HGNC:9022" ; level 2 ; orig_coord_info "chr21,43004382,43004432,+" ; protein_id "ENSP00000291547.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CUX1--PKNOX1^ENST00000291547.10" ; transcript_name "PKNOX1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CUX1--PKNOX1 HAVANA gene 2191 45602 . + . FI_gene_label "CUX1^ENSG00000257923.12" ; ID "CUX1--PKNOX1^CUX1^ENSG00000257923.12" ; ccdsid "CCDS5721.1" ; exon_id "ENSE00001332236.4" ; exon_number 1 ; gene_id "CUX1--PKNOX1^CUX1^ENSG00000257923.12" ; gene_name CUX1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157129.14" ; havana_transcript "OTTHUMT00000347535.3" ; hgnc_id "HGNC:2557" ; level 2 ; orig_coord_info "chr7,101817640,101817669,+" ; protein_id "ENSP00000292535.7" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CUX1--PKNOX1^ENST00000292535.12" ; transcript_name "CUX1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CUX1--PKNOX1 HAVANA mRNA 2191 45602 . + . FI_gene_label "CUX1^ENSG00000257923.12" ; ID "CUX1--PKNOX1^ENST00000292535.12" ; Parent "CUX1--PKNOX1^CUX1^ENSG00000257923.12" ; ccdsid "CCDS5721.1" ; exon_id "ENSE00001332236.4" ; exon_number 1 ; gene_id "CUX1--PKNOX1^CUX1^ENSG00000257923.12" ; gene_name CUX1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157129.14" ; havana_transcript "OTTHUMT00000347535.3" ; hgnc_id "HGNC:2557" ; level 2 ; orig_coord_info "chr7,101817640,101817669,+" ; protein_id "ENSP00000292535.7" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CUX1--PKNOX1^ENST00000292535.12" ; transcript_name "CUX1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
EHBP1--COMMD1 HAVANA gene 2458 34620 . + . FI_gene_label "EHBP1^ENSG00000115504.15" ; ID "EHBP1--COMMD1^EHBP1^ENSG00000115504.15" ; ccdsid "CCDS1872.1" ; exon_id "ENSE00003560955.1" ; exon_number 2 ; gene_id "EHBP1--COMMD1^EHBP1^ENSG00000115504.15" ; gene_name EHBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129453.7" ; havana_transcript "OTTHUMT00000251616.1" ; hgnc_id "HGNC:29144" ; level 2 ; orig_coord_info "chr2,62707192,62707295,+" ; protein_id "ENSP00000263991.5" ; tag basic appris_principal_4 CCDS ; transcript_id "EHBP1--COMMD1^ENST00000263991.9" ; transcript_name "EHBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
EHBP1--COMMD1 HAVANA mRNA 2458 34620 . + . FI_gene_label "EHBP1^ENSG00000115504.15" ; ID "EHBP1--COMMD1^ENST00000263991.9" ; Parent "EHBP1--COMMD1^EHBP1^ENSG00000115504.15" ; ccdsid "CCDS1872.1" ; exon_id "ENSE00003560955.1" ; exon_number 2 ; gene_id "EHBP1--COMMD1^EHBP1^ENSG00000115504.15" ; gene_name EHBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129453.7" ; havana_transcript "OTTHUMT00000251616.1" ; hgnc_id "HGNC:29144" ; level 2 ; orig_coord_info "chr2,62707192,62707295,+" ; protein_id "ENSP00000263991.5" ; tag basic appris_principal_4 CCDS ; transcript_id "EHBP1--COMMD1^ENST00000263991.9" ; transcript_name "EHBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
EHBP1--COMMD1 HAVANA gene 38740 45062 . + . FI_gene_label "COMMD1^ENSG00000173163.10" ; ID "EHBP1--COMMD1^COMMD1^ENSG00000173163.10" ; ccdsid "CCDS1869.1" ; exon_id "ENSE00003472873.1" ; exon_number 1 ; gene_id "EHBP1--COMMD1^COMMD1^ENSG00000173163.10" ; gene_name COMMD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129445.3" ; havana_transcript "OTTHUMT00000251607.2" ; hgnc_id "HGNC:23024" ; level 2 ; orig_coord_info "chr2,61905679,61905858,+" ; protein_id "ENSP00000308236.5" ; tag basic appris_principal_1 CCDS ; transcript_id "EHBP1--COMMD1^ENST00000311832.5" ; transcript_name "COMMD1-201" ; transcript_support_level 1 ; transcript_type protein_coding
EHBP1--COMMD1 HAVANA mRNA 38740 45062 . + . FI_gene_label "COMMD1^ENSG00000173163.10" ; ID "EHBP1--COMMD1^ENST00000311832.5" ; Parent "EHBP1--COMMD1^COMMD1^ENSG00000173163.10" ; ccdsid "CCDS1869.1" ; exon_id "ENSE00003472873.1" ; exon_number 1 ; gene_id "EHBP1--COMMD1^COMMD1^ENSG00000173163.10" ; gene_name COMMD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129445.3" ; havana_transcript "OTTHUMT00000251607.2" ; hgnc_id "HGNC:23024" ; level 2 ; orig_coord_info "chr2,61905679,61905858,+" ; protein_id "ENSP00000308236.5" ; tag basic appris_principal_1 CCDS ; transcript_id "EHBP1--COMMD1^ENST00000311832.5" ; transcript_name "COMMD1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
EHBP1--UGP2 HAVANA gene 2458 34620 . + . FI_gene_label "EHBP1^ENSG00000115504.15" ; ID "EHBP1--UGP2^EHBP1^ENSG00000115504.15" ; ccdsid "CCDS1872.1" ; exon_id "ENSE00003560955.1" ; exon_number 2 ; gene_id "EHBP1--UGP2^EHBP1^ENSG00000115504.15" ; gene_name EHBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129453.7" ; havana_transcript "OTTHUMT00000251616.1" ; hgnc_id "HGNC:29144" ; level 2 ; orig_coord_info "chr2,62707192,62707295,+" ; protein_id "ENSP00000263991.5" ; tag basic appris_principal_4 CCDS ; transcript_id "EHBP1--UGP2^ENST00000263991.9" ; transcript_name "EHBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
EHBP1--UGP2 HAVANA mRNA 2458 34620 . + . FI_gene_label "EHBP1^ENSG00000115504.15" ; ID "EHBP1--UGP2^ENST00000263991.9" ; Parent "EHBP1--UGP2^EHBP1^ENSG00000115504.15" ; ccdsid "CCDS1872.1" ; exon_id "ENSE00003560955.1" ; exon_number 2 ; gene_id "EHBP1--UGP2^EHBP1^ENSG00000115504.15" ; gene_name EHBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129453.7" ; havana_transcript "OTTHUMT00000251616.1" ; hgnc_id "HGNC:29144" ; level 2 ; orig_coord_info "chr2,62707192,62707295,+" ; protein_id "ENSP00000263991.5" ; tag basic appris_principal_4 CCDS ; transcript_id "EHBP1--UGP2^ENST00000263991.9" ; transcript_name "EHBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
EHBP1--UGP2 HAVANA gene 38565 56413 . + . FI_gene_label "UGP2^ENSG00000169764.16" ; ID "EHBP1--UGP2^UGP2^ENSG00000169764.16" ; ccdsid "CCDS1875.1" ; exon_id "ENSE00001926783.2" ; exon_number 1 ; gene_id "EHBP1--UGP2^UGP2^ENSG00000169764.16" ; gene_name UGP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129513.8" ; havana_transcript "OTTHUMT00000251688.1" ; hgnc_id "HGNC:12527" ; level 2 ; orig_coord_info "chr2,63842186,63842204,+" ; protein_id "ENSP00000338703.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "EHBP1--UGP2^ENST00000337130.10" ; transcript_name "UGP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
EHBP1--UGP2 HAVANA mRNA 38565 56413 . + . FI_gene_label "UGP2^ENSG00000169764.16" ; ID "EHBP1--UGP2^ENST00000337130.10" ; Parent "EHBP1--UGP2^UGP2^ENSG00000169764.16" ; ccdsid "CCDS1875.1" ; exon_id "ENSE00001926783.2" ; exon_number 1 ; gene_id "EHBP1--UGP2^UGP2^ENSG00000169764.16" ; gene_name UGP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129513.8" ; havana_transcript "OTTHUMT00000251688.1" ; hgnc_id "HGNC:12527" ; level 2 ; orig_coord_info "chr2,63842186,63842204,+" ; protein_id "ENSP00000338703.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "EHBP1--UGP2^ENST00000337130.10" ; transcript_name "UGP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
EXOC4--ST13P7 HAVANA gene 1006 38283 . + . FI_gene_label "EXOC4^ENSG00000131558.15" ; ID "EXOC4--ST13P7^EXOC4^ENSG00000131558.15" ; ccdsid "CCDS5829.1" ; exon_id "ENSE00003845393.1" ; exon_number 1 ; gene_id "EXOC4--ST13P7^EXOC4^ENSG00000131558.15" ; gene_name EXOC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155259.5" ; havana_transcript "OTTHUMT00000339182.2" ; hgnc_id "HGNC:30389" ; level 2 ; orig_coord_info "chr7,133253102,133253187,+" ; protein_id "ENSP00000253861.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "EXOC4--ST13P7^ENST00000253861.5" ; transcript_name "EXOC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
EXOC4--ST13P7 HAVANA mRNA 1006 38283 . + . FI_gene_label "EXOC4^ENSG00000131558.15" ; ID "EXOC4--ST13P7^ENST00000253861.5" ; Parent "EXOC4--ST13P7^EXOC4^ENSG00000131558.15" ; ccdsid "CCDS5829.1" ; exon_id "ENSE00003845393.1" ; exon_number 1 ; gene_id "EXOC4--ST13P7^EXOC4^ENSG00000131558.15" ; gene_name EXOC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155259.5" ; havana_transcript "OTTHUMT00000339182.2" ; hgnc_id "HGNC:30389" ; level 2 ; orig_coord_info "chr7,133253102,133253187,+" ; protein_id "ENSP00000253861.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "EXOC4--ST13P7^ENST00000253861.5" ; transcript_name "EXOC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GTF2I--UBE2D2 ENSEMBL gene 49569 54164 . + . FI_gene_label "UBE2D2^ENSG00000131508.16" ; ID "GTF2I--UBE2D2^UBE2D2^ENSG00000131508.16" ; exon_id "ENSE00003711786.1" ; exon_number 1 ; gene_id "GTF2I--UBE2D2^UBE2D2^ENSG00000131508.16" ; gene_name UBE2D2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163282.6" ; hgnc_id "HGNC:12475" ; level 3 ; orig_coord_info "chr5,139599562,139599585,+" ; protein_id "ENSP00000253815.3" ; tag basic appris_alternative_1 ; transcript_id "GTF2I--UBE2D2^ENST00000253815.3" ; transcript_name "UBE2D2-201" ; transcript_support_level 5 ; transcript_type protein_coding
GTF2I--UBE2D2 ENSEMBL mRNA 49569 54164 . + . FI_gene_label "UBE2D2^ENSG00000131508.16" ; ID "GTF2I--UBE2D2^ENST00000253815.3" ; Parent "GTF2I--UBE2D2^UBE2D2^ENSG00000131508.16" ; exon_id "ENSE00003711786.1" ; exon_number 1 ; gene_id "GTF2I--UBE2D2^UBE2D2^ENSG00000131508.16" ; gene_name UBE2D2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163282.6" ; hgnc_id "HGNC:12475" ; level 3 ; orig_coord_info "chr5,139599562,139599585,+" ; protein_id "ENSP00000253815.3" ; tag basic appris_alternative_1 ; transcript_id "GTF2I--UBE2D2^ENST00000253815.3" ; transcript_name "UBE2D2-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
GTF2I--UBE2D2 HAVANA gene 4664 8235 . + . FI_gene_label "GTF2I^ENSG00000263001.7" ; ID "GTF2I--UBE2D2^GTF2I^ENSG00000263001.7" ; exon_id "ENSE00003732947.1" ; exon_number 2 ; gene_id "GTF2I--UBE2D2^GTF2I^ENSG00000263001.7" ; gene_name GTF2I ; gene_type protein_coding ; havana_gene "OTTHUMG00000156237.8" ; havana_transcript "OTTHUMT00000343534.2" ; hgnc_id "HGNC:4659" ; level 2 ; orig_coord_info "chr7,74689129,74689227,+" ; protein_id "ENSP00000405022.1" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "GTF2I--UBE2D2^ENST00000432143.2" ; transcript_name "GTF2I-201" ; transcript_support_level 4 ; transcript_type protein_coding
GTF2I--UBE2D2 HAVANA mRNA 4664 8235 . + . FI_gene_label "GTF2I^ENSG00000263001.7" ; ID "GTF2I--UBE2D2^ENST00000432143.2" ; Parent "GTF2I--UBE2D2^GTF2I^ENSG00000263001.7" ; exon_id "ENSE00003732947.1" ; exon_number 2 ; gene_id "GTF2I--UBE2D2^GTF2I^ENSG00000263001.7" ; gene_name GTF2I ; gene_type protein_coding ; havana_gene "OTTHUMG00000156237.8" ; havana_transcript "OTTHUMT00000343534.2" ; hgnc_id "HGNC:4659" ; level 2 ; orig_coord_info "chr7,74689129,74689227,+" ; protein_id "ENSP00000405022.1" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "GTF2I--UBE2D2^ENST00000432143.2" ; transcript_name "GTF2I-201" ; transcript_support_level 4 ; transcript_type protein_coding
L1 and L2 created:
KARS1--AC025287.2 HAVANA gene 1979 15849 . + . FI_gene_label "KARS1^ENSG00000065427.15" ; ID "KARS1--AC025287.2^KARS1^ENSG00000065427.15" ; ccdsid "CCDS10923.1" ; exon_id "ENSE00001844980.2" ; exon_number 1 ; gene_id "KARS1--AC025287.2^KARS1^ENSG00000065427.15" ; gene_name KARS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137609.5" ; havana_transcript "OTTHUMT00000269023.2" ; hgnc_id "HGNC:6215" ; level 2 ; orig_coord_info "chr16,75647578,75647639,-" ; protein_id "ENSP00000303043.3" ; tag CAGE_supported_TSS basic MANE_Select appris_alternative_1 CCDS ; transcript_id "KARS1--AC025287.2^ENST00000302445.8" ; transcript_name "KARS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
KARS1--AC025287.2 HAVANA mRNA 1979 15849 . + . FI_gene_label "KARS1^ENSG00000065427.15" ; ID "KARS1--AC025287.2^ENST00000302445.8" ; Parent "KARS1--AC025287.2^KARS1^ENSG00000065427.15" ; ccdsid "CCDS10923.1" ; exon_id "ENSE00001844980.2" ; exon_number 1 ; gene_id "KARS1--AC025287.2^KARS1^ENSG00000065427.15" ; gene_name KARS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137609.5" ; havana_transcript "OTTHUMT00000269023.2" ; hgnc_id "HGNC:6215" ; level 2 ; orig_coord_info "chr16,75647578,75647639,-" ; protein_id "ENSP00000303043.3" ; tag CAGE_supported_TSS basic MANE_Select appris_alternative_1 CCDS ; transcript_id "KARS1--AC025287.2^ENST00000302445.8" ; transcript_name "KARS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KARS1--GABARAPL2 HAVANA gene 19104 24275 . + . FI_gene_label "GABARAPL2^ENSG00000034713.8" ; ID "KARS1--GABARAPL2^GABARAPL2^ENSG00000034713.8" ; ccdsid "CCDS10921.1" ; exon_id "ENSE00001143095.3" ; exon_number 1 ; gene_id "KARS1--GABARAPL2^GABARAPL2^ENSG00000034713.8" ; gene_name GABARAPL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137613.3" ; havana_transcript "OTTHUMT00000269029.2" ; hgnc_id "HGNC:13291" ; level 2 ; orig_coord_info "chr16,75566487,75566520,+" ; protein_id "ENSP00000037243.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KARS1--GABARAPL2^ENST00000037243.7" ; transcript_name "GABARAPL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
KARS1--GABARAPL2 HAVANA mRNA 19104 24275 . + . FI_gene_label "GABARAPL2^ENSG00000034713.8" ; ID "KARS1--GABARAPL2^ENST00000037243.7" ; Parent "KARS1--GABARAPL2^GABARAPL2^ENSG00000034713.8" ; ccdsid "CCDS10921.1" ; exon_id "ENSE00001143095.3" ; exon_number 1 ; gene_id "KARS1--GABARAPL2^GABARAPL2^ENSG00000034713.8" ; gene_name GABARAPL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137613.3" ; havana_transcript "OTTHUMT00000269029.2" ; hgnc_id "HGNC:13291" ; level 2 ; orig_coord_info "chr16,75566487,75566520,+" ; protein_id "ENSP00000037243.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KARS1--GABARAPL2^ENST00000037243.7" ; transcript_name "GABARAPL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KARS1--GABARAPL2 HAVANA gene 1979 15849 . + . FI_gene_label "KARS1^ENSG00000065427.15" ; ID "KARS1--GABARAPL2^KARS1^ENSG00000065427.15" ; ccdsid "CCDS10923.1" ; exon_id "ENSE00001844980.2" ; exon_number 1 ; gene_id "KARS1--GABARAPL2^KARS1^ENSG00000065427.15" ; gene_name KARS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137609.5" ; havana_transcript "OTTHUMT00000269023.2" ; hgnc_id "HGNC:6215" ; level 2 ; orig_coord_info "chr16,75647578,75647639,-" ; protein_id "ENSP00000303043.3" ; tag CAGE_supported_TSS basic MANE_Select appris_alternative_1 CCDS ; transcript_id "KARS1--GABARAPL2^ENST00000302445.8" ; transcript_name "KARS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
KARS1--GABARAPL2 HAVANA mRNA 1979 15849 . + . FI_gene_label "KARS1^ENSG00000065427.15" ; ID "KARS1--GABARAPL2^ENST00000302445.8" ; Parent "KARS1--GABARAPL2^KARS1^ENSG00000065427.15" ; ccdsid "CCDS10923.1" ; exon_id "ENSE00001844980.2" ; exon_number 1 ; gene_id "KARS1--GABARAPL2^KARS1^ENSG00000065427.15" ; gene_name KARS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137609.5" ; havana_transcript "OTTHUMT00000269023.2" ; hgnc_id "HGNC:6215" ; level 2 ; orig_coord_info "chr16,75647578,75647639,-" ; protein_id "ENSP00000303043.3" ; tag CAGE_supported_TSS basic MANE_Select appris_alternative_1 CCDS ; transcript_id "KARS1--GABARAPL2^ENST00000302445.8" ; transcript_name "KARS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KATNAL2--SAMD12 HAVANA gene 3203 21366 . + . FI_gene_label "KATNAL2^ENSG00000167216.17" ; ID "KATNAL2--SAMD12^KATNAL2^ENSG00000167216.17" ; ccdsid "CCDS32828.1" ; exon_id "ENSE00003586105.1" ; exon_number 2 ; gene_id "KATNAL2--SAMD12^KATNAL2^ENSG00000167216.17" ; gene_name KATNAL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179408.7" ; havana_transcript "OTTHUMT00000446138.3" ; hgnc_id "HGNC:25387" ; level 2 ; orig_coord_info "chr18,47052974,47053046,+" ; protein_id "ENSP00000245121.4" ; tag upstream_uORF basic CCDS ; transcript_id "KATNAL2--SAMD12^ENST00000245121.9" ; transcript_name "KATNAL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
KATNAL2--SAMD12 HAVANA mRNA 3203 21366 . + . FI_gene_label "KATNAL2^ENSG00000167216.17" ; ID "KATNAL2--SAMD12^ENST00000245121.9" ; Parent "KATNAL2--SAMD12^KATNAL2^ENSG00000167216.17" ; ccdsid "CCDS32828.1" ; exon_id "ENSE00003586105.1" ; exon_number 2 ; gene_id "KATNAL2--SAMD12^KATNAL2^ENSG00000167216.17" ; gene_name KATNAL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179408.7" ; havana_transcript "OTTHUMT00000446138.3" ; hgnc_id "HGNC:25387" ; level 2 ; orig_coord_info "chr18,47052974,47053046,+" ; protein_id "ENSP00000245121.4" ; tag upstream_uORF basic CCDS ; transcript_id "KATNAL2--SAMD12^ENST00000245121.9" ; transcript_name "KATNAL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KATNAL2--SAMD12 HAVANA gene 24516 35528 . + . FI_gene_label "SAMD12^ENSG00000177570.15" ; ID "KATNAL2--SAMD12^SAMD12^ENSG00000177570.15" ; ccdsid "CCDS6325.1" ; exon_id "ENSE00002146278.2" ; exon_number 1 ; gene_id "KATNAL2--SAMD12^SAMD12^ENSG00000177570.15" ; gene_name SAMD12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059817.6" ; havana_transcript "OTTHUMT00000132989.3" ; hgnc_id "HGNC:31750" ; level 2 ; orig_coord_info "chr8,118621804,118621816,-" ; protein_id "ENSP00000314173.4" ; tag basic MANE_Select CCDS ; transcript_id "KATNAL2--SAMD12^ENST00000314727.9" ; transcript_name "SAMD12-201" ; transcript_support_level 1 ; transcript_type protein_coding
KATNAL2--SAMD12 HAVANA mRNA 24516 35528 . + . FI_gene_label "SAMD12^ENSG00000177570.15" ; ID "KATNAL2--SAMD12^ENST00000314727.9" ; Parent "KATNAL2--SAMD12^SAMD12^ENSG00000177570.15" ; ccdsid "CCDS6325.1" ; exon_id "ENSE00002146278.2" ; exon_number 1 ; gene_id "KATNAL2--SAMD12^SAMD12^ENSG00000177570.15" ; gene_name SAMD12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059817.6" ; havana_transcript "OTTHUMT00000132989.3" ; hgnc_id "HGNC:31750" ; level 2 ; orig_coord_info "chr8,118621804,118621816,-" ; protein_id "ENSP00000314173.4" ; tag basic MANE_Select CCDS ; transcript_id "KATNAL2--SAMD12^ENST00000314727.9" ; transcript_name "SAMD12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
L3MBTL4--ST8SIA1 HAVANA gene 41053 53963 . + . FI_gene_label "ST8SIA1^ENSG00000111728.11" ; ID "L3MBTL4--ST8SIA1^ST8SIA1^ENSG00000111728.11" ; exon_id "ENSE00000915571.3" ; exon_number 1 ; gene_id "L3MBTL4--ST8SIA1^ST8SIA1^ENSG00000111728.11" ; gene_name ST8SIA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169098.3" ; havana_transcript "OTTHUMT00000402246.1" ; hgnc_id "HGNC:10869" ; level 2 ; orig_coord_info "chr12,22333997,22334232,-" ; protein_id "ENSP00000261197.3" ; transcript_id "L3MBTL4--ST8SIA1^ENST00000261197.7" ; transcript_name "ST8SIA1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
L3MBTL4--ST8SIA1 HAVANA mRNA 41053 53963 . + . FI_gene_label "ST8SIA1^ENSG00000111728.11" ; ID "L3MBTL4--ST8SIA1^ENST00000261197.7" ; Parent "L3MBTL4--ST8SIA1^ST8SIA1^ENSG00000111728.11" ; exon_id "ENSE00000915571.3" ; exon_number 1 ; gene_id "L3MBTL4--ST8SIA1^ST8SIA1^ENSG00000111728.11" ; gene_name ST8SIA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169098.3" ; havana_transcript "OTTHUMT00000402246.1" ; hgnc_id "HGNC:10869" ; level 2 ; orig_coord_info "chr12,22333997,22334232,-" ; protein_id "ENSP00000261197.3" ; transcript_id "L3MBTL4--ST8SIA1^ENST00000261197.7" ; transcript_name "ST8SIA1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
L3MBTL4--ST8SIA1 HAVANA gene 1327 32903 . + . FI_gene_label "L3MBTL4^ENSG00000154655.16" ; ID "L3MBTL4--ST8SIA1^L3MBTL4^ENSG00000154655.16" ; ccdsid "CCDS82238.1" ; exon_id "ENSE00001277344.3" ; exon_number 3 ; gene_id "L3MBTL4--ST8SIA1^L3MBTL4^ENSG00000154655.16" ; gene_name L3MBTL4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178980.2" ; havana_transcript "OTTHUMT00000254449.1" ; hgnc_id "HGNC:26677" ; level 2 ; orig_coord_info "chr18,6311554,6311625,-" ; protein_id "ENSP00000318543.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "L3MBTL4--ST8SIA1^ENST00000317931.12" ; transcript_name "L3MBTL4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L3MBTL4--ST8SIA1 HAVANA mRNA 1327 32903 . + . FI_gene_label "L3MBTL4^ENSG00000154655.16" ; ID "L3MBTL4--ST8SIA1^ENST00000317931.12" ; Parent "L3MBTL4--ST8SIA1^L3MBTL4^ENSG00000154655.16" ; ccdsid "CCDS82238.1" ; exon_id "ENSE00001277344.3" ; exon_number 3 ; gene_id "L3MBTL4--ST8SIA1^L3MBTL4^ENSG00000154655.16" ; gene_name L3MBTL4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178980.2" ; havana_transcript "OTTHUMT00000254449.1" ; hgnc_id "HGNC:26677" ; level 2 ; orig_coord_info "chr18,6311554,6311625,-" ; protein_id "ENSP00000318543.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "L3MBTL4--ST8SIA1^ENST00000317931.12" ; transcript_name "L3MBTL4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
LHFPL5--CLPSL1 HAVANA gene 3397 10913 . + . FI_gene_label "LHFPL5^ENSG00000197753.11" ; ID "LHFPL5--CLPSL1^LHFPL5^ENSG00000197753.11" ; ccdsid "CCDS4812.1" ; exon_id "ENSE00003831190.2" ; exon_number 1 ; gene_id "LHFPL5--CLPSL1^LHFPL5^ENSG00000197753.11" ; gene_name LHFPL5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014584.6" ; havana_transcript "OTTHUMT00000040323.4" ; hgnc_id "HGNC:21253" ; level 2 ; orig_coord_info "chr6,35805671,35806082,+" ; protein_id "ENSP00000353346.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHFPL5--CLPSL1^ENST00000360215.3" ; transcript_name "LHFPL5-201" ; transcript_support_level 1 ; transcript_type protein_coding
LHFPL5--CLPSL1 HAVANA mRNA 3397 10913 . + . FI_gene_label "LHFPL5^ENSG00000197753.11" ; ID "LHFPL5--CLPSL1^ENST00000360215.3" ; Parent "LHFPL5--CLPSL1^LHFPL5^ENSG00000197753.11" ; ccdsid "CCDS4812.1" ; exon_id "ENSE00003831190.2" ; exon_number 1 ; gene_id "LHFPL5--CLPSL1^LHFPL5^ENSG00000197753.11" ; gene_name LHFPL5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014584.6" ; havana_transcript "OTTHUMT00000040323.4" ; hgnc_id "HGNC:21253" ; level 2 ; orig_coord_info "chr6,35805671,35806082,+" ; protein_id "ENSP00000353346.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHFPL5--CLPSL1^ENST00000360215.3" ; transcript_name "LHFPL5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LHFPL5--CLPSL1 HAVANA gene 20636 22979 . + . FI_gene_label "CLPSL1^ENSG00000204140.10" ; ID "LHFPL5--CLPSL1^CLPSL1^ENSG00000204140.10" ; ccdsid "CCDS43456.1" ; exon_id "ENSE00001569343.4" ; exon_number 1 ; gene_id "LHFPL5--CLPSL1^CLPSL1^ENSG00000204140.10" ; gene_name CLPSL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014582.3" ; havana_transcript "OTTHUMT00000040317.3" ; hgnc_id "HGNC:21251" ; level 2 ; orig_coord_info "chr6,35781111,35781209,+" ; protein_id "ENSP00000362968.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHFPL5--CLPSL1^ENST00000373861.6" ; transcript_name "CLPSL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LHFPL5--CLPSL1 HAVANA mRNA 20636 22979 . + . FI_gene_label "CLPSL1^ENSG00000204140.10" ; ID "LHFPL5--CLPSL1^ENST00000373861.6" ; Parent "LHFPL5--CLPSL1^CLPSL1^ENSG00000204140.10" ; ccdsid "CCDS43456.1" ; exon_id "ENSE00001569343.4" ; exon_number 1 ; gene_id "LHFPL5--CLPSL1^CLPSL1^ENSG00000204140.10" ; gene_name CLPSL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014582.3" ; havana_transcript "OTTHUMT00000040317.3" ; hgnc_id "HGNC:21251" ; level 2 ; orig_coord_info "chr6,35781111,35781209,+" ; protein_id "ENSP00000362968.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHFPL5--CLPSL1^ENST00000373861.6" ; transcript_name "CLPSL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LIMS1--NLK HAVANA gene 2241 20420 . + . FI_gene_label "LIMS1^ENSG00000169756.16" ; ID "LIMS1--NLK^LIMS1^ENSG00000169756.16" ; ccdsid "CCDS2078.1" ; exon_id "ENSE00003687684.1" ; exon_number 2 ; gene_id "LIMS1--NLK^LIMS1^ENSG00000169756.16" ; gene_name LIMS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130983.11" ; havana_transcript "OTTHUMT00000330217.1" ; hgnc_id "HGNC:6616" ; level 2 ; orig_coord_info "chr2,108659609,108659764,+" ; protein_id "ENSP00000331775.6" ; tag alternative_5_UTR basic appris_alternative_1 CCDS ; transcript_id "LIMS1--NLK^ENST00000332345.10" ; transcript_name "LIMS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LIMS1--NLK HAVANA mRNA 2241 20420 . + . FI_gene_label "LIMS1^ENSG00000169756.16" ; ID "LIMS1--NLK^ENST00000332345.10" ; Parent "LIMS1--NLK^LIMS1^ENSG00000169756.16" ; ccdsid "CCDS2078.1" ; exon_id "ENSE00003687684.1" ; exon_number 2 ; gene_id "LIMS1--NLK^LIMS1^ENSG00000169756.16" ; gene_name LIMS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130983.11" ; havana_transcript "OTTHUMT00000330217.1" ; hgnc_id "HGNC:6616" ; level 2 ; orig_coord_info "chr2,108659609,108659764,+" ; protein_id "ENSP00000331775.6" ; tag alternative_5_UTR basic appris_alternative_1 CCDS ; transcript_id "LIMS1--NLK^ENST00000332345.10" ; transcript_name "LIMS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LIMS1--NLK HAVANA gene 27470 44095 . + . FI_gene_label "NLK^ENSG00000087095.13" ; ID "LIMS1--NLK^NLK^ENSG00000087095.13" ; ccdsid "CCDS11224.2" ; exon_id "ENSE00001428262.2" ; exon_number 1 ; gene_id "LIMS1--NLK^NLK^ENSG00000087095.13" ; gene_name NLK ; gene_type protein_coding ; havana_gene "OTTHUMG00000132451.9" ; havana_transcript "OTTHUMT00000255607.4" ; hgnc_id "HGNC:29858" ; level 2 ; orig_coord_info "chr17,28042874,28043331,+" ; protein_id "ENSP00000384625.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LIMS1--NLK^ENST00000407008.8" ; transcript_name "NLK-201" ; transcript_support_level 1 ; transcript_type protein_coding
LIMS1--NLK HAVANA mRNA 27470 44095 . + . FI_gene_label "NLK^ENSG00000087095.13" ; ID "LIMS1--NLK^ENST00000407008.8" ; Parent "LIMS1--NLK^NLK^ENSG00000087095.13" ; ccdsid "CCDS11224.2" ; exon_id "ENSE00001428262.2" ; exon_number 1 ; gene_id "LIMS1--NLK^NLK^ENSG00000087095.13" ; gene_name NLK ; gene_type protein_coding ; havana_gene "OTTHUMG00000132451.9" ; havana_transcript "OTTHUMT00000255607.4" ; hgnc_id "HGNC:29858" ; level 2 ; orig_coord_info "chr17,28042874,28043331,+" ; protein_id "ENSP00000384625.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LIMS1--NLK^ENST00000407008.8" ; transcript_name "NLK-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LRP12--KANK4 HAVANA gene 1001 16835 . + . FI_gene_label "LRP12^ENSG00000147650.12" ; ID "LRP12--KANK4^LRP12^ENSG00000147650.12" ; ccdsid "CCDS6303.1" ; exon_id "ENSE00002115998.2" ; exon_number 1 ; gene_id "LRP12--KANK4^LRP12^ENSG00000147650.12" ; gene_name LRP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164892.6" ; havana_transcript "OTTHUMT00000380821.1" ; hgnc_id "HGNC:31708" ; level 2 ; orig_coord_info "chr8,104588819,104588897,-" ; protein_id "ENSP00000276654.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "LRP12--KANK4^ENST00000276654.10" ; transcript_name "LRP12-201" ; transcript_support_level 1 ; transcript_type protein_coding
LRP12--KANK4 HAVANA mRNA 1001 16835 . + . FI_gene_label "LRP12^ENSG00000147650.12" ; ID "LRP12--KANK4^ENST00000276654.10" ; Parent "LRP12--KANK4^LRP12^ENSG00000147650.12" ; ccdsid "CCDS6303.1" ; exon_id "ENSE00002115998.2" ; exon_number 1 ; gene_id "LRP12--KANK4^LRP12^ENSG00000147650.12" ; gene_name LRP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164892.6" ; havana_transcript "OTTHUMT00000380821.1" ; hgnc_id "HGNC:31708" ; level 2 ; orig_coord_info "chr8,104588819,104588897,-" ; protein_id "ENSP00000276654.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "LRP12--KANK4^ENST00000276654.10" ; transcript_name "LRP12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LRP12--KANK4 HAVANA gene 29173 34252 . + . FI_gene_label "KANK4^ENSG00000132854.19" ; ID "LRP12--KANK4^KANK4^ENSG00000132854.19" ; exon_id "ENSE00003559773.1" ; exon_number 2 ; gene_id "LRP12--KANK4^KANK4^ENSG00000132854.19" ; gene_name KANK4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000008971.2" ; havana_transcript "OTTHUMT00000024880.1" ; hgnc_id "HGNC:27263" ; level 2 ; orig_coord_info "chr1,62253067,62253162,-" ; protein_id "ENSP00000321161.4" ; tag basic ; transcript_id "LRP12--KANK4^ENST00000317477.8" ; transcript_name "KANK4-201" ; transcript_support_level 2 ; transcript_type protein_coding
LRP12--KANK4 HAVANA mRNA 29173 34252 . + . FI_gene_label "KANK4^ENSG00000132854.19" ; ID "LRP12--KANK4^ENST00000317477.8" ; Parent "LRP12--KANK4^KANK4^ENSG00000132854.19" ; exon_id "ENSE00003559773.1" ; exon_number 2 ; gene_id "LRP12--KANK4^KANK4^ENSG00000132854.19" ; gene_name KANK4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000008971.2" ; havana_transcript "OTTHUMT00000024880.1" ; hgnc_id "HGNC:27263" ; level 2 ; orig_coord_info "chr1,62253067,62253162,-" ; protein_id "ENSP00000321161.4" ; tag basic ; transcript_id "LRP12--KANK4^ENST00000317477.8" ; transcript_name "KANK4-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
LRP12--USP1 HAVANA gene 1001 16835 . + . FI_gene_label "LRP12^ENSG00000147650.12" ; ID "LRP12--USP1^LRP12^ENSG00000147650.12" ; ccdsid "CCDS6303.1" ; exon_id "ENSE00002115998.2" ; exon_number 1 ; gene_id "LRP12--USP1^LRP12^ENSG00000147650.12" ; gene_name LRP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164892.6" ; havana_transcript "OTTHUMT00000380821.1" ; hgnc_id "HGNC:31708" ; level 2 ; orig_coord_info "chr8,104588819,104588897,-" ; protein_id "ENSP00000276654.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "LRP12--USP1^ENST00000276654.10" ; transcript_name "LRP12-201" ; transcript_support_level 1 ; transcript_type protein_coding
LRP12--USP1 HAVANA mRNA 1001 16835 . + . FI_gene_label "LRP12^ENSG00000147650.12" ; ID "LRP12--USP1^ENST00000276654.10" ; Parent "LRP12--USP1^LRP12^ENSG00000147650.12" ; ccdsid "CCDS6303.1" ; exon_id "ENSE00002115998.2" ; exon_number 1 ; gene_id "LRP12--USP1^LRP12^ENSG00000147650.12" ; gene_name LRP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164892.6" ; havana_transcript "OTTHUMT00000380821.1" ; hgnc_id "HGNC:31708" ; level 2 ; orig_coord_info "chr8,104588819,104588897,-" ; protein_id "ENSP00000276654.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "LRP12--USP1^ENST00000276654.10" ; transcript_name "LRP12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LRP12--USP1 HAVANA gene 20593 31593 . + . FI_gene_label "USP1^ENSG00000162607.13" ; ID "LRP12--USP1^USP1^ENSG00000162607.13" ; ccdsid "CCDS621.1" ; exon_id "ENSE00001376175.1" ; exon_number 2 ; gene_id "LRP12--USP1^USP1^ENSG00000162607.13" ; gene_name USP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000008972.5" ; havana_transcript "OTTHUMT00000024881.2" ; hgnc_id "HGNC:12607" ; level 2 ; orig_coord_info "chr1,62439868,62440037,+" ; protein_id "ENSP00000343526.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LRP12--USP1^ENST00000339950.5" ; transcript_name "USP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LRP12--USP1 HAVANA mRNA 20593 31593 . + . FI_gene_label "USP1^ENSG00000162607.13" ; ID "LRP12--USP1^ENST00000339950.5" ; Parent "LRP12--USP1^USP1^ENSG00000162607.13" ; ccdsid "CCDS621.1" ; exon_id "ENSE00001376175.1" ; exon_number 2 ; gene_id "LRP12--USP1^USP1^ENSG00000162607.13" ; gene_name USP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000008972.5" ; havana_transcript "OTTHUMT00000024881.2" ; hgnc_id "HGNC:12607" ; level 2 ; orig_coord_info "chr1,62439868,62440037,+" ; protein_id "ENSP00000343526.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LRP12--USP1^ENST00000339950.5" ; transcript_name "USP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NCOA2--AC087808.1 HAVANA gene 1001 33498 . + . FI_gene_label "NCOA2^ENSG00000140396.13" ; ID "NCOA2--AC087808.1^NCOA2^ENSG00000140396.13" ; ccdsid "CCDS47872.1" ; exon_id "ENSE00001090226.1" ; exon_number 3 ; gene_id "NCOA2--AC087808.1^NCOA2^ENSG00000140396.13" ; gene_name NCOA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164671.4" ; havana_transcript "OTTHUMT00000379696.2" ; hgnc_id "HGNC:7669" ; level 2 ; orig_coord_info "chr8,70216660,70216745,-" ; protein_id "ENSP00000399968.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NCOA2--AC087808.1^ENST00000452400.7" ; transcript_name "NCOA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
NCOA2--AC087808.1 HAVANA mRNA 1001 33498 . + . FI_gene_label "NCOA2^ENSG00000140396.13" ; ID "NCOA2--AC087808.1^ENST00000452400.7" ; Parent "NCOA2--AC087808.1^NCOA2^ENSG00000140396.13" ; ccdsid "CCDS47872.1" ; exon_id "ENSE00001090226.1" ; exon_number 3 ; gene_id "NCOA2--AC087808.1^NCOA2^ENSG00000140396.13" ; gene_name NCOA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164671.4" ; havana_transcript "OTTHUMT00000379696.2" ; hgnc_id "HGNC:7669" ; level 2 ; orig_coord_info "chr8,70216660,70216745,-" ; protein_id "ENSP00000399968.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NCOA2--AC087808.1^ENST00000452400.7" ; transcript_name "NCOA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NCOA2--RPL31P41 HAVANA gene 1001 33498 . + . FI_gene_label "NCOA2^ENSG00000140396.13" ; ID "NCOA2--RPL31P41^NCOA2^ENSG00000140396.13" ; ccdsid "CCDS47872.1" ; exon_id "ENSE00001090226.1" ; exon_number 3 ; gene_id "NCOA2--RPL31P41^NCOA2^ENSG00000140396.13" ; gene_name NCOA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164671.4" ; havana_transcript "OTTHUMT00000379696.2" ; hgnc_id "HGNC:7669" ; level 2 ; orig_coord_info "chr8,70216660,70216745,-" ; protein_id "ENSP00000399968.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NCOA2--RPL31P41^ENST00000452400.7" ; transcript_name "NCOA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
NCOA2--RPL31P41 HAVANA mRNA 1001 33498 . + . FI_gene_label "NCOA2^ENSG00000140396.13" ; ID "NCOA2--RPL31P41^ENST00000452400.7" ; Parent "NCOA2--RPL31P41^NCOA2^ENSG00000140396.13" ; ccdsid "CCDS47872.1" ; exon_id "ENSE00001090226.1" ; exon_number 3 ; gene_id "NCOA2--RPL31P41^NCOA2^ENSG00000140396.13" ; gene_name NCOA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164671.4" ; havana_transcript "OTTHUMT00000379696.2" ; hgnc_id "HGNC:7669" ; level 2 ; orig_coord_info "chr8,70216660,70216745,-" ; protein_id "ENSP00000399968.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NCOA2--RPL31P41^ENST00000452400.7" ; transcript_name "NCOA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NOMO1--SIPA1L1 HAVANA gene 1001 31473 . + . FI_gene_label "NOMO1^ENSG00000103512.15" ; ID "NOMO1--SIPA1L1^NOMO1^ENSG00000103512.15" ; ccdsid "CCDS10556.1" ; exon_id "ENSE00001870604.2" ; exon_number 1 ; gene_id "NOMO1--SIPA1L1^NOMO1^ENSG00000103512.15" ; gene_name NOMO1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000090541.3" ; havana_transcript "OTTHUMT00000207065.2" ; hgnc_id "HGNC:30060" ; level 2 ; orig_coord_info "chr16,14833852,14834016,+" ; protein_id "ENSP00000287667.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "NOMO1--SIPA1L1^ENST00000287667.12" ; transcript_name "NOMO1-201" ; transcript_support_level 1 ; transcript_type protein_coding
NOMO1--SIPA1L1 HAVANA mRNA 1001 31473 . + . FI_gene_label "NOMO1^ENSG00000103512.15" ; ID "NOMO1--SIPA1L1^ENST00000287667.12" ; Parent "NOMO1--SIPA1L1^NOMO1^ENSG00000103512.15" ; ccdsid "CCDS10556.1" ; exon_id "ENSE00001870604.2" ; exon_number 1 ; gene_id "NOMO1--SIPA1L1^NOMO1^ENSG00000103512.15" ; gene_name NOMO1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000090541.3" ; havana_transcript "OTTHUMT00000207065.2" ; hgnc_id "HGNC:30060" ; level 2 ; orig_coord_info "chr16,14833852,14834016,+" ; protein_id "ENSP00000287667.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "NOMO1--SIPA1L1^ENST00000287667.12" ; transcript_name "NOMO1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NOMO1--SIPA1L1 HAVANA gene 51960 79189 . + . FI_gene_label "SIPA1L1^ENSG00000197555.9" ; ID "NOMO1--SIPA1L1^SIPA1L1^ENSG00000197555.9" ; ccdsid "CCDS61491.1" ; exon_id "ENSE00001369903.1" ; exon_number 2 ; gene_id "NOMO1--SIPA1L1^SIPA1L1^ENSG00000197555.9" ; gene_name SIPA1L1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000171282.6" ; havana_transcript "OTTHUMT00000412807.1" ; hgnc_id "HGNC:20284" ; level 1 ; orig_coord_info "chr14,71587873,71589370,+" ; protein_id "ENSP00000351352.2" ; tag NAGNAG_splice_site basic appris_alternative_1 exp_conf CCDS ; transcript_id "NOMO1--SIPA1L1^ENST00000358550.6" ; transcript_name "SIPA1L1-201" ; transcript_support_level 2 ; transcript_type protein_coding
NOMO1--SIPA1L1 HAVANA mRNA 51960 79189 . + . FI_gene_label "SIPA1L1^ENSG00000197555.9" ; ID "NOMO1--SIPA1L1^ENST00000358550.6" ; Parent "NOMO1--SIPA1L1^SIPA1L1^ENSG00000197555.9" ; ccdsid "CCDS61491.1" ; exon_id "ENSE00001369903.1" ; exon_number 2 ; gene_id "NOMO1--SIPA1L1^SIPA1L1^ENSG00000197555.9" ; gene_name SIPA1L1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000171282.6" ; havana_transcript "OTTHUMT00000412807.1" ; hgnc_id "HGNC:20284" ; level 1 ; orig_coord_info "chr14,71587873,71589370,+" ; protein_id "ENSP00000351352.2" ; tag NAGNAG_splice_site basic appris_alternative_1 exp_conf CCDS ; transcript_id "NOMO1--SIPA1L1^ENST00000358550.6" ; transcript_name "SIPA1L1-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHA13 HAVANA gene 16359 24799 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA10--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA10--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 "PCDHA10--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA10--PCDHA13 HAVANA mRNA 16359 24799 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA10--PCDHA13^ENST00000289272.3" ; Parent "PCDHA10--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA10--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 "PCDHA10--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHA13 HAVANA gene 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHA13^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHA13^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHA13^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA10--PCDHA13 HAVANA mRNA 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHA13^ENST00000562220.2" ; Parent "PCDHA10--PCDHA13^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHA13^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHA13^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHAC1 HAVANA gene 16359 26374 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA10--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA10--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 "PCDHA10--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA10--PCDHAC1 HAVANA mRNA 16359 26374 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA10--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA10--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA10--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 "PCDHA10--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHAC1 HAVANA gene 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHAC1^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC1^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHAC1^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA10--PCDHAC1 HAVANA mRNA 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHAC1^ENST00000562220.2" ; Parent "PCDHA10--PCDHAC1^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC1^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHAC1^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHAC2 HAVANA gene 16365 27100 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA10--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA10--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 "PCDHA10--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA10--PCDHAC2 HAVANA mRNA 16365 27100 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA10--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA10--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA10--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 "PCDHA10--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHAC2 HAVANA gene 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHAC2^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC2^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHAC2^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA10--PCDHAC2 HAVANA mRNA 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHAC2^ENST00000562220.2" ; Parent "PCDHA10--PCDHAC2^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC2^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHAC2^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PDIA5--ITGB5 HAVANA gene 26888 50685 . + . FI_gene_label "ITGB5^ENSG00000082781.12" ; ID "PDIA5--ITGB5^ITGB5^ENSG00000082781.12" ; ccdsid "CCDS3030.1" ; exon_id "ENSE00001299954.5" ; exon_number 1 ; gene_id "PDIA5--ITGB5^ITGB5^ENSG00000082781.12" ; gene_name ITGB5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159432.10" ; havana_transcript "OTTHUMT00000355286.4" ; hgnc_id "HGNC:6160" ; level 2 ; orig_coord_info "chr3,124886931,124887000,-" ; protein_id "ENSP00000296181.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDIA5--ITGB5^ENST00000296181.9" ; transcript_name "ITGB5-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDIA5--ITGB5 HAVANA mRNA 26888 50685 . + . FI_gene_label "ITGB5^ENSG00000082781.12" ; ID "PDIA5--ITGB5^ENST00000296181.9" ; Parent "PDIA5--ITGB5^ITGB5^ENSG00000082781.12" ; ccdsid "CCDS3030.1" ; exon_id "ENSE00001299954.5" ; exon_number 1 ; gene_id "PDIA5--ITGB5^ITGB5^ENSG00000082781.12" ; gene_name ITGB5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159432.10" ; havana_transcript "OTTHUMT00000355286.4" ; hgnc_id "HGNC:6160" ; level 2 ; orig_coord_info "chr3,124886931,124887000,-" ; protein_id "ENSP00000296181.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDIA5--ITGB5^ENST00000296181.9" ; transcript_name "ITGB5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PDIA5--ITGB5 HAVANA gene 1001 17594 . + . FI_gene_label "PDIA5^ENSG00000065485.20" ; ID "PDIA5--ITGB5^PDIA5^ENSG00000065485.20" ; ccdsid "CCDS3020.1" ; exon_id "ENSE00001866959.2" ; exon_number 1 ; gene_id "PDIA5--ITGB5^PDIA5^ENSG00000065485.20" ; gene_name PDIA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159558.4" ; havana_transcript "OTTHUMT00000356192.2" ; hgnc_id "HGNC:24811" ; level 2 ; orig_coord_info "chr3,123067165,123067206,+" ; protein_id "ENSP00000323313.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDIA5--ITGB5^ENST00000316218.12" ; transcript_name "PDIA5-201" ; transcript_support_level 1 ; transcript_type protein_coding
PDIA5--ITGB5 HAVANA mRNA 1001 17594 . + . FI_gene_label "PDIA5^ENSG00000065485.20" ; ID "PDIA5--ITGB5^ENST00000316218.12" ; Parent "PDIA5--ITGB5^PDIA5^ENSG00000065485.20" ; ccdsid "CCDS3020.1" ; exon_id "ENSE00001866959.2" ; exon_number 1 ; gene_id "PDIA5--ITGB5^PDIA5^ENSG00000065485.20" ; gene_name PDIA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159558.4" ; havana_transcript "OTTHUMT00000356192.2" ; hgnc_id "HGNC:24811" ; level 2 ; orig_coord_info "chr3,123067165,123067206,+" ; protein_id "ENSP00000323313.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PDIA5--ITGB5^ENST00000316218.12" ; transcript_name "PDIA5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PEDS1--LINC01271 HAVANA gene 1001 9520 . + . FI_gene_label "PEDS1^ENSG00000240849.11" ; ID "PEDS1--LINC01271^PEDS1^ENSG00000240849.11" ; ccdsid "CCDS54473.1" ; exon_id "ENSE00001455768.1" ; exon_number 1 ; gene_id "PEDS1--LINC01271^PEDS1^ENSG00000240849.11" ; gene_name PEDS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152625.5" ; havana_transcript "OTTHUMT00000080533.1" ; hgnc_id "HGNC:16735" ; level 2 ; orig_coord_info "chr20,50153517,50153637,-" ; protein_id "ENSP00000360713.5" ; tag basic appris_alternative_1 CCDS ; transcript_id "PEDS1--LINC01271^ENST00000371650.9" ; transcript_name "PEDS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PEDS1--LINC01271 HAVANA mRNA 1001 9520 . + . FI_gene_label "PEDS1^ENSG00000240849.11" ; ID "PEDS1--LINC01271^ENST00000371650.9" ; Parent "PEDS1--LINC01271^PEDS1^ENSG00000240849.11" ; ccdsid "CCDS54473.1" ; exon_id "ENSE00001455768.1" ; exon_number 1 ; gene_id "PEDS1--LINC01271^PEDS1^ENSG00000240849.11" ; gene_name PEDS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152625.5" ; havana_transcript "OTTHUMT00000080533.1" ; hgnc_id "HGNC:16735" ; level 2 ; orig_coord_info "chr20,50153517,50153637,-" ; protein_id "ENSP00000360713.5" ; tag basic appris_alternative_1 CCDS ; transcript_id "PEDS1--LINC01271^ENST00000371650.9" ; transcript_name "PEDS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PEDS1--RN7SL636P HAVANA gene 1001 9520 . + . FI_gene_label "PEDS1^ENSG00000240849.11" ; ID "PEDS1--RN7SL636P^PEDS1^ENSG00000240849.11" ; ccdsid "CCDS54473.1" ; exon_id "ENSE00001455768.1" ; exon_number 1 ; gene_id "PEDS1--RN7SL636P^PEDS1^ENSG00000240849.11" ; gene_name PEDS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152625.5" ; havana_transcript "OTTHUMT00000080533.1" ; hgnc_id "HGNC:16735" ; level 2 ; orig_coord_info "chr20,50153517,50153637,-" ; protein_id "ENSP00000360713.5" ; tag basic appris_alternative_1 CCDS ; transcript_id "PEDS1--RN7SL636P^ENST00000371650.9" ; transcript_name "PEDS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PEDS1--RN7SL636P HAVANA mRNA 1001 9520 . + . FI_gene_label "PEDS1^ENSG00000240849.11" ; ID "PEDS1--RN7SL636P^ENST00000371650.9" ; Parent "PEDS1--RN7SL636P^PEDS1^ENSG00000240849.11" ; ccdsid "CCDS54473.1" ; exon_id "ENSE00001455768.1" ; exon_number 1 ; gene_id "PEDS1--RN7SL636P^PEDS1^ENSG00000240849.11" ; gene_name PEDS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152625.5" ; havana_transcript "OTTHUMT00000080533.1" ; hgnc_id "HGNC:16735" ; level 2 ; orig_coord_info "chr20,50153517,50153637,-" ; protein_id "ENSP00000360713.5" ; tag basic appris_alternative_1 CCDS ; transcript_id "PEDS1--RN7SL636P^ENST00000371650.9" ; transcript_name "PEDS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PMF1--SEMA4A HAVANA gene 15172 30308 . + . FI_gene_label "SEMA4A^ENSG00000196189.13" ; ID "PMF1--SEMA4A^SEMA4A^ENSG00000196189.13" ; ccdsid "CCDS1132.1" ; exon_id "ENSE00003474176.1" ; exon_number 2 ; gene_id "PMF1--SEMA4A^SEMA4A^ENSG00000196189.13" ; gene_name SEMA4A ; gene_type protein_coding ; havana_gene "OTTHUMG00000014042.5" ; havana_transcript "OTTHUMT00000039485.1" ; hgnc_id "HGNC:10729" ; level 2 ; orig_coord_info "chr1,156154579,156154717,+" ; protein_id "ENSP00000347117.2" ; tag basic appris_principal_2 CCDS ; transcript_id "PMF1--SEMA4A^ENST00000355014.6" ; transcript_name "SEMA4A-201" ; transcript_support_level 1 ; transcript_type protein_coding
PMF1--SEMA4A HAVANA mRNA 15172 30308 . + . FI_gene_label "SEMA4A^ENSG00000196189.13" ; ID "PMF1--SEMA4A^ENST00000355014.6" ; Parent "PMF1--SEMA4A^SEMA4A^ENSG00000196189.13" ; ccdsid "CCDS1132.1" ; exon_id "ENSE00003474176.1" ; exon_number 2 ; gene_id "PMF1--SEMA4A^SEMA4A^ENSG00000196189.13" ; gene_name SEMA4A ; gene_type protein_coding ; havana_gene "OTTHUMG00000014042.5" ; havana_transcript "OTTHUMT00000039485.1" ; hgnc_id "HGNC:10729" ; level 2 ; orig_coord_info "chr1,156154579,156154717,+" ; protein_id "ENSP00000347117.2" ; tag basic appris_principal_2 CCDS ; transcript_id "PMF1--SEMA4A^ENST00000355014.6" ; transcript_name "SEMA4A-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PMF1--SEMA4A HAVANA gene 1014 10619 . + . FI_gene_label "PMF1^ENSG00000160783.19" ; ID "PMF1--SEMA4A^PMF1^ENSG00000160783.19" ; ccdsid "CCDS55648.1" ; exon_id "ENSE00001935416.1" ; exon_number 1 ; gene_id "PMF1--SEMA4A^PMF1^ENSG00000160783.19" ; gene_name PMF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177123.3" ; havana_transcript "OTTHUMT00000040864.2" ; hgnc_id "HGNC:9112" ; level 1 ; orig_coord_info "chr1,156213016,156213176,+" ; protein_id "ENSP00000357256.4" ; tag basic exp_conf CCDS ; transcript_id "PMF1--SEMA4A^ENST00000368273.8" ; transcript_name "PMF1-201" ; transcript_support_level 2 ; transcript_type protein_coding
PMF1--SEMA4A HAVANA mRNA 1014 10619 . + . FI_gene_label "PMF1^ENSG00000160783.19" ; ID "PMF1--SEMA4A^ENST00000368273.8" ; Parent "PMF1--SEMA4A^PMF1^ENSG00000160783.19" ; ccdsid "CCDS55648.1" ; exon_id "ENSE00001935416.1" ; exon_number 1 ; gene_id "PMF1--SEMA4A^PMF1^ENSG00000160783.19" ; gene_name PMF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177123.3" ; havana_transcript "OTTHUMT00000040864.2" ; hgnc_id "HGNC:9112" ; level 1 ; orig_coord_info "chr1,156213016,156213176,+" ; protein_id "ENSP00000357256.4" ; tag basic exp_conf CCDS ; transcript_id "PMF1--SEMA4A^ENST00000368273.8" ; transcript_name "PMF1-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
PPARD--SCUBE3 HAVANA gene 15076 34535 . + . FI_gene_label "SCUBE3^ENSG00000146197.9" ; ID "PPARD--SCUBE3^SCUBE3^ENSG00000146197.9" ; ccdsid "CCDS4800.1" ; exon_id "ENSE00001933656.2" ; exon_number 1 ; gene_id "PPARD--SCUBE3^SCUBE3^ENSG00000146197.9" ; gene_name SCUBE3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014562.2" ; havana_transcript "OTTHUMT00000040275.2" ; hgnc_id "HGNC:13655" ; level 2 ; orig_coord_info "chr6,35214419,35214503,+" ; protein_id "ENSP00000274938.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPARD--SCUBE3^ENST00000274938.8" ; transcript_name "SCUBE3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PPARD--SCUBE3 HAVANA mRNA 15076 34535 . + . FI_gene_label "SCUBE3^ENSG00000146197.9" ; ID "PPARD--SCUBE3^ENST00000274938.8" ; Parent "PPARD--SCUBE3^SCUBE3^ENSG00000146197.9" ; ccdsid "CCDS4800.1" ; exon_id "ENSE00001933656.2" ; exon_number 1 ; gene_id "PPARD--SCUBE3^SCUBE3^ENSG00000146197.9" ; gene_name SCUBE3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014562.2" ; havana_transcript "OTTHUMT00000040275.2" ; hgnc_id "HGNC:13655" ; level 2 ; orig_coord_info "chr6,35214419,35214503,+" ; protein_id "ENSP00000274938.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPARD--SCUBE3^ENST00000274938.8" ; transcript_name "SCUBE3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PPARD--SCUBE3 HAVANA gene 1057 12062 . + . FI_gene_label "PPARD^ENSG00000112033.14" ; ID "PPARD--SCUBE3^PPARD^ENSG00000112033.14" ; ccdsid "CCDS4803.1" ; exon_id "ENSE00003892736.1" ; exon_number 4 ; gene_id "PPARD--SCUBE3^PPARD^ENSG00000112033.14" ; gene_name PPARD ; gene_type protein_coding ; havana_gene "OTTHUMG00000014567.3" ; havana_transcript "OTTHUMT00000040288.1" ; hgnc_id "HGNC:9235" ; level 2 ; orig_coord_info "chr6,35411088,35411217,+" ; protein_id "ENSP00000310928.4" ; tag basic appris_principal_1 CCDS ; transcript_id "PPARD--SCUBE3^ENST00000311565.4" ; transcript_name "PPARD-201" ; transcript_support_level 5 ; transcript_type protein_coding
PPARD--SCUBE3 HAVANA mRNA 1057 12062 . + . FI_gene_label "PPARD^ENSG00000112033.14" ; ID "PPARD--SCUBE3^ENST00000311565.4" ; Parent "PPARD--SCUBE3^PPARD^ENSG00000112033.14" ; ccdsid "CCDS4803.1" ; exon_id "ENSE00003892736.1" ; exon_number 4 ; gene_id "PPARD--SCUBE3^PPARD^ENSG00000112033.14" ; gene_name PPARD ; gene_type protein_coding ; havana_gene "OTTHUMG00000014567.3" ; havana_transcript "OTTHUMT00000040288.1" ; hgnc_id "HGNC:9235" ; level 2 ; orig_coord_info "chr6,35411088,35411217,+" ; protein_id "ENSP00000310928.4" ; tag basic appris_principal_1 CCDS ; transcript_id "PPARD--SCUBE3^ENST00000311565.4" ; transcript_name "PPARD-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PPP1R37--AL160314.2 HAVANA gene 2784 14729 . + . FI_gene_label "PPP1R37^ENSG00000104866.11" ; ID "PPP1R37--AL160314.2^PPP1R37^ENSG00000104866.11" ; ccdsid "CCDS56096.1" ; exon_id "ENSE00002292476.2" ; exon_number 1 ; gene_id "PPP1R37--AL160314.2^PPP1R37^ENSG00000104866.11" ; gene_name PPP1R37 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168143.5" ; havana_transcript "OTTHUMT00000398356.3" ; hgnc_id "HGNC:27607" ; level 2 ; orig_coord_info "chr19,45093326,45093527,+" ; protein_id "ENSP00000221462.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPP1R37--AL160314.2^ENST00000221462.9" ; transcript_name "PPP1R37-201" ; transcript_support_level 5 ; transcript_type protein_coding
PPP1R37--AL160314.2 HAVANA mRNA 2784 14729 . + . FI_gene_label "PPP1R37^ENSG00000104866.11" ; ID "PPP1R37--AL160314.2^ENST00000221462.9" ; Parent "PPP1R37--AL160314.2^PPP1R37^ENSG00000104866.11" ; ccdsid "CCDS56096.1" ; exon_id "ENSE00002292476.2" ; exon_number 1 ; gene_id "PPP1R37--AL160314.2^PPP1R37^ENSG00000104866.11" ; gene_name PPP1R37 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168143.5" ; havana_transcript "OTTHUMT00000398356.3" ; hgnc_id "HGNC:27607" ; level 2 ; orig_coord_info "chr19,45093326,45093527,+" ; protein_id "ENSP00000221462.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPP1R37--AL160314.2^ENST00000221462.9" ; transcript_name "PPP1R37-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PSEN1--ZW10 HAVANA gene 30173 44785 . + . FI_gene_label "ZW10^ENSG00000086827.9" ; ID "PSEN1--ZW10^ZW10^ENSG00000086827.9" ; ccdsid "CCDS8363.1" ; exon_id "ENSE00002241311.2" ; exon_number 1 ; gene_id "PSEN1--ZW10^ZW10^ENSG00000086827.9" ; gene_name ZW10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168190.2" ; havana_transcript "OTTHUMT00000398700.2" ; hgnc_id "HGNC:13194" ; level 2 ; orig_coord_info "chr11,113773562,113773666,-" ; protein_id "ENSP00000200135.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PSEN1--ZW10^ENST00000200135.8" ; transcript_name "ZW10-201" ; transcript_support_level 1 ; transcript_type protein_coding
PSEN1--ZW10 HAVANA mRNA 30173 44785 . + . FI_gene_label "ZW10^ENSG00000086827.9" ; ID "PSEN1--ZW10^ENST00000200135.8" ; Parent "PSEN1--ZW10^ZW10^ENSG00000086827.9" ; ccdsid "CCDS8363.1" ; exon_id "ENSE00002241311.2" ; exon_number 1 ; gene_id "PSEN1--ZW10^ZW10^ENSG00000086827.9" ; gene_name ZW10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168190.2" ; havana_transcript "OTTHUMT00000398700.2" ; hgnc_id "HGNC:13194" ; level 2 ; orig_coord_info "chr11,113773562,113773666,-" ; protein_id "ENSP00000200135.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PSEN1--ZW10^ENST00000200135.8" ; transcript_name "ZW10-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PSEN1--ZW10 HAVANA gene 1090 27129 . + . FI_gene_label "PSEN1^ENSG00000080815.19" ; ID "PSEN1--ZW10^PSEN1^ENSG00000080815.19" ; ccdsid "CCDS9812.1" ; exon_id "ENSE00001343119.1" ; exon_number 3 ; gene_id "PSEN1--ZW10^PSEN1^ENSG00000080815.19" ; gene_name PSEN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000141279.18" ; havana_transcript "OTTHUMT00000280500.3" ; hgnc_id "HGNC:9508" ; level 2 ; orig_coord_info "chr14,73148020,73148106,+" ; protein_id "ENSP00000326366.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "PSEN1--ZW10^ENST00000324501.10" ; transcript_name "PSEN1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PSEN1--ZW10 HAVANA mRNA 1090 27129 . + . FI_gene_label "PSEN1^ENSG00000080815.19" ; ID "PSEN1--ZW10^ENST00000324501.10" ; Parent "PSEN1--ZW10^PSEN1^ENSG00000080815.19" ; ccdsid "CCDS9812.1" ; exon_id "ENSE00001343119.1" ; exon_number 3 ; gene_id "PSEN1--ZW10^PSEN1^ENSG00000080815.19" ; gene_name PSEN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000141279.18" ; havana_transcript "OTTHUMT00000280500.3" ; hgnc_id "HGNC:9508" ; level 2 ; orig_coord_info "chr14,73148020,73148106,+" ; protein_id "ENSP00000326366.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "PSEN1--ZW10^ENST00000324501.10" ; transcript_name "PSEN1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RAD18--SSUH2 HAVANA gene 1302 19803 . + . FI_gene_label "RAD18^ENSG00000070950.10" ; ID "RAD18--SSUH2^RAD18^ENSG00000070950.10" ; ccdsid "CCDS2571.1" ; exon_id "ENSE00003462847.2" ; exon_number 1 ; gene_id "RAD18--SSUH2^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 "RAD18--SSUH2^ENST00000264926.7" ; transcript_name "RAD18-201" ; transcript_support_level 1 ; transcript_type protein_coding
RAD18--SSUH2 HAVANA mRNA 1302 19803 . + . FI_gene_label "RAD18^ENSG00000070950.10" ; ID "RAD18--SSUH2^ENST00000264926.7" ; Parent "RAD18--SSUH2^RAD18^ENSG00000070950.10" ; ccdsid "CCDS2571.1" ; exon_id "ENSE00003462847.2" ; exon_number 1 ; gene_id "RAD18--SSUH2^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 "RAD18--SSUH2^ENST00000264926.7" ; transcript_name "RAD18-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RAD18--SSUH2 HAVANA gene 30260 53856 . + . FI_gene_label "SSUH2^ENSG00000125046.15" ; ID "RAD18--SSUH2^SSUH2^ENSG00000125046.15" ; ccdsid "CCDS2568.1" ; exon_id "ENSE00003472175.1" ; exon_number 11 ; gene_id "RAD18--SSUH2^SSUH2^ENSG00000125046.15" ; gene_name SSUH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000122075.6" ; havana_transcript "OTTHUMT00000337900.1" ; hgnc_id "HGNC:24809" ; level 2 ; orig_coord_info "chr3,8633666,8633938,-" ; protein_id "ENSP00000324551.4" ; tag basic CCDS ; transcript_id "RAD18--SSUH2^ENST00000317371.8" ; transcript_name "SSUH2-201" ; transcript_support_level 2 ; transcript_type protein_coding
RAD18--SSUH2 HAVANA mRNA 30260 53856 . + . FI_gene_label "SSUH2^ENSG00000125046.15" ; ID "RAD18--SSUH2^ENST00000317371.8" ; Parent "RAD18--SSUH2^SSUH2^ENSG00000125046.15" ; ccdsid "CCDS2568.1" ; exon_id "ENSE00003472175.1" ; exon_number 11 ; gene_id "RAD18--SSUH2^SSUH2^ENSG00000125046.15" ; gene_name SSUH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000122075.6" ; havana_transcript "OTTHUMT00000337900.1" ; hgnc_id "HGNC:24809" ; level 2 ; orig_coord_info "chr3,8633666,8633938,-" ; protein_id "ENSP00000324551.4" ; tag basic CCDS ; transcript_id "RAD18--SSUH2^ENST00000317371.8" ; transcript_name "SSUH2-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
RIMS2--AP002851.1 HAVANA gene 9729 49361 . + . FI_gene_label "RIMS2^ENSG00000176406.23" ; ID "RIMS2--AP002851.1^RIMS2^ENSG00000176406.23" ; ccdsid "CCDS64948.1" ; exon_id "ENSE00002191590.1" ; exon_number 1 ; gene_id "RIMS2--AP002851.1^RIMS2^ENSG00000176406.23" ; gene_name RIMS2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000162097.12" ; havana_transcript "OTTHUMT00000367214.5" ; hgnc_id "HGNC:17283" ; level 2 ; orig_coord_info "chr8,103819508,103819629,+" ; protein_id "ENSP00000262231.10" ; tag basic CCDS ; transcript_id "RIMS2--AP002851.1^ENST00000262231.14" ; transcript_name "RIMS2-201" ; transcript_support_level 1 ; transcript_type protein_coding
RIMS2--AP002851.1 HAVANA mRNA 9729 49361 . + . FI_gene_label "RIMS2^ENSG00000176406.23" ; ID "RIMS2--AP002851.1^ENST00000262231.14" ; Parent "RIMS2--AP002851.1^RIMS2^ENSG00000176406.23" ; ccdsid "CCDS64948.1" ; exon_id "ENSE00002191590.1" ; exon_number 1 ; gene_id "RIMS2--AP002851.1^RIMS2^ENSG00000176406.23" ; gene_name RIMS2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000162097.12" ; havana_transcript "OTTHUMT00000367214.5" ; hgnc_id "HGNC:17283" ; level 2 ; orig_coord_info "chr8,103819508,103819629,+" ; protein_id "ENSP00000262231.10" ; tag basic CCDS ; transcript_id "RIMS2--AP002851.1^ENST00000262231.14" ; transcript_name "RIMS2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SERP1--SIAH2 HAVANA gene 7416 11914 . + . FI_gene_label "SERP1^ENSG00000120742.11" ; ID "SERP1--SIAH2^SERP1^ENSG00000120742.11" ; ccdsid "CCDS3150.1" ; exon_id "ENSE00001233110.7" ; exon_number 1 ; gene_id "SERP1--SIAH2^SERP1^ENSG00000120742.11" ; gene_name SERP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159769.4" ; havana_transcript "OTTHUMT00000504312.2" ; hgnc_id "HGNC:10759" ; level 2 ; orig_coord_info "chr3,150546052,150546135,-" ; protein_id "ENSP00000239944.2" ; tag RNA_Seq_supported_only basic MANE_Select appris_principal_1 CCDS ; transcript_id "SERP1--SIAH2^ENST00000239944.7" ; transcript_name "SERP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
SERP1--SIAH2 HAVANA mRNA 7416 11914 . + . FI_gene_label "SERP1^ENSG00000120742.11" ; ID "SERP1--SIAH2^ENST00000239944.7" ; Parent "SERP1--SIAH2^SERP1^ENSG00000120742.11" ; ccdsid "CCDS3150.1" ; exon_id "ENSE00001233110.7" ; exon_number 1 ; gene_id "SERP1--SIAH2^SERP1^ENSG00000120742.11" ; gene_name SERP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159769.4" ; havana_transcript "OTTHUMT00000504312.2" ; hgnc_id "HGNC:10759" ; level 2 ; orig_coord_info "chr3,150546052,150546135,-" ; protein_id "ENSP00000239944.2" ; tag RNA_Seq_supported_only basic MANE_Select appris_principal_1 CCDS ; transcript_id "SERP1--SIAH2^ENST00000239944.7" ; transcript_name "SERP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SERP1--SIAH2 HAVANA gene 15223 18533 . + . FI_gene_label "SIAH2^ENSG00000181788.4" ; ID "SERP1--SIAH2^SIAH2^ENSG00000181788.4" ; ccdsid "CCDS3152.1" ; exon_id "ENSE00001231588.5" ; exon_number 1 ; gene_id "SERP1--SIAH2^SIAH2^ENSG00000181788.4" ; gene_name SIAH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159847.3" ; havana_transcript "OTTHUMT00000357697.2" ; hgnc_id "HGNC:10858" ; level 2 ; orig_coord_info "chr3,150762433,150762849,-" ; protein_id "ENSP00000322457.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SERP1--SIAH2^ENST00000312960.4" ; transcript_name "SIAH2-201" ; transcript_support_level 1 ; transcript_type protein_coding
SERP1--SIAH2 HAVANA mRNA 15223 18533 . + . FI_gene_label "SIAH2^ENSG00000181788.4" ; ID "SERP1--SIAH2^ENST00000312960.4" ; Parent "SERP1--SIAH2^SIAH2^ENSG00000181788.4" ; ccdsid "CCDS3152.1" ; exon_id "ENSE00001231588.5" ; exon_number 1 ; gene_id "SERP1--SIAH2^SIAH2^ENSG00000181788.4" ; gene_name SIAH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159847.3" ; havana_transcript "OTTHUMT00000357697.2" ; hgnc_id "HGNC:10858" ; level 2 ; orig_coord_info "chr3,150762433,150762849,-" ; protein_id "ENSP00000322457.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SERP1--SIAH2^ENST00000312960.4" ; transcript_name "SIAH2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ST8SIA1--L3MBTL4 HAVANA gene 6139 19049 . + . FI_gene_label "ST8SIA1^ENSG00000111728.11" ; ID "ST8SIA1--L3MBTL4^ST8SIA1^ENSG00000111728.11" ; exon_id "ENSE00000915571.3" ; exon_number 1 ; gene_id "ST8SIA1--L3MBTL4^ST8SIA1^ENSG00000111728.11" ; gene_name ST8SIA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169098.3" ; havana_transcript "OTTHUMT00000402246.1" ; hgnc_id "HGNC:10869" ; level 2 ; orig_coord_info "chr12,22333997,22334232,-" ; protein_id "ENSP00000261197.3" ; transcript_id "ST8SIA1--L3MBTL4^ENST00000261197.7" ; transcript_name "ST8SIA1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
ST8SIA1--L3MBTL4 HAVANA mRNA 6139 19049 . + . FI_gene_label "ST8SIA1^ENSG00000111728.11" ; ID "ST8SIA1--L3MBTL4^ENST00000261197.7" ; Parent "ST8SIA1--L3MBTL4^ST8SIA1^ENSG00000111728.11" ; exon_id "ENSE00000915571.3" ; exon_number 1 ; gene_id "ST8SIA1--L3MBTL4^ST8SIA1^ENSG00000111728.11" ; gene_name ST8SIA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169098.3" ; havana_transcript "OTTHUMT00000402246.1" ; hgnc_id "HGNC:10869" ; level 2 ; orig_coord_info "chr12,22333997,22334232,-" ; protein_id "ENSP00000261197.3" ; transcript_id "ST8SIA1--L3MBTL4^ENST00000261197.7" ; transcript_name "ST8SIA1-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
ST8SIA1--L3MBTL4 HAVANA gene 40181 71757 . + . FI_gene_label "L3MBTL4^ENSG00000154655.16" ; ID "ST8SIA1--L3MBTL4^L3MBTL4^ENSG00000154655.16" ; ccdsid "CCDS82238.1" ; exon_id "ENSE00001277344.3" ; exon_number 3 ; gene_id "ST8SIA1--L3MBTL4^L3MBTL4^ENSG00000154655.16" ; gene_name L3MBTL4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178980.2" ; havana_transcript "OTTHUMT00000254449.1" ; hgnc_id "HGNC:26677" ; level 2 ; orig_coord_info "chr18,6311554,6311625,-" ; protein_id "ENSP00000318543.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "ST8SIA1--L3MBTL4^ENST00000317931.12" ; transcript_name "L3MBTL4-201" ; transcript_support_level 5 ; transcript_type protein_coding
ST8SIA1--L3MBTL4 HAVANA mRNA 40181 71757 . + . FI_gene_label "L3MBTL4^ENSG00000154655.16" ; ID "ST8SIA1--L3MBTL4^ENST00000317931.12" ; Parent "ST8SIA1--L3MBTL4^L3MBTL4^ENSG00000154655.16" ; ccdsid "CCDS82238.1" ; exon_id "ENSE00001277344.3" ; exon_number 3 ; gene_id "ST8SIA1--L3MBTL4^L3MBTL4^ENSG00000154655.16" ; gene_name L3MBTL4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178980.2" ; havana_transcript "OTTHUMT00000254449.1" ; hgnc_id "HGNC:26677" ; level 2 ; orig_coord_info "chr18,6311554,6311625,-" ; protein_id "ENSP00000318543.7" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "ST8SIA1--L3MBTL4^ENST00000317931.12" ; transcript_name "L3MBTL4-201" ; transcript_support_level 5 ; 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:
TRRAP--STYXL1 ENSEMBL gene 86356 97382 . + . FI_gene_label "STYXL1^ENSG00000127952.17" ; ID "TRRAP--STYXL1^STYXL1^ENSG00000127952.17" ; ccdsid "CCDS5580.1" ; exon_id "ENSE00003519865.1" ; exon_number 2 ; gene_id "TRRAP--STYXL1^STYXL1^ENSG00000127952.17" ; gene_name STYXL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130459.5" ; hgnc_id "HGNC:18165" ; level 3 ; orig_coord_info "chr7,76030421,76030523,-" ; protein_id "ENSP00000248600.1" ; tag basic appris_principal_1 CCDS ; transcript_id "TRRAP--STYXL1^ENST00000248600.5" ; transcript_name "STYXL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRRAP--STYXL1 ENSEMBL mRNA 86356 97382 . + . FI_gene_label "STYXL1^ENSG00000127952.17" ; ID "TRRAP--STYXL1^ENST00000248600.5" ; Parent "TRRAP--STYXL1^STYXL1^ENSG00000127952.17" ; ccdsid "CCDS5580.1" ; exon_id "ENSE00003519865.1" ; exon_number 2 ; gene_id "TRRAP--STYXL1^STYXL1^ENSG00000127952.17" ; gene_name STYXL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130459.5" ; hgnc_id "HGNC:18165" ; level 3 ; orig_coord_info "chr7,76030421,76030523,-" ; protein_id "ENSP00000248600.1" ; tag basic appris_principal_1 CCDS ; transcript_id "TRRAP--STYXL1^ENST00000248600.5" ; transcript_name "STYXL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TRRAP--STYXL1 HAVANA gene 1558 71136 . + . FI_gene_label "TRRAP^ENSG00000196367.14" ; ID "TRRAP--STYXL1^TRRAP^ENSG00000196367.14" ; ccdsid "CCDS5659.1" ; exon_id "ENSE00001130521.1" ; exon_number 2 ; gene_id "TRRAP--STYXL1^TRRAP^ENSG00000196367.14" ; gene_name TRRAP ; gene_type protein_coding ; havana_gene "OTTHUMG00000150403.5" ; havana_transcript "OTTHUMT00000317979.1" ; hgnc_id "HGNC:12347" ; level 2 ; orig_coord_info "chr7,98881151,98881250,+" ; protein_id "ENSP00000347733.3" ; tag basic appris_principal_2 CCDS ; transcript_id "TRRAP--STYXL1^ENST00000355540.7" ; transcript_name "TRRAP-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRRAP--STYXL1 HAVANA mRNA 1558 71136 . + . FI_gene_label "TRRAP^ENSG00000196367.14" ; ID "TRRAP--STYXL1^ENST00000355540.7" ; Parent "TRRAP--STYXL1^TRRAP^ENSG00000196367.14" ; ccdsid "CCDS5659.1" ; exon_id "ENSE00001130521.1" ; exon_number 2 ; gene_id "TRRAP--STYXL1^TRRAP^ENSG00000196367.14" ; gene_name TRRAP ; gene_type protein_coding ; havana_gene "OTTHUMG00000150403.5" ; havana_transcript "OTTHUMT00000317979.1" ; hgnc_id "HGNC:12347" ; level 2 ; orig_coord_info "chr7,98881151,98881250,+" ; protein_id "ENSP00000347733.3" ; tag basic appris_principal_2 CCDS ; transcript_id "TRRAP--STYXL1^ENST00000355540.7" ; transcript_name "TRRAP-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:
VPS11--AC104229.1 HAVANA gene 7005 8963 . + . FI_gene_label "VPS11^ENSG00000160695.15" ; ID "VPS11--AC104229.1^VPS11^ENSG00000160695.15" ; exon_id "ENSE00002160879.1" ; exon_number 1 ; gene_id "VPS11--AC104229.1^VPS11^ENSG00000160695.15" ; gene_name VPS11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166355.6" ; havana_transcript "OTTHUMT00000389680.2" ; hgnc_id "HGNC:14583" ; level 2 ; orig_coord_info "chr11,119073822,119073951,+" ; protein_id "ENSP00000485025.1" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "VPS11--AC104229.1^ENST00000530809.2" ; transcript_name "VPS11-204" ; transcript_support_level 5 ; transcript_type protein_coding
VPS11--AC104229.1 HAVANA mRNA 7005 8963 . + . FI_gene_label "VPS11^ENSG00000160695.15" ; ID "VPS11--AC104229.1^ENST00000530809.2" ; Parent "VPS11--AC104229.1^VPS11^ENSG00000160695.15" ; exon_id "ENSE00002160879.1" ; exon_number 1 ; gene_id "VPS11--AC104229.1^VPS11^ENSG00000160695.15" ; gene_name VPS11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166355.6" ; havana_transcript "OTTHUMT00000389680.2" ; hgnc_id "HGNC:14583" ; level 2 ; orig_coord_info "chr11,119073822,119073951,+" ; protein_id "ENSP00000485025.1" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "VPS11--AC104229.1^ENST00000530809.2" ; transcript_name "VPS11-204" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
VPS11--MIR548AP HAVANA gene 7005 8963 . + . FI_gene_label "VPS11^ENSG00000160695.15" ; ID "VPS11--MIR548AP^VPS11^ENSG00000160695.15" ; exon_id "ENSE00002160879.1" ; exon_number 1 ; gene_id "VPS11--MIR548AP^VPS11^ENSG00000160695.15" ; gene_name VPS11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166355.6" ; havana_transcript "OTTHUMT00000389680.2" ; hgnc_id "HGNC:14583" ; level 2 ; orig_coord_info "chr11,119073822,119073951,+" ; protein_id "ENSP00000485025.1" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "VPS11--MIR548AP^ENST00000530809.2" ; transcript_name "VPS11-204" ; transcript_support_level 5 ; transcript_type protein_coding
VPS11--MIR548AP HAVANA mRNA 7005 8963 . + . FI_gene_label "VPS11^ENSG00000160695.15" ; ID "VPS11--MIR548AP^ENST00000530809.2" ; Parent "VPS11--MIR548AP^VPS11^ENSG00000160695.15" ; exon_id "ENSE00002160879.1" ; exon_number 1 ; gene_id "VPS11--MIR548AP^VPS11^ENSG00000160695.15" ; gene_name VPS11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166355.6" ; havana_transcript "OTTHUMT00000389680.2" ; hgnc_id "HGNC:14583" ; level 2 ; orig_coord_info "chr11,119073822,119073951,+" ; protein_id "ENSP00000485025.1" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "VPS11--MIR548AP^ENST00000530809.2" ; transcript_name "VPS11-204" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
VPS39--ZNF106 HAVANA gene 29525 56514 . + . FI_gene_label "ZNF106^ENSG00000103994.18" ; ID "VPS39--ZNF106^ZNF106^ENSG00000103994.18" ; ccdsid "CCDS32208.1" ; exon_id "ENSE00002323335.1" ; exon_number 1 ; gene_id "VPS39--ZNF106^ZNF106^ENSG00000103994.18" ; gene_name ZNF106 ; gene_type protein_coding ; havana_gene "OTTHUMG00000173244.7" ; havana_transcript "OTTHUMT00000422587.1" ; hgnc_id "HGNC:12886" ; level 2 ; orig_coord_info "chr15,42456958,42457205,-" ; protein_id "ENSP00000263805.4" ; tag basic CCDS ; transcript_id "VPS39--ZNF106^ENST00000263805.8" ; transcript_name "ZNF106-201" ; transcript_support_level 1 ; transcript_type protein_coding
VPS39--ZNF106 HAVANA mRNA 29525 56514 . + . FI_gene_label "ZNF106^ENSG00000103994.18" ; ID "VPS39--ZNF106^ENST00000263805.8" ; Parent "VPS39--ZNF106^ZNF106^ENSG00000103994.18" ; ccdsid "CCDS32208.1" ; exon_id "ENSE00002323335.1" ; exon_number 1 ; gene_id "VPS39--ZNF106^ZNF106^ENSG00000103994.18" ; gene_name ZNF106 ; gene_type protein_coding ; havana_gene "OTTHUMG00000173244.7" ; havana_transcript "OTTHUMT00000422587.1" ; hgnc_id "HGNC:12886" ; level 2 ; orig_coord_info "chr15,42456958,42457205,-" ; protein_id "ENSP00000263805.4" ; tag basic CCDS ; transcript_id "VPS39--ZNF106^ENST00000263805.8" ; transcript_name "ZNF106-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
VPS39--ZNF106 HAVANA gene 1004 22539 . + . FI_gene_label "VPS39^ENSG00000166887.16" ; ID "VPS39--ZNF106^VPS39^ENSG00000166887.16" ; ccdsid "CCDS10083.1" ; exon_id "ENSE00001928144.2" ; exon_number 1 ; gene_id "VPS39--ZNF106^VPS39^ENSG00000166887.16" ; gene_name VPS39 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130467.4" ; havana_transcript "OTTHUMT00000252861.1" ; hgnc_id "HGNC:20593" ; level 2 ; orig_coord_info "chr15,42208081,42208153,-" ; protein_id "ENSP00000326534.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "VPS39--ZNF106^ENST00000318006.10" ; transcript_name "VPS39-201" ; transcript_support_level 1 ; transcript_type protein_coding
VPS39--ZNF106 HAVANA mRNA 1004 22539 . + . FI_gene_label "VPS39^ENSG00000166887.16" ; ID "VPS39--ZNF106^ENST00000318006.10" ; Parent "VPS39--ZNF106^VPS39^ENSG00000166887.16" ; ccdsid "CCDS10083.1" ; exon_id "ENSE00001928144.2" ; exon_number 1 ; gene_id "VPS39--ZNF106^VPS39^ENSG00000166887.16" ; gene_name VPS39 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130467.4" ; havana_transcript "OTTHUMT00000252861.1" ; hgnc_id "HGNC:20593" ; level 2 ; orig_coord_info "chr15,42208081,42208153,-" ; protein_id "ENSP00000326534.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "VPS39--ZNF106^ENST00000318006.10" ; transcript_name "VPS39-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC092807.3--DDAH1 HAVANA gene 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA
AC092807.3--DDAH1 HAVANA RNA 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^ENST00000467530.5" ; Parent "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
AC107294.2--GABRP HAVANA gene 4319 10402 . + . FI_gene_label "AC107294.2^ENSG00000272970.3" ; ID "AC107294.2--GABRP^AC107294.2^ENSG00000272970.3" ; exon_id "ENSE00003856313.1" ; exon_number 1 ; gene_id "AC107294.2--GABRP^AC107294.2^ENSG00000272970.3" ; gene_name "AC107294.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000195984.1" ; havana_transcript "OTTHUMT00000529072.1" ; level 2 ; orig_coord_info "chr3,184725979,184726205,+" ; tag TAGENE ; transcript_id "AC107294.2--GABRP^ENST00000610001.2" ; transcript_name "AC107294.2-206" ; transcript_support_level 3 ; transcript_type lncRNA
AC107294.2--GABRP HAVANA RNA 4319 10402 . + . FI_gene_label "AC107294.2^ENSG00000272970.3" ; ID "AC107294.2--GABRP^ENST00000610001.2" ; Parent "AC107294.2--GABRP^AC107294.2^ENSG00000272970.3" ; exon_id "ENSE00003856313.1" ; exon_number 1 ; gene_id "AC107294.2--GABRP^AC107294.2^ENSG00000272970.3" ; gene_name "AC107294.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000195984.1" ; havana_transcript "OTTHUMT00000529072.1" ; level 2 ; orig_coord_info "chr3,184725979,184726205,+" ; tag TAGENE ; transcript_id "AC107294.2--GABRP^ENST00000610001.2" ; transcript_name "AC107294.2-206" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
EXOC4--ST13P7 HAVANA gene 42112 43210 . + . FI_gene_label "ST13P7^ENSG00000237821.1" ; ID "EXOC4--ST13P7^ST13P7^ENSG00000237821.1" ; exon_id "ENSE00001729317.1" ; exon_number 1 ; gene_id "EXOC4--ST13P7^ST13P7^ENSG00000237821.1" ; gene_name ST13P7 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000155200.1" ; havana_transcript "OTTHUMT00000338737.1" ; hgnc_id "HGNC:18558" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr7,133169416,133170514,-" ; tag pseudo_consens basic ; transcript_id "EXOC4--ST13P7^ENST00000421179.1" ; transcript_name "ST13P7-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
EXOC4--ST13P7 HAVANA RNA 42112 43210 . + . FI_gene_label "ST13P7^ENSG00000237821.1" ; ID "EXOC4--ST13P7^ENST00000421179.1" ; Parent "EXOC4--ST13P7^ST13P7^ENSG00000237821.1" ; exon_id "ENSE00001729317.1" ; exon_number 1 ; gene_id "EXOC4--ST13P7^ST13P7^ENSG00000237821.1" ; gene_name ST13P7 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000155200.1" ; havana_transcript "OTTHUMT00000338737.1" ; hgnc_id "HGNC:18558" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr7,133169416,133170514,-" ; tag pseudo_consens basic ; transcript_id "EXOC4--ST13P7^ENST00000421179.1" ; transcript_name "ST13P7-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
KARS1--AC025287.2 HAVANA gene 19100 19767 . + . FI_gene_label "AC025287.2^ENSG00000276408.1" ; ID "KARS1--AC025287.2^AC025287.2^ENSG00000276408.1" ; exon_id "ENSE00003751132.1" ; exon_number 1 ; gene_id "KARS1--AC025287.2^AC025287.2^ENSG00000276408.1" ; gene_name "AC025287.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000186993.1" ; havana_transcript "OTTHUMT00000474212.1" ; level 2 ; orig_coord_info "chr16,75556392,75557059,+" ; tag CAGE_supported_TSS basic ; transcript_id "KARS1--AC025287.2^ENST00000621911.1" ; transcript_name "AC025287.2-201" ; transcript_support_level NA ; transcript_type lncRNA
KARS1--AC025287.2 HAVANA RNA 19100 19767 . + . FI_gene_label "AC025287.2^ENSG00000276408.1" ; ID "KARS1--AC025287.2^ENST00000621911.1" ; Parent "KARS1--AC025287.2^AC025287.2^ENSG00000276408.1" ; exon_id "ENSE00003751132.1" ; exon_number 1 ; gene_id "KARS1--AC025287.2^AC025287.2^ENSG00000276408.1" ; gene_name "AC025287.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000186993.1" ; havana_transcript "OTTHUMT00000474212.1" ; level 2 ; orig_coord_info "chr16,75556392,75557059,+" ; tag CAGE_supported_TSS basic ; transcript_id "KARS1--AC025287.2^ENST00000621911.1" ; transcript_name "AC025287.2-201" ; transcript_support_level NA ; transcript_type lncRNA
L1 and L2 created:
NCOA2--AC087808.1 HAVANA gene 36499 36859 . + . FI_gene_label "AC087808.1^ENSG00000253493.1" ; ID "NCOA2--AC087808.1^AC087808.1^ENSG00000253493.1" ; exon_id "ENSE00002139860.1" ; exon_number 1 ; gene_id "NCOA2--AC087808.1^AC087808.1^ENSG00000253493.1" ; gene_name "AC087808.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164370.1" ; havana_transcript "OTTHUMT00000378476.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,64973488,64973848,-" ; tag pseudo_consens basic ; transcript_id "NCOA2--AC087808.1^ENST00000520501.1" ; transcript_name "AC087808.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
NCOA2--AC087808.1 HAVANA RNA 36499 36859 . + . FI_gene_label "AC087808.1^ENSG00000253493.1" ; ID "NCOA2--AC087808.1^ENST00000520501.1" ; Parent "NCOA2--AC087808.1^AC087808.1^ENSG00000253493.1" ; exon_id "ENSE00002139860.1" ; exon_number 1 ; gene_id "NCOA2--AC087808.1^AC087808.1^ENSG00000253493.1" ; gene_name "AC087808.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164370.1" ; havana_transcript "OTTHUMT00000378476.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,64973488,64973848,-" ; tag pseudo_consens basic ; transcript_id "NCOA2--AC087808.1^ENST00000520501.1" ; transcript_name "AC087808.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
NCOA2--RPL31P41 HAVANA gene 36499 36870 . + . FI_gene_label "RPL31P41^ENSG00000239261.1" ; ID "NCOA2--RPL31P41^RPL31P41^ENSG00000239261.1" ; exon_id "ENSE00001866145.1" ; exon_number 1 ; gene_id "NCOA2--RPL31P41^RPL31P41^ENSG00000239261.1" ; gene_name RPL31P41 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158619.1" ; havana_transcript "OTTHUMT00000351478.1" ; hgnc_id "HGNC:36720" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,65155407,65155778,+" ; tag pseudo_consens basic ; transcript_id "NCOA2--RPL31P41^ENST00000477967.1" ; transcript_name "RPL31P41-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
NCOA2--RPL31P41 HAVANA RNA 36499 36870 . + . FI_gene_label "RPL31P41^ENSG00000239261.1" ; ID "NCOA2--RPL31P41^ENST00000477967.1" ; Parent "NCOA2--RPL31P41^RPL31P41^ENSG00000239261.1" ; exon_id "ENSE00001866145.1" ; exon_number 1 ; gene_id "NCOA2--RPL31P41^RPL31P41^ENSG00000239261.1" ; gene_name RPL31P41 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158619.1" ; havana_transcript "OTTHUMT00000351478.1" ; hgnc_id "HGNC:36720" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,65155407,65155778,+" ; tag pseudo_consens basic ; transcript_id "NCOA2--RPL31P41^ENST00000477967.1" ; transcript_name "RPL31P41-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
PEDS1--LINC01271 HAVANA gene 18004 22253 . + . FI_gene_label "LINC01271^ENSG00000233077.1" ; ID "PEDS1--LINC01271^LINC01271^ENSG00000233077.1" ; exon_id "ENSE00001726265.1" ; exon_number 1 ; gene_id "PEDS1--LINC01271^LINC01271^ENSG00000233077.1" ; gene_name LINC01271 ; gene_type lncRNA ; havana_gene "OTTHUMG00000032720.1" ; havana_transcript "OTTHUMT00000079680.1" ; hgnc_id "HGNC:50327" ; level 2 ; orig_coord_info "chr20,50321075,50321342,-" ; tag basic ; transcript_id "PEDS1--LINC01271^ENST00000441214.1" ; transcript_name "LINC01271-201" ; transcript_support_level 1 ; transcript_type lncRNA
PEDS1--LINC01271 HAVANA RNA 18004 22253 . + . FI_gene_label "LINC01271^ENSG00000233077.1" ; ID "PEDS1--LINC01271^ENST00000441214.1" ; Parent "PEDS1--LINC01271^LINC01271^ENSG00000233077.1" ; exon_id "ENSE00001726265.1" ; exon_number 1 ; gene_id "PEDS1--LINC01271^LINC01271^ENSG00000233077.1" ; gene_name LINC01271 ; gene_type lncRNA ; havana_gene "OTTHUMG00000032720.1" ; havana_transcript "OTTHUMT00000079680.1" ; hgnc_id "HGNC:50327" ; level 2 ; orig_coord_info "chr20,50321075,50321342,-" ; tag basic ; transcript_id "PEDS1--LINC01271^ENST00000441214.1" ; transcript_name "LINC01271-201" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
PEDS1--RN7SL636P ENSEMBL gene 18004 18297 . + . FI_gene_label "RN7SL636P^ENSG00000244376.3" ; ID "PEDS1--RN7SL636P^RN7SL636P^ENSG00000244376.3" ; exon_id "ENSE00001841589.3" ; exon_number 1 ; gene_id "PEDS1--RN7SL636P^RN7SL636P^ENSG00000244376.3" ; gene_name RN7SL636P ; gene_type misc_RNA ; hgnc_id "HGNC:46652" ; level 3 ; orig_coord_info "chr20,50429190,50429483,-" ; tag basic ; transcript_id "PEDS1--RN7SL636P^ENST00000497504.3" ; transcript_name "RN7SL636P-201" ; transcript_support_level NA ; transcript_type misc_RNA
PEDS1--RN7SL636P ENSEMBL RNA 18004 18297 . + . FI_gene_label "RN7SL636P^ENSG00000244376.3" ; ID "PEDS1--RN7SL636P^ENST00000497504.3" ; Parent "PEDS1--RN7SL636P^RN7SL636P^ENSG00000244376.3" ; exon_id "ENSE00001841589.3" ; exon_number 1 ; gene_id "PEDS1--RN7SL636P^RN7SL636P^ENSG00000244376.3" ; gene_name RN7SL636P ; gene_type misc_RNA ; hgnc_id "HGNC:46652" ; level 3 ; orig_coord_info "chr20,50429190,50429483,-" ; tag basic ; transcript_id "PEDS1--RN7SL636P^ENST00000497504.3" ; transcript_name "RN7SL636P-201" ; transcript_support_level NA ; transcript_type misc_RNA
L1 and L2 created:
PPP1R37--AL160314.2 HAVANA gene 18524 25258 . + . FI_gene_label "AL160314.2^ENSG00000258458.8" ; ID "PPP1R37--AL160314.2^AL160314.2^ENSG00000258458.8" ; exon_id "ENSE00002492094.1" ; exon_number 1 ; gene_id "PPP1R37--AL160314.2^AL160314.2^ENSG00000258458.8" ; gene_name "AL160314.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000170992.5" ; havana_transcript "OTTHUMT00000411110.1" ; level 2 ; orig_coord_info "chr14,22766424,22766560,-" ; tag basic ; transcript_id "PPP1R37--AL160314.2^ENST00000553792.1" ; transcript_name "AL160314.2-204" ; transcript_support_level 5 ; transcript_type lncRNA
PPP1R37--AL160314.2 HAVANA RNA 18524 25258 . + . FI_gene_label "AL160314.2^ENSG00000258458.8" ; ID "PPP1R37--AL160314.2^ENST00000553792.1" ; Parent "PPP1R37--AL160314.2^AL160314.2^ENSG00000258458.8" ; exon_id "ENSE00002492094.1" ; exon_number 1 ; gene_id "PPP1R37--AL160314.2^AL160314.2^ENSG00000258458.8" ; gene_name "AL160314.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000170992.5" ; havana_transcript "OTTHUMT00000411110.1" ; level 2 ; orig_coord_info "chr14,22766424,22766560,-" ; tag basic ; transcript_id "PPP1R37--AL160314.2^ENST00000553792.1" ; transcript_name "AL160314.2-204" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
RIMS2--AP002851.1 HAVANA gene 56597 62726 . + . FI_gene_label "AP002851.1^ENSG00000283959.1" ; ID "RIMS2--AP002851.1^AP002851.1^ENSG00000283959.1" ; exon_id "ENSE00003808077.1" ; exon_number 1 ; gene_id "RIMS2--AP002851.1^AP002851.1^ENSG00000283959.1" ; gene_name "AP002851.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000191992.1" ; havana_transcript "OTTHUMT00000491882.1" ; level 2 ; orig_coord_info "chr8,102656464,102656786,+" ; tag RNA_Seq_supported_only basic ; transcript_id "RIMS2--AP002851.1^ENST00000640504.1" ; transcript_name "AP002851.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
RIMS2--AP002851.1 HAVANA RNA 56597 62726 . + . FI_gene_label "AP002851.1^ENSG00000283959.1" ; ID "RIMS2--AP002851.1^ENST00000640504.1" ; Parent "RIMS2--AP002851.1^AP002851.1^ENSG00000283959.1" ; exon_id "ENSE00003808077.1" ; exon_number 1 ; gene_id "RIMS2--AP002851.1^AP002851.1^ENSG00000283959.1" ; gene_name "AP002851.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000191992.1" ; havana_transcript "OTTHUMT00000491882.1" ; level 2 ; orig_coord_info "chr8,102656464,102656786,+" ; tag RNA_Seq_supported_only basic ; transcript_id "RIMS2--AP002851.1^ENST00000640504.1" ; transcript_name "AP002851.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
TLK2P1--AC110079.1 HAVANA RNA 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^ENST00000530992.1" ; Parent "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
TLK2P1--AC110079.1 HAVANA RNA 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^ENST00000567913.2" ; Parent "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
VPS11--AC104229.1 HAVANA gene 15498 15752 . + . FI_gene_label "AC104229.1^ENSG00000259608.1" ; ID "VPS11--AC104229.1^AC104229.1^ENSG00000259608.1" ; exon_id "ENSE00002546973.1" ; exon_number 1 ; gene_id "VPS11--AC104229.1^AC104229.1^ENSG00000259608.1" ; gene_name "AC104229.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000172156.1" ; havana_transcript "OTTHUMT00000417147.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr15,85958717,85958971,-" ; tag pseudo_consens basic ; transcript_id "VPS11--AC104229.1^ENST00000561364.1" ; transcript_name "AC104229.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
VPS11--AC104229.1 HAVANA RNA 15498 15752 . + . FI_gene_label "AC104229.1^ENSG00000259608.1" ; ID "VPS11--AC104229.1^ENST00000561364.1" ; Parent "VPS11--AC104229.1^AC104229.1^ENSG00000259608.1" ; exon_id "ENSE00002546973.1" ; exon_number 1 ; gene_id "VPS11--AC104229.1^AC104229.1^ENSG00000259608.1" ; gene_name "AC104229.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000172156.1" ; havana_transcript "OTTHUMT00000417147.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr15,85958717,85958971,-" ; tag pseudo_consens basic ; transcript_id "VPS11--AC104229.1^ENST00000561364.1" ; transcript_name "AC104229.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
VPS11--MIR548AP ENSEMBL gene 15498 15593 . + . FI_gene_label "MIR548AP^ENSG00000264406.1" ; ID "VPS11--MIR548AP^MIR548AP^ENSG00000264406.1" ; exon_id "ENSE00002711343.1" ; exon_number 1 ; gene_id "VPS11--MIR548AP^MIR548AP^ENSG00000264406.1" ; gene_name MIR548AP ; gene_type miRNA ; hgnc_id "HGNC:43465" ; level 3 ; orig_coord_info "chr15,85825635,85825730,+" ; tag basic ; transcript_id "VPS11--MIR548AP^ENST00000584739.1" ; transcript_name "MIR548AP-201" ; transcript_support_level NA ; transcript_type miRNA
VPS11--MIR548AP ENSEMBL RNA 15498 15593 . + . FI_gene_label "MIR548AP^ENSG00000264406.1" ; ID "VPS11--MIR548AP^ENST00000584739.1" ; Parent "VPS11--MIR548AP^MIR548AP^ENSG00000264406.1" ; exon_id "ENSE00002711343.1" ; exon_number 1 ; gene_id "VPS11--MIR548AP^MIR548AP^ENSG00000264406.1" ; gene_name MIR548AP ; gene_type miRNA ; hgnc_id "HGNC:43465" ; level 3 ; orig_coord_info "chr15,85825635,85825730,+" ; tag basic ; transcript_id "VPS11--MIR548AP^ENST00000584739.1" ; transcript_name "MIR548AP-201" ; transcript_support_level NA ; transcript_type miRNA
734 cases fixed where L3 features have parent feature(s) missing
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
------------------------------ done in 0 seconds -------------------------------
------------------------- Check7: all level3 locations -------------------------
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check8: check cds -------------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
------------------------------ done in 1 seconds -------------------------------
----------------------------- Check10: check utrs ------------------------------
1321 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 64 wrong level1 location cases
------------------------------ done in 0 seconds -------------------------------
---------------------- Check13: remove identical isoforms ----------------------
None found
------------------------------ done in 0 seconds -------------------------------
------ End checks (done in 1 second) ------
GFF3 file parsed