Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3a/1a6f96d230c161604033a6ad4d8975/fi_workdir/aih-tih-sc-951f98-R1_A23WJ53LT4_1.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c9/b3589d37e000cba3f06f9b3166ffcb/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c9/b3589d37e000cba3f06f9b3166ffcb/.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: 7734
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 7734
=> Number of feature type (3rd column): 2
* Level1: 0 =>
* level2: 0 =>
* level3: 2 => CDS exon
* unknown: 0 =>
=>Check because only level3 features:
* Number of feature with Parent attribute:0
* Number of feature with a common attribute:7734
=> 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:
ARHGEF10L--BCL2L14 HAVANA gene 18785 37949 . + . FI_gene_label "ARHGEF10L^ENSG00000074964.17" ; ID "ARHGEF10L--BCL2L14^ARHGEF10L^ENSG00000074964.17" ; exon_id "ENSE00001833298.1" ; exon_number 1 ; gene_id "ARHGEF10L--BCL2L14^ARHGEF10L^ENSG00000074964.17" ; gene_name ARHGEF10L ; gene_type protein_coding ; havana_gene "OTTHUMG00000002514.4" ; havana_transcript "OTTHUMT00000007151.2" ; hgnc_id "HGNC:25540" ; level 2 ; orig_coord_info "chr1,17626007,17626048,+" ; protein_id "ENSP00000167825.5" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ARHGEF10L--BCL2L14^ENST00000167825.5" ; transcript_name "ARHGEF10L-201" ; transcript_support_level 2 ; transcript_type nonsense_mediated_decay
ARHGEF10L--BCL2L14 HAVANA mRNA 18785 37949 . + . FI_gene_label "ARHGEF10L^ENSG00000074964.17" ; ID "ARHGEF10L--BCL2L14^ENST00000167825.5" ; Parent "ARHGEF10L--BCL2L14^ARHGEF10L^ENSG00000074964.17" ; exon_id "ENSE00001833298.1" ; exon_number 1 ; gene_id "ARHGEF10L--BCL2L14^ARHGEF10L^ENSG00000074964.17" ; gene_name ARHGEF10L ; gene_type protein_coding ; havana_gene "OTTHUMG00000002514.4" ; havana_transcript "OTTHUMT00000007151.2" ; hgnc_id "HGNC:25540" ; level 2 ; orig_coord_info "chr1,17626007,17626048,+" ; protein_id "ENSP00000167825.5" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ARHGEF10L--BCL2L14^ENST00000167825.5" ; transcript_name "ARHGEF10L-201" ; transcript_support_level 2 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
ARHGEF10L--BCL2L14 HAVANA gene 46923 56213 . + . FI_gene_label "BCL2L14^ENSG00000121380.12" ; ID "ARHGEF10L--BCL2L14^BCL2L14^ENSG00000121380.12" ; ccdsid "CCDS8646.1" ; exon_id "ENSE00003557359.1" ; exon_number 2 ; gene_id "ARHGEF10L--BCL2L14^BCL2L14^ENSG00000121380.12" ; gene_name BCL2L14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159528.5" ; havana_transcript "OTTHUMT00000355996.1" ; hgnc_id "HGNC:16657" ; level 2 ; orig_coord_info "chr12,12079306,12079738,+" ; protein_id "ENSP00000266434.4" ; tag NMD_exception basic CCDS ; transcript_id "ARHGEF10L--BCL2L14^ENST00000266434.8" ; transcript_name "BCL2L14-201" ; transcript_support_level 1 ; transcript_type protein_coding
ARHGEF10L--BCL2L14 HAVANA mRNA 46923 56213 . + . FI_gene_label "BCL2L14^ENSG00000121380.12" ; ID "ARHGEF10L--BCL2L14^ENST00000266434.8" ; Parent "ARHGEF10L--BCL2L14^BCL2L14^ENSG00000121380.12" ; ccdsid "CCDS8646.1" ; exon_id "ENSE00003557359.1" ; exon_number 2 ; gene_id "ARHGEF10L--BCL2L14^BCL2L14^ENSG00000121380.12" ; gene_name BCL2L14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000159528.5" ; havana_transcript "OTTHUMT00000355996.1" ; hgnc_id "HGNC:16657" ; level 2 ; orig_coord_info "chr12,12079306,12079738,+" ; protein_id "ENSP00000266434.4" ; tag NMD_exception basic CCDS ; transcript_id "ARHGEF10L--BCL2L14^ENST00000266434.8" ; transcript_name "BCL2L14-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ARHGEF10L--ETV6 HAVANA gene 18785 37949 . + . FI_gene_label "ARHGEF10L^ENSG00000074964.17" ; ID "ARHGEF10L--ETV6^ARHGEF10L^ENSG00000074964.17" ; exon_id "ENSE00001833298.1" ; exon_number 1 ; gene_id "ARHGEF10L--ETV6^ARHGEF10L^ENSG00000074964.17" ; gene_name ARHGEF10L ; gene_type protein_coding ; havana_gene "OTTHUMG00000002514.4" ; havana_transcript "OTTHUMT00000007151.2" ; hgnc_id "HGNC:25540" ; level 2 ; orig_coord_info "chr1,17626007,17626048,+" ; protein_id "ENSP00000167825.5" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ARHGEF10L--ETV6^ENST00000167825.5" ; transcript_name "ARHGEF10L-201" ; transcript_support_level 2 ; transcript_type nonsense_mediated_decay
ARHGEF10L--ETV6 HAVANA mRNA 18785 37949 . + . FI_gene_label "ARHGEF10L^ENSG00000074964.17" ; ID "ARHGEF10L--ETV6^ENST00000167825.5" ; Parent "ARHGEF10L--ETV6^ARHGEF10L^ENSG00000074964.17" ; exon_id "ENSE00001833298.1" ; exon_number 1 ; gene_id "ARHGEF10L--ETV6^ARHGEF10L^ENSG00000074964.17" ; gene_name ARHGEF10L ; gene_type protein_coding ; havana_gene "OTTHUMG00000002514.4" ; havana_transcript "OTTHUMT00000007151.2" ; hgnc_id "HGNC:25540" ; level 2 ; orig_coord_info "chr1,17626007,17626048,+" ; protein_id "ENSP00000167825.5" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ARHGEF10L--ETV6^ENST00000167825.5" ; transcript_name "ARHGEF10L-201" ; transcript_support_level 2 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
ARHGEF10L--ETV6 HAVANA gene 53347 55106 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ARHGEF10L--ETV6^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ARHGEF10L--ETV6^ETV6^ENSG00000139083.11" ; gene_name ETV6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168538.3" ; havana_transcript "OTTHUMT00000400134.1" ; hgnc_id "HGNC:3495" ; level 2 ; orig_coord_info "chr12,11885937,11886026,+" ; protein_id "ENSP00000266427.3" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ARHGEF10L--ETV6^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
ARHGEF10L--ETV6 HAVANA mRNA 53347 55106 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ARHGEF10L--ETV6^ENST00000266427.3" ; Parent "ARHGEF10L--ETV6^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ARHGEF10L--ETV6^ETV6^ENSG00000139083.11" ; gene_name ETV6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168538.3" ; havana_transcript "OTTHUMT00000400134.1" ; hgnc_id "HGNC:3495" ; level 2 ; orig_coord_info "chr12,11885937,11886026,+" ; protein_id "ENSP00000266427.3" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ARHGEF10L--ETV6^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
BTBD7--EBF2 HAVANA gene 1001 7161 . + . FI_gene_label "BTBD7^ENSG00000011114.15" ; ID "BTBD7--EBF2^BTBD7^ENSG00000011114.15" ; ccdsid "CCDS32147.1" ; exon_id "ENSE00002311238.1" ; exon_number 2 ; gene_id "BTBD7--EBF2^BTBD7^ENSG00000011114.15" ; gene_name BTBD7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000171269.3" ; havana_transcript "OTTHUMT00000412705.1" ; hgnc_id "HGNC:18269" ; level 2 ; orig_coord_info "chr14,93295970,93296051,-" ; protein_id "ENSP00000298896.3" ; tag basic CCDS ; transcript_id "BTBD7--EBF2^ENST00000298896.7" ; transcript_name "BTBD7-201" ; transcript_support_level 1 ; transcript_type protein_coding
BTBD7--EBF2 HAVANA mRNA 1001 7161 . + . FI_gene_label "BTBD7^ENSG00000011114.15" ; ID "BTBD7--EBF2^ENST00000298896.7" ; Parent "BTBD7--EBF2^BTBD7^ENSG00000011114.15" ; ccdsid "CCDS32147.1" ; exon_id "ENSE00002311238.1" ; exon_number 2 ; gene_id "BTBD7--EBF2^BTBD7^ENSG00000011114.15" ; gene_name BTBD7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000171269.3" ; havana_transcript "OTTHUMT00000412705.1" ; hgnc_id "HGNC:18269" ; level 2 ; orig_coord_info "chr14,93295970,93296051,-" ; protein_id "ENSP00000298896.3" ; tag basic CCDS ; transcript_id "BTBD7--EBF2^ENST00000298896.7" ; transcript_name "BTBD7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
BTBD7--EBF2 HAVANA gene 29255 44145 . + . FI_gene_label "EBF2^ENSG00000221818.9" ; ID "BTBD7--EBF2^EBF2^ENSG00000221818.9" ; exon_id "ENSE00003646310.1" ; exon_number 4 ; gene_id "BTBD7--EBF2^EBF2^ENSG00000221818.9" ; gene_name EBF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163838.3" ; havana_transcript "OTTHUMT00000375887.1" ; hgnc_id "HGNC:19090" ; level 2 ; orig_coord_info "chr8,26040028,26040065,-" ; protein_id "ENSP00000386178.3" ; tag basic ; transcript_id "BTBD7--EBF2^ENST00000408929.7" ; transcript_name "EBF2-201" ; transcript_support_level 2 ; transcript_type protein_coding
BTBD7--EBF2 HAVANA mRNA 29255 44145 . + . FI_gene_label "EBF2^ENSG00000221818.9" ; ID "BTBD7--EBF2^ENST00000408929.7" ; Parent "BTBD7--EBF2^EBF2^ENSG00000221818.9" ; exon_id "ENSE00003646310.1" ; exon_number 4 ; gene_id "BTBD7--EBF2^EBF2^ENSG00000221818.9" ; gene_name EBF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163838.3" ; havana_transcript "OTTHUMT00000375887.1" ; hgnc_id "HGNC:19090" ; level 2 ; orig_coord_info "chr8,26040028,26040065,-" ; protein_id "ENSP00000386178.3" ; tag basic ; transcript_id "BTBD7--EBF2^ENST00000408929.7" ; transcript_name "EBF2-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
CDK5RAP2--MEGF9 HAVANA gene 1004 47331 . + . FI_gene_label "CDK5RAP2^ENSG00000136861.18" ; ID "CDK5RAP2--MEGF9^CDK5RAP2^ENSG00000136861.18" ; ccdsid "CCDS6823.1" ; exon_id "ENSE00003844797.1" ; exon_number 1 ; gene_id "CDK5RAP2--MEGF9^CDK5RAP2^ENSG00000136861.18" ; gene_name CDK5RAP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000021043.5" ; havana_transcript "OTTHUMT00000055535.2" ; hgnc_id "HGNC:18672" ; level 2 ; orig_coord_info "chr9,120579920,120579978,-" ; protein_id "ENSP00000343818.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "CDK5RAP2--MEGF9^ENST00000349780.9" ; transcript_name "CDK5RAP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
CDK5RAP2--MEGF9 HAVANA mRNA 1004 47331 . + . FI_gene_label "CDK5RAP2^ENSG00000136861.18" ; ID "CDK5RAP2--MEGF9^ENST00000349780.9" ; Parent "CDK5RAP2--MEGF9^CDK5RAP2^ENSG00000136861.18" ; ccdsid "CCDS6823.1" ; exon_id "ENSE00003844797.1" ; exon_number 1 ; gene_id "CDK5RAP2--MEGF9^CDK5RAP2^ENSG00000136861.18" ; gene_name CDK5RAP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000021043.5" ; havana_transcript "OTTHUMT00000055535.2" ; hgnc_id "HGNC:18672" ; level 2 ; orig_coord_info "chr9,120579920,120579978,-" ; protein_id "ENSP00000343818.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "CDK5RAP2--MEGF9^ENST00000349780.9" ; transcript_name "CDK5RAP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CDK5RAP2--MEGF9 HAVANA gene 50338 61637 . + . FI_gene_label "MEGF9^ENSG00000106780.9" ; ID "CDK5RAP2--MEGF9^MEGF9^ENSG00000106780.9" ; ccdsid "CCDS48010.2" ; exon_id "ENSE00001461944.3" ; exon_number 1 ; gene_id "CDK5RAP2--MEGF9^MEGF9^ENSG00000106780.9" ; gene_name MEGF9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000021039.2" ; havana_transcript "OTTHUMT00000055513.2" ; hgnc_id "HGNC:3234" ; level 2 ; orig_coord_info "chr9,120713758,120714358,-" ; protein_id "ENSP00000363040.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CDK5RAP2--MEGF9^ENST00000373930.4" ; transcript_name "MEGF9-201" ; transcript_support_level 2 ; transcript_type protein_coding
CDK5RAP2--MEGF9 HAVANA mRNA 50338 61637 . + . FI_gene_label "MEGF9^ENSG00000106780.9" ; ID "CDK5RAP2--MEGF9^ENST00000373930.4" ; Parent "CDK5RAP2--MEGF9^MEGF9^ENSG00000106780.9" ; ccdsid "CCDS48010.2" ; exon_id "ENSE00001461944.3" ; exon_number 1 ; gene_id "CDK5RAP2--MEGF9^MEGF9^ENSG00000106780.9" ; gene_name MEGF9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000021039.2" ; havana_transcript "OTTHUMT00000055513.2" ; hgnc_id "HGNC:3234" ; level 2 ; orig_coord_info "chr9,120713758,120714358,-" ; protein_id "ENSP00000363040.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CDK5RAP2--MEGF9^ENST00000373930.4" ; transcript_name "MEGF9-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
ELP4--THEM7P HAVANA gene 1008 45148 . + . FI_gene_label "ELP4^ENSG00000109911.19" ; ID "ELP4--THEM7P^ELP4^ENSG00000109911.19" ; exon_id "ENSE00001358659.4" ; exon_number 1 ; gene_id "ELP4--THEM7P^ELP4^ENSG00000109911.19" ; gene_name ELP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000142919.11" ; havana_transcript "OTTHUMT00000492036.1" ; hgnc_id "HGNC:1171" ; level 2 ; orig_coord_info "chr11,31509785,31510007,+" ; protein_id "ENSP00000298937.9" ; tag NAGNAG_splice_site RNA_Seq_supported_only basic appris_alternative_2 ; transcript_id "ELP4--THEM7P^ENST00000350638.10" ; transcript_name "ELP4-201" ; transcript_support_level 5 ; transcript_type protein_coding
ELP4--THEM7P HAVANA mRNA 1008 45148 . + . FI_gene_label "ELP4^ENSG00000109911.19" ; ID "ELP4--THEM7P^ENST00000350638.10" ; Parent "ELP4--THEM7P^ELP4^ENSG00000109911.19" ; exon_id "ENSE00001358659.4" ; exon_number 1 ; gene_id "ELP4--THEM7P^ELP4^ENSG00000109911.19" ; gene_name ELP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000142919.11" ; havana_transcript "OTTHUMT00000492036.1" ; hgnc_id "HGNC:1171" ; level 2 ; orig_coord_info "chr11,31509785,31510007,+" ; protein_id "ENSP00000298937.9" ; tag NAGNAG_splice_site RNA_Seq_supported_only basic appris_alternative_2 ; transcript_id "ELP4--THEM7P^ENST00000350638.10" ; transcript_name "ELP4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
ELP4--WT1 HAVANA gene 54343 71936 . + . FI_gene_label "WT1^ENSG00000184937.16" ; ID "ELP4--WT1^WT1^ENSG00000184937.16" ; exon_id "ENSE00001906049.2" ; exon_number 1 ; gene_id "ELP4--WT1^WT1^ENSG00000184937.16" ; gene_name WT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000039556.10" ; havana_transcript "OTTHUMT00000095433.6" ; hgnc_id "HGNC:12796" ; level 2 ; orig_coord_info "chr11,32434700,32435360,-" ; protein_id "ENSP00000331327.5" ; tag non_ATG_start basic appris_alternative_2 ; transcript_id "ELP4--WT1^ENST00000332351.9" ; transcript_name "WT1-201" ; transcript_support_level 1 ; transcript_type protein_coding
ELP4--WT1 HAVANA mRNA 54343 71936 . + . FI_gene_label "WT1^ENSG00000184937.16" ; ID "ELP4--WT1^ENST00000332351.9" ; Parent "ELP4--WT1^WT1^ENSG00000184937.16" ; exon_id "ENSE00001906049.2" ; exon_number 1 ; gene_id "ELP4--WT1^WT1^ENSG00000184937.16" ; gene_name WT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000039556.10" ; havana_transcript "OTTHUMT00000095433.6" ; hgnc_id "HGNC:12796" ; level 2 ; orig_coord_info "chr11,32434700,32435360,-" ; protein_id "ENSP00000331327.5" ; tag non_ATG_start basic appris_alternative_2 ; transcript_id "ELP4--WT1^ENST00000332351.9" ; transcript_name "WT1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ELP4--WT1 HAVANA gene 1008 45148 . + . FI_gene_label "ELP4^ENSG00000109911.19" ; ID "ELP4--WT1^ELP4^ENSG00000109911.19" ; exon_id "ENSE00001358659.4" ; exon_number 1 ; gene_id "ELP4--WT1^ELP4^ENSG00000109911.19" ; gene_name ELP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000142919.11" ; havana_transcript "OTTHUMT00000492036.1" ; hgnc_id "HGNC:1171" ; level 2 ; orig_coord_info "chr11,31509785,31510007,+" ; protein_id "ENSP00000298937.9" ; tag NAGNAG_splice_site RNA_Seq_supported_only basic appris_alternative_2 ; transcript_id "ELP4--WT1^ENST00000350638.10" ; transcript_name "ELP4-201" ; transcript_support_level 5 ; transcript_type protein_coding
ELP4--WT1 HAVANA mRNA 1008 45148 . + . FI_gene_label "ELP4^ENSG00000109911.19" ; ID "ELP4--WT1^ENST00000350638.10" ; Parent "ELP4--WT1^ELP4^ENSG00000109911.19" ; exon_id "ENSE00001358659.4" ; exon_number 1 ; gene_id "ELP4--WT1^ELP4^ENSG00000109911.19" ; gene_name ELP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000142919.11" ; havana_transcript "OTTHUMT00000492036.1" ; hgnc_id "HGNC:1171" ; level 2 ; orig_coord_info "chr11,31509785,31510007,+" ; protein_id "ENSP00000298937.9" ; tag NAGNAG_splice_site RNA_Seq_supported_only basic appris_alternative_2 ; transcript_id "ELP4--WT1^ENST00000350638.10" ; transcript_name "ELP4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
EPS15--AL583785.1 HAVANA gene 1026 34518 . + . FI_gene_label "EPS15^ENSG00000085832.17" ; ID "EPS15--AL583785.1^EPS15^ENSG00000085832.17" ; exon_id "ENSE00001455979.2" ; exon_number 1 ; gene_id "EPS15--AL583785.1^EPS15^ENSG00000085832.17" ; gene_name EPS15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000008192.3" ; havana_transcript "OTTHUMT00000022423.1" ; hgnc_id "HGNC:3419" ; level 1 ; orig_coord_info "chr1,51519199,51519231,-" ; protein_id "ENSP00000360795.2" ; tag basic appris_alternative_2 exp_conf ; transcript_id "EPS15--AL583785.1^ENST00000371730.6" ; transcript_name "EPS15-202" ; transcript_support_level 1 ; transcript_type protein_coding
EPS15--AL583785.1 HAVANA mRNA 1026 34518 . + . FI_gene_label "EPS15^ENSG00000085832.17" ; ID "EPS15--AL583785.1^ENST00000371730.6" ; Parent "EPS15--AL583785.1^EPS15^ENSG00000085832.17" ; exon_id "ENSE00001455979.2" ; exon_number 1 ; gene_id "EPS15--AL583785.1^EPS15^ENSG00000085832.17" ; gene_name EPS15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000008192.3" ; havana_transcript "OTTHUMT00000022423.1" ; hgnc_id "HGNC:3419" ; level 1 ; orig_coord_info "chr1,51519199,51519231,-" ; protein_id "ENSP00000360795.2" ; tag basic appris_alternative_2 exp_conf ; transcript_id "EPS15--AL583785.1^ENST00000371730.6" ; transcript_name "EPS15-202" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
FTL--CARD8 HAVANA gene 1001 2571 . + . FI_gene_label "FTL^ENSG00000087086.15" ; ID "FTL--CARD8^FTL^ENSG00000087086.15" ; ccdsid "CCDS33070.1" ; exon_id "ENSE00001226683.7" ; exon_number 1 ; gene_id "FTL--CARD8^FTL^ENSG00000087086.15" ; gene_name FTL ; gene_type protein_coding ; havana_gene "OTTHUMG00000183332.2" ; havana_transcript "OTTHUMT00000466233.2" ; hgnc_id "HGNC:3999" ; level 2 ; orig_coord_info "chr19,48965508,48965609,+" ; protein_id "ENSP00000366525.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "FTL--CARD8^ENST00000331825.11" ; transcript_name "FTL-201" ; transcript_support_level 1 ; transcript_type protein_coding
FTL--CARD8 HAVANA mRNA 1001 2571 . + . FI_gene_label "FTL^ENSG00000087086.15" ; ID "FTL--CARD8^ENST00000331825.11" ; Parent "FTL--CARD8^FTL^ENSG00000087086.15" ; ccdsid "CCDS33070.1" ; exon_id "ENSE00001226683.7" ; exon_number 1 ; gene_id "FTL--CARD8^FTL^ENSG00000087086.15" ; gene_name FTL ; gene_type protein_coding ; havana_gene "OTTHUMG00000183332.2" ; havana_transcript "OTTHUMT00000466233.2" ; hgnc_id "HGNC:3999" ; level 2 ; orig_coord_info "chr19,48965508,48965609,+" ; protein_id "ENSP00000366525.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "FTL--CARD8^ENST00000331825.11" ; transcript_name "FTL-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
FTL--CARD8 ENSEMBL gene 10495 26510 . + . FI_gene_label "CARD8^ENSG00000105483.18" ; ID "FTL--CARD8^CARD8^ENSG00000105483.18" ; ccdsid "CCDS54289.1" ; exon_id "ENSE00003566731.1" ; exon_number 1 ; gene_id "FTL--CARD8^CARD8^ENSG00000105483.18" ; gene_name CARD8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165047.10" ; hgnc_id "HGNC:17057" ; level 3 ; orig_coord_info "chr19,48240962,48241020,-" ; protein_id "ENSP00000375767.3" ; tag basic appris_principal_4 CCDS ; transcript_id "FTL--CARD8^ENST00000391898.7" ; transcript_name "CARD8-202" ; transcript_support_level 1 ; transcript_type protein_coding
FTL--CARD8 ENSEMBL mRNA 10495 26510 . + . FI_gene_label "CARD8^ENSG00000105483.18" ; ID "FTL--CARD8^ENST00000391898.7" ; Parent "FTL--CARD8^CARD8^ENSG00000105483.18" ; ccdsid "CCDS54289.1" ; exon_id "ENSE00003566731.1" ; exon_number 1 ; gene_id "FTL--CARD8^CARD8^ENSG00000105483.18" ; gene_name CARD8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165047.10" ; hgnc_id "HGNC:17057" ; level 3 ; orig_coord_info "chr19,48240962,48241020,-" ; protein_id "ENSP00000375767.3" ; tag basic appris_principal_4 CCDS ; transcript_id "FTL--CARD8^ENST00000391898.7" ; transcript_name "CARD8-202" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
INTS1--AC093734.1 HAVANA gene 1001 31418 . + . FI_gene_label "INTS1^ENSG00000164880.16" ; ID "INTS1--AC093734.1^INTS1^ENSG00000164880.16" ; ccdsid "CCDS47526.1" ; exon_id "ENSE00003571544.1" ; exon_number 2 ; gene_id "INTS1--AC093734.1^INTS1^ENSG00000164880.16" ; gene_name INTS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151449.5" ; havana_transcript "OTTHUMT00000323683.2" ; hgnc_id "HGNC:24555" ; level 2 ; orig_coord_info "chr7,1503903,1503960,-" ; protein_id "ENSP00000385722.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "INTS1--AC093734.1^ENST00000404767.8" ; transcript_name "INTS1-201" ; transcript_support_level 5 ; transcript_type protein_coding
INTS1--AC093734.1 HAVANA mRNA 1001 31418 . + . FI_gene_label "INTS1^ENSG00000164880.16" ; ID "INTS1--AC093734.1^ENST00000404767.8" ; Parent "INTS1--AC093734.1^INTS1^ENSG00000164880.16" ; ccdsid "CCDS47526.1" ; exon_id "ENSE00003571544.1" ; exon_number 2 ; gene_id "INTS1--AC093734.1^INTS1^ENSG00000164880.16" ; gene_name INTS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151449.5" ; havana_transcript "OTTHUMT00000323683.2" ; hgnc_id "HGNC:24555" ; level 2 ; orig_coord_info "chr7,1503903,1503960,-" ; protein_id "ENSP00000385722.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "INTS1--AC093734.1^ENST00000404767.8" ; transcript_name "INTS1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
INTS1--MAFK HAVANA gene 34419 41172 . + . FI_gene_label "MAFK^ENSG00000198517.10" ; ID "INTS1--MAFK^MAFK^ENSG00000198517.10" ; ccdsid "CCDS5325.1" ; exon_id "ENSE00001034948.1" ; exon_number 2 ; gene_id "INTS1--MAFK^MAFK^ENSG00000198517.10" ; gene_name MAFK ; gene_type protein_coding ; havana_gene "OTTHUMG00000151453.3" ; havana_transcript "OTTHUMT00000322712.2" ; hgnc_id "HGNC:6782" ; level 2 ; orig_coord_info "chr7,1539193,1539228,+" ; protein_id "ENSP00000344903.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "INTS1--MAFK^ENST00000343242.9" ; transcript_name "MAFK-201" ; transcript_support_level 1 ; transcript_type protein_coding
INTS1--MAFK HAVANA mRNA 34419 41172 . + . FI_gene_label "MAFK^ENSG00000198517.10" ; ID "INTS1--MAFK^ENST00000343242.9" ; Parent "INTS1--MAFK^MAFK^ENSG00000198517.10" ; ccdsid "CCDS5325.1" ; exon_id "ENSE00001034948.1" ; exon_number 2 ; gene_id "INTS1--MAFK^MAFK^ENSG00000198517.10" ; gene_name MAFK ; gene_type protein_coding ; havana_gene "OTTHUMG00000151453.3" ; havana_transcript "OTTHUMT00000322712.2" ; hgnc_id "HGNC:6782" ; level 2 ; orig_coord_info "chr7,1539193,1539228,+" ; protein_id "ENSP00000344903.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "INTS1--MAFK^ENST00000343242.9" ; transcript_name "MAFK-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
INTS1--MAFK HAVANA gene 1001 31418 . + . FI_gene_label "INTS1^ENSG00000164880.16" ; ID "INTS1--MAFK^INTS1^ENSG00000164880.16" ; ccdsid "CCDS47526.1" ; exon_id "ENSE00003571544.1" ; exon_number 2 ; gene_id "INTS1--MAFK^INTS1^ENSG00000164880.16" ; gene_name INTS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151449.5" ; havana_transcript "OTTHUMT00000323683.2" ; hgnc_id "HGNC:24555" ; level 2 ; orig_coord_info "chr7,1503903,1503960,-" ; protein_id "ENSP00000385722.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "INTS1--MAFK^ENST00000404767.8" ; transcript_name "INTS1-201" ; transcript_support_level 5 ; transcript_type protein_coding
INTS1--MAFK HAVANA mRNA 1001 31418 . + . FI_gene_label "INTS1^ENSG00000164880.16" ; ID "INTS1--MAFK^ENST00000404767.8" ; Parent "INTS1--MAFK^INTS1^ENSG00000164880.16" ; ccdsid "CCDS47526.1" ; exon_id "ENSE00003571544.1" ; exon_number 2 ; gene_id "INTS1--MAFK^INTS1^ENSG00000164880.16" ; gene_name INTS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151449.5" ; havana_transcript "OTTHUMT00000323683.2" ; hgnc_id "HGNC:24555" ; level 2 ; orig_coord_info "chr7,1503903,1503960,-" ; protein_id "ENSP00000385722.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "INTS1--MAFK^ENST00000404767.8" ; transcript_name "INTS1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
LDLRAD3--LINC02758 HAVANA gene 1082 14575 . + . FI_gene_label "LDLRAD3^ENSG00000179241.13" ; ID "LDLRAD3--LINC02758^LDLRAD3^ENSG00000179241.13" ; ccdsid "CCDS31462.1" ; exon_id "ENSE00001371974.3" ; exon_number 1 ; gene_id "LDLRAD3--LINC02758^LDLRAD3^ENSG00000179241.13" ; gene_name LDLRAD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166313.2" ; havana_transcript "OTTHUMT00000389085.2" ; hgnc_id "HGNC:27046" ; level 2 ; orig_coord_info "chr11,35944099,35944144,+" ; protein_id "ENSP00000318607.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LDLRAD3--LINC02758^ENST00000315571.6" ; transcript_name "LDLRAD3-201" ; transcript_support_level 1 ; transcript_type protein_coding
LDLRAD3--LINC02758 HAVANA mRNA 1082 14575 . + . FI_gene_label "LDLRAD3^ENSG00000179241.13" ; ID "LDLRAD3--LINC02758^ENST00000315571.6" ; Parent "LDLRAD3--LINC02758^LDLRAD3^ENSG00000179241.13" ; ccdsid "CCDS31462.1" ; exon_id "ENSE00001371974.3" ; exon_number 1 ; gene_id "LDLRAD3--LINC02758^LDLRAD3^ENSG00000179241.13" ; gene_name LDLRAD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166313.2" ; havana_transcript "OTTHUMT00000389085.2" ; hgnc_id "HGNC:27046" ; level 2 ; orig_coord_info "chr11,35944099,35944144,+" ; protein_id "ENSP00000318607.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LDLRAD3--LINC02758^ENST00000315571.6" ; transcript_name "LDLRAD3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LDLRAD3--METTL15 HAVANA gene 18927 38226 . + . FI_gene_label "METTL15^ENSG00000169519.21" ; ID "LDLRAD3--METTL15^METTL15^ENSG00000169519.21" ; ccdsid "CCDS31450.1" ; exon_id "ENSE00002172085.1" ; exon_number 2 ; gene_id "LDLRAD3--METTL15^METTL15^ENSG00000169519.21" ; gene_name METTL15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150448.4" ; havana_transcript "OTTHUMT00000318134.1" ; hgnc_id "HGNC:26606" ; level 2 ; orig_coord_info "chr11,28113335,28113604,+" ; protein_id "ENSP00000307251.6" ; tag basic CCDS ; transcript_id "LDLRAD3--METTL15^ENST00000303459.10" ; transcript_name "METTL15-201" ; transcript_support_level 2 ; transcript_type protein_coding
LDLRAD3--METTL15 HAVANA mRNA 18927 38226 . + . FI_gene_label "METTL15^ENSG00000169519.21" ; ID "LDLRAD3--METTL15^ENST00000303459.10" ; Parent "LDLRAD3--METTL15^METTL15^ENSG00000169519.21" ; ccdsid "CCDS31450.1" ; exon_id "ENSE00002172085.1" ; exon_number 2 ; gene_id "LDLRAD3--METTL15^METTL15^ENSG00000169519.21" ; gene_name METTL15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150448.4" ; havana_transcript "OTTHUMT00000318134.1" ; hgnc_id "HGNC:26606" ; level 2 ; orig_coord_info "chr11,28113335,28113604,+" ; protein_id "ENSP00000307251.6" ; tag basic CCDS ; transcript_id "LDLRAD3--METTL15^ENST00000303459.10" ; transcript_name "METTL15-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
LDLRAD3--METTL15 HAVANA gene 1082 14575 . + . FI_gene_label "LDLRAD3^ENSG00000179241.13" ; ID "LDLRAD3--METTL15^LDLRAD3^ENSG00000179241.13" ; ccdsid "CCDS31462.1" ; exon_id "ENSE00001371974.3" ; exon_number 1 ; gene_id "LDLRAD3--METTL15^LDLRAD3^ENSG00000179241.13" ; gene_name LDLRAD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166313.2" ; havana_transcript "OTTHUMT00000389085.2" ; hgnc_id "HGNC:27046" ; level 2 ; orig_coord_info "chr11,35944099,35944144,+" ; protein_id "ENSP00000318607.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LDLRAD3--METTL15^ENST00000315571.6" ; transcript_name "LDLRAD3-201" ; transcript_support_level 1 ; transcript_type protein_coding
LDLRAD3--METTL15 HAVANA mRNA 1082 14575 . + . FI_gene_label "LDLRAD3^ENSG00000179241.13" ; ID "LDLRAD3--METTL15^ENST00000315571.6" ; Parent "LDLRAD3--METTL15^LDLRAD3^ENSG00000179241.13" ; ccdsid "CCDS31462.1" ; exon_id "ENSE00001371974.3" ; exon_number 1 ; gene_id "LDLRAD3--METTL15^LDLRAD3^ENSG00000179241.13" ; gene_name LDLRAD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166313.2" ; havana_transcript "OTTHUMT00000389085.2" ; hgnc_id "HGNC:27046" ; level 2 ; orig_coord_info "chr11,35944099,35944144,+" ; protein_id "ENSP00000318607.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LDLRAD3--METTL15^ENST00000315571.6" ; transcript_name "LDLRAD3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LTBP1--TTC27 HAVANA gene 44907 71616 . + . FI_gene_label "TTC27^ENSG00000018699.13" ; ID "LTBP1--TTC27^TTC27^ENSG00000018699.13" ; ccdsid "CCDS33176.1" ; exon_id "ENSE00001309519.4" ; exon_number 1 ; gene_id "LTBP1--TTC27^TTC27^ENSG00000018699.13" ; gene_name TTC27 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152134.7" ; havana_transcript "OTTHUMT00000325395.2" ; hgnc_id "HGNC:25986" ; level 2 ; orig_coord_info "chr2,32628293,32628380,+" ; protein_id "ENSP00000313953.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LTBP1--TTC27^ENST00000317907.9" ; transcript_name "TTC27-201" ; transcript_support_level 1 ; transcript_type protein_coding
LTBP1--TTC27 HAVANA mRNA 44907 71616 . + . FI_gene_label "TTC27^ENSG00000018699.13" ; ID "LTBP1--TTC27^ENST00000317907.9" ; Parent "LTBP1--TTC27^TTC27^ENSG00000018699.13" ; ccdsid "CCDS33176.1" ; exon_id "ENSE00001309519.4" ; exon_number 1 ; gene_id "LTBP1--TTC27^TTC27^ENSG00000018699.13" ; gene_name TTC27 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152134.7" ; havana_transcript "OTTHUMT00000325395.2" ; hgnc_id "HGNC:25986" ; level 2 ; orig_coord_info "chr2,32628293,32628380,+" ; protein_id "ENSP00000313953.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LTBP1--TTC27^ENST00000317907.9" ; transcript_name "TTC27-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LTBP1--TTC27 HAVANA gene 6625 41736 . + . FI_gene_label "LTBP1^ENSG00000049323.16" ; ID "LTBP1--TTC27^LTBP1^ENSG00000049323.16" ; exon_id "ENSE00001559217.1" ; exon_number 1 ; gene_id "LTBP1--TTC27^LTBP1^ENSG00000049323.16" ; gene_name LTBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152118.15" ; havana_transcript "OTTHUMT00000325421.3" ; hgnc_id "HGNC:6714" ; level 1 ; orig_coord_info "chr2,33134738,33134960,+" ; protein_id "ENSP00000384373.1" ; tag not_organism_supported basic exp_conf ; transcript_id "LTBP1--TTC27^ENST00000402934.5" ; transcript_name "LTBP1-201" ; transcript_support_level 5 ; transcript_type protein_coding
LTBP1--TTC27 HAVANA mRNA 6625 41736 . + . FI_gene_label "LTBP1^ENSG00000049323.16" ; ID "LTBP1--TTC27^ENST00000402934.5" ; Parent "LTBP1--TTC27^LTBP1^ENSG00000049323.16" ; exon_id "ENSE00001559217.1" ; exon_number 1 ; gene_id "LTBP1--TTC27^LTBP1^ENSG00000049323.16" ; gene_name LTBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000152118.15" ; havana_transcript "OTTHUMT00000325421.3" ; hgnc_id "HGNC:6714" ; level 1 ; orig_coord_info "chr2,33134738,33134960,+" ; protein_id "ENSP00000384373.1" ; tag not_organism_supported basic exp_conf ; transcript_id "LTBP1--TTC27^ENST00000402934.5" ; transcript_name "LTBP1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PCDHA5--PCDHA13 HAVANA gene 8249 16689 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA5--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA5--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 "PCDHA5--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA5--PCDHA13 HAVANA mRNA 8249 16689 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA5--PCDHA13^ENST00000289272.3" ; Parent "PCDHA5--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA5--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 "PCDHA5--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA5--PCDHA13 HAVANA gene 1001 5248 . + . FI_gene_label "PCDHA5^ENSG00000204965.9" ; ID "PCDHA5--PCDHA13^PCDHA5^ENSG00000204965.9" ; exon_id "ENSE00003729378.1" ; exon_number 1 ; gene_id "PCDHA5--PCDHA13^PCDHA5^ENSG00000204965.9" ; gene_name PCDHA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163367.4" ; havana_transcript "OTTHUMT00000477514.1" ; hgnc_id "HGNC:8671" ; level 2 ; orig_coord_info "chr5,140821776,140824223,+" ; protein_id "ENSP00000484128.1" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA5--PCDHA13^ENST00000614258.1" ; transcript_name "PCDHA5-203" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA5--PCDHA13 HAVANA mRNA 1001 5248 . + . FI_gene_label "PCDHA5^ENSG00000204965.9" ; ID "PCDHA5--PCDHA13^ENST00000614258.1" ; Parent "PCDHA5--PCDHA13^PCDHA5^ENSG00000204965.9" ; exon_id "ENSE00003729378.1" ; exon_number 1 ; gene_id "PCDHA5--PCDHA13^PCDHA5^ENSG00000204965.9" ; gene_name PCDHA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163367.4" ; havana_transcript "OTTHUMT00000477514.1" ; hgnc_id "HGNC:8671" ; level 2 ; orig_coord_info "chr5,140821776,140824223,+" ; protein_id "ENSP00000484128.1" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA5--PCDHA13^ENST00000614258.1" ; transcript_name "PCDHA5-203" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA5--PCDHAC1 HAVANA gene 8249 18264 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA5--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA5--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 "PCDHA5--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA5--PCDHAC1 HAVANA mRNA 8249 18264 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA5--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA5--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA5--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 "PCDHA5--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA5--PCDHAC1 HAVANA gene 1001 5248 . + . FI_gene_label "PCDHA5^ENSG00000204965.9" ; ID "PCDHA5--PCDHAC1^PCDHA5^ENSG00000204965.9" ; exon_id "ENSE00003729378.1" ; exon_number 1 ; gene_id "PCDHA5--PCDHAC1^PCDHA5^ENSG00000204965.9" ; gene_name PCDHA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163367.4" ; havana_transcript "OTTHUMT00000477514.1" ; hgnc_id "HGNC:8671" ; level 2 ; orig_coord_info "chr5,140821776,140824223,+" ; protein_id "ENSP00000484128.1" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA5--PCDHAC1^ENST00000614258.1" ; transcript_name "PCDHA5-203" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA5--PCDHAC1 HAVANA mRNA 1001 5248 . + . FI_gene_label "PCDHA5^ENSG00000204965.9" ; ID "PCDHA5--PCDHAC1^ENST00000614258.1" ; Parent "PCDHA5--PCDHAC1^PCDHA5^ENSG00000204965.9" ; exon_id "ENSE00003729378.1" ; exon_number 1 ; gene_id "PCDHA5--PCDHAC1^PCDHA5^ENSG00000204965.9" ; gene_name PCDHA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163367.4" ; havana_transcript "OTTHUMT00000477514.1" ; hgnc_id "HGNC:8671" ; level 2 ; orig_coord_info "chr5,140821776,140824223,+" ; protein_id "ENSP00000484128.1" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA5--PCDHAC1^ENST00000614258.1" ; transcript_name "PCDHA5-203" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA5--PCDHAC2 HAVANA gene 8255 18990 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA5--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA5--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 "PCDHA5--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA5--PCDHAC2 HAVANA mRNA 8255 18990 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA5--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA5--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA5--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 "PCDHA5--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA5--PCDHAC2 HAVANA gene 1001 5248 . + . FI_gene_label "PCDHA5^ENSG00000204965.9" ; ID "PCDHA5--PCDHAC2^PCDHA5^ENSG00000204965.9" ; exon_id "ENSE00003729378.1" ; exon_number 1 ; gene_id "PCDHA5--PCDHAC2^PCDHA5^ENSG00000204965.9" ; gene_name PCDHA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163367.4" ; havana_transcript "OTTHUMT00000477514.1" ; hgnc_id "HGNC:8671" ; level 2 ; orig_coord_info "chr5,140821776,140824223,+" ; protein_id "ENSP00000484128.1" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA5--PCDHAC2^ENST00000614258.1" ; transcript_name "PCDHA5-203" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA5--PCDHAC2 HAVANA mRNA 1001 5248 . + . FI_gene_label "PCDHA5^ENSG00000204965.9" ; ID "PCDHA5--PCDHAC2^ENST00000614258.1" ; Parent "PCDHA5--PCDHAC2^PCDHA5^ENSG00000204965.9" ; exon_id "ENSE00003729378.1" ; exon_number 1 ; gene_id "PCDHA5--PCDHAC2^PCDHA5^ENSG00000204965.9" ; gene_name PCDHA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163367.4" ; havana_transcript "OTTHUMT00000477514.1" ; hgnc_id "HGNC:8671" ; level 2 ; orig_coord_info "chr5,140821776,140824223,+" ; protein_id "ENSP00000484128.1" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA5--PCDHAC2^ENST00000614258.1" ; transcript_name "PCDHA5-203" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PICALM--SYTL2 HAVANA gene 30656 61673 . + . FI_gene_label "SYTL2^ENSG00000137501.17" ; ID "PICALM--SYTL2^SYTL2^ENSG00000137501.17" ; ccdsid "CCDS53689.1" ; exon_id "ENSE00002151716.1" ; exon_number 2 ; gene_id "PICALM--SYTL2^SYTL2^ENSG00000137501.17" ; gene_name SYTL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166977.5" ; havana_transcript "OTTHUMT00000392191.2" ; hgnc_id "HGNC:15585" ; level 2 ; orig_coord_info "chr11,85757625,85757725,-" ; protein_id "ENSP00000318803.4" ; tag basic appris_principal_4 CCDS ; transcript_id "PICALM--SYTL2^ENST00000316356.8" ; transcript_name "SYTL2-201" ; transcript_support_level 5 ; transcript_type protein_coding
PICALM--SYTL2 HAVANA mRNA 30656 61673 . + . FI_gene_label "SYTL2^ENSG00000137501.17" ; ID "PICALM--SYTL2^ENST00000316356.8" ; Parent "PICALM--SYTL2^SYTL2^ENSG00000137501.17" ; ccdsid "CCDS53689.1" ; exon_id "ENSE00002151716.1" ; exon_number 2 ; gene_id "PICALM--SYTL2^SYTL2^ENSG00000137501.17" ; gene_name SYTL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166977.5" ; havana_transcript "OTTHUMT00000392191.2" ; hgnc_id "HGNC:15585" ; level 2 ; orig_coord_info "chr11,85757625,85757725,-" ; protein_id "ENSP00000318803.4" ; tag basic appris_principal_4 CCDS ; transcript_id "PICALM--SYTL2^ENST00000316356.8" ; transcript_name "SYTL2-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PICALM--SYTL2 HAVANA gene 2103 25813 . + . FI_gene_label "PICALM^ENSG00000073921.18" ; ID "PICALM--SYTL2^PICALM^ENSG00000073921.18" ; exon_id "ENSE00002187592.1" ; exon_number 1 ; gene_id "PICALM--SYTL2^PICALM^ENSG00000073921.18" ; gene_name PICALM ; gene_type protein_coding ; havana_gene "OTTHUMG00000166981.5" ; havana_transcript "OTTHUMT00000392228.1" ; hgnc_id "HGNC:15514" ; level 2 ; orig_coord_info "chr11,86068651,86068780,-" ; protein_id "ENSP00000348718.5" ; tag basic ; transcript_id "PICALM--SYTL2^ENST00000356360.9" ; transcript_name "PICALM-201" ; transcript_support_level 5 ; transcript_type protein_coding
PICALM--SYTL2 HAVANA mRNA 2103 25813 . + . FI_gene_label "PICALM^ENSG00000073921.18" ; ID "PICALM--SYTL2^ENST00000356360.9" ; Parent "PICALM--SYTL2^PICALM^ENSG00000073921.18" ; exon_id "ENSE00002187592.1" ; exon_number 1 ; gene_id "PICALM--SYTL2^PICALM^ENSG00000073921.18" ; gene_name PICALM ; gene_type protein_coding ; havana_gene "OTTHUMG00000166981.5" ; havana_transcript "OTTHUMT00000392228.1" ; hgnc_id "HGNC:15514" ; level 2 ; orig_coord_info "chr11,86068651,86068780,-" ; protein_id "ENSP00000348718.5" ; tag basic ; transcript_id "PICALM--SYTL2^ENST00000356360.9" ; transcript_name "PICALM-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PRRG4--AC061997.1 HAVANA gene 1001 10877 . + . FI_gene_label "PRRG4^ENSG00000135378.4" ; ID "PRRG4--AC061997.1^PRRG4^ENSG00000135378.4" ; ccdsid "CCDS7881.1" ; exon_id "ENSE00000918373.1" ; exon_number 2 ; gene_id "PRRG4--AC061997.1^PRRG4^ENSG00000135378.4" ; gene_name PRRG4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166219.3" ; havana_transcript "OTTHUMT00000388446.2" ; hgnc_id "HGNC:30799" ; level 2 ; orig_coord_info "chr11,32830530,32830632,+" ; protein_id "ENSP00000257836.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRRG4--AC061997.1^ENST00000257836.4" ; transcript_name "PRRG4-201" ; transcript_support_level 1 ; transcript_type protein_coding
PRRG4--AC061997.1 HAVANA mRNA 1001 10877 . + . FI_gene_label "PRRG4^ENSG00000135378.4" ; ID "PRRG4--AC061997.1^ENST00000257836.4" ; Parent "PRRG4--AC061997.1^PRRG4^ENSG00000135378.4" ; ccdsid "CCDS7881.1" ; exon_id "ENSE00000918373.1" ; exon_number 2 ; gene_id "PRRG4--AC061997.1^PRRG4^ENSG00000135378.4" ; gene_name PRRG4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166219.3" ; havana_transcript "OTTHUMT00000388446.2" ; hgnc_id "HGNC:30799" ; level 2 ; orig_coord_info "chr11,32830530,32830632,+" ; protein_id "ENSP00000257836.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRRG4--AC061997.1^ENST00000257836.4" ; transcript_name "PRRG4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PRRG4--AC104042.1 HAVANA gene 1001 10877 . + . FI_gene_label "PRRG4^ENSG00000135378.4" ; ID "PRRG4--AC104042.1^PRRG4^ENSG00000135378.4" ; ccdsid "CCDS7881.1" ; exon_id "ENSE00000918373.1" ; exon_number 2 ; gene_id "PRRG4--AC104042.1^PRRG4^ENSG00000135378.4" ; gene_name PRRG4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166219.3" ; havana_transcript "OTTHUMT00000388446.2" ; hgnc_id "HGNC:30799" ; level 2 ; orig_coord_info "chr11,32830530,32830632,+" ; protein_id "ENSP00000257836.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRRG4--AC104042.1^ENST00000257836.4" ; transcript_name "PRRG4-201" ; transcript_support_level 1 ; transcript_type protein_coding
PRRG4--AC104042.1 HAVANA mRNA 1001 10877 . + . FI_gene_label "PRRG4^ENSG00000135378.4" ; ID "PRRG4--AC104042.1^ENST00000257836.4" ; Parent "PRRG4--AC104042.1^PRRG4^ENSG00000135378.4" ; ccdsid "CCDS7881.1" ; exon_id "ENSE00000918373.1" ; exon_number 2 ; gene_id "PRRG4--AC104042.1^PRRG4^ENSG00000135378.4" ; gene_name PRRG4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166219.3" ; havana_transcript "OTTHUMT00000388446.2" ; hgnc_id "HGNC:30799" ; level 2 ; orig_coord_info "chr11,32830530,32830632,+" ; protein_id "ENSP00000257836.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRRG4--AC104042.1^ENST00000257836.4" ; transcript_name "PRRG4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TLK2--AC240565.1 HAVANA mRNA 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^ENST00000326270.13" ; Parent "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TLK2--FAM157A HAVANA gene 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--FAM157A^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--FAM157A^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--FAM157A^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TLK2--FAM157A HAVANA mRNA 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--FAM157A^ENST00000326270.13" ; Parent "TLK2--FAM157A^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--FAM157A^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--FAM157A^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TP53BP2--AL669831.1 HAVANA gene 1008 23262 . + . FI_gene_label "TP53BP2^ENSG00000143514.17" ; ID "TP53BP2--AL669831.1^TP53BP2^ENSG00000143514.17" ; ccdsid "CCDS44319.1" ; exon_id "ENSE00002238939.2" ; exon_number 1 ; gene_id "TP53BP2--AL669831.1^TP53BP2^ENSG00000143514.17" ; gene_name TP53BP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037379.5" ; havana_transcript "OTTHUMT00000090985.4" ; hgnc_id "HGNC:12000" ; level 2 ; orig_coord_info "chr1,223845654,223845680,-" ; protein_id "ENSP00000341957.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TP53BP2--AL669831.1^ENST00000343537.12" ; transcript_name "TP53BP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TP53BP2--AL669831.1 HAVANA mRNA 1008 23262 . + . FI_gene_label "TP53BP2^ENSG00000143514.17" ; ID "TP53BP2--AL669831.1^ENST00000343537.12" ; Parent "TP53BP2--AL669831.1^TP53BP2^ENSG00000143514.17" ; ccdsid "CCDS44319.1" ; exon_id "ENSE00002238939.2" ; exon_number 1 ; gene_id "TP53BP2--AL669831.1^TP53BP2^ENSG00000143514.17" ; gene_name TP53BP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037379.5" ; havana_transcript "OTTHUMT00000090985.4" ; hgnc_id "HGNC:12000" ; level 2 ; orig_coord_info "chr1,223845654,223845680,-" ; protein_id "ENSP00000341957.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TP53BP2--AL669831.1^ENST00000343537.12" ; transcript_name "TP53BP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TP53BP2--GTF2IP20 HAVANA gene 1008 23262 . + . FI_gene_label "TP53BP2^ENSG00000143514.17" ; ID "TP53BP2--GTF2IP20^TP53BP2^ENSG00000143514.17" ; ccdsid "CCDS44319.1" ; exon_id "ENSE00002238939.2" ; exon_number 1 ; gene_id "TP53BP2--GTF2IP20^TP53BP2^ENSG00000143514.17" ; gene_name TP53BP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037379.5" ; havana_transcript "OTTHUMT00000090985.4" ; hgnc_id "HGNC:12000" ; level 2 ; orig_coord_info "chr1,223845654,223845680,-" ; protein_id "ENSP00000341957.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TP53BP2--GTF2IP20^ENST00000343537.12" ; transcript_name "TP53BP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TP53BP2--GTF2IP20 HAVANA mRNA 1008 23262 . + . FI_gene_label "TP53BP2^ENSG00000143514.17" ; ID "TP53BP2--GTF2IP20^ENST00000343537.12" ; Parent "TP53BP2--GTF2IP20^TP53BP2^ENSG00000143514.17" ; ccdsid "CCDS44319.1" ; exon_id "ENSE00002238939.2" ; exon_number 1 ; gene_id "TP53BP2--GTF2IP20^TP53BP2^ENSG00000143514.17" ; gene_name TP53BP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037379.5" ; havana_transcript "OTTHUMT00000090985.4" ; hgnc_id "HGNC:12000" ; level 2 ; orig_coord_info "chr1,223845654,223845680,-" ; protein_id "ENSP00000341957.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TP53BP2--GTF2IP20^ENST00000343537.12" ; transcript_name "TP53BP2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TTC39A--FAF1 HAVANA gene 4372 26579 . + . FI_gene_label "TTC39A^ENSG00000085831.16" ; ID "TTC39A--FAF1^TTC39A^ENSG00000085831.16" ; ccdsid "CCDS72789.1" ; exon_id "ENSE00003509745.1" ; exon_number 2 ; gene_id "TTC39A--FAF1^TTC39A^ENSG00000085831.16" ; gene_name TTC39A ; gene_type protein_coding ; havana_gene "OTTHUMG00000008193.5" ; havana_transcript "OTTHUMT00000387468.1" ; hgnc_id "HGNC:18657" ; level 2 ; orig_coord_info "chr1,51321721,51321785,-" ; protein_id "ENSP00000262675.7" ; tag basic appris_alternative_1 CCDS ; transcript_id "TTC39A--FAF1^ENST00000262675.11" ; transcript_name "TTC39A-201" ; transcript_support_level 2 ; transcript_type protein_coding
TTC39A--FAF1 HAVANA mRNA 4372 26579 . + . FI_gene_label "TTC39A^ENSG00000085831.16" ; ID "TTC39A--FAF1^ENST00000262675.11" ; Parent "TTC39A--FAF1^TTC39A^ENSG00000085831.16" ; ccdsid "CCDS72789.1" ; exon_id "ENSE00003509745.1" ; exon_number 2 ; gene_id "TTC39A--FAF1^TTC39A^ENSG00000085831.16" ; gene_name TTC39A ; gene_type protein_coding ; havana_gene "OTTHUMG00000008193.5" ; havana_transcript "OTTHUMT00000387468.1" ; hgnc_id "HGNC:18657" ; level 2 ; orig_coord_info "chr1,51321721,51321785,-" ; protein_id "ENSP00000262675.7" ; tag basic appris_alternative_1 CCDS ; transcript_id "TTC39A--FAF1^ENST00000262675.11" ; transcript_name "TTC39A-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
TTC39A--FAF1 ENSEMBL gene 30608 53383 . + . FI_gene_label "FAF1^ENSG00000185104.20" ; ID "TTC39A--FAF1^FAF1^ENSG00000185104.20" ; exon_id "ENSE00002276283.2" ; exon_number 1 ; gene_id "TTC39A--FAF1^FAF1^ENSG00000185104.20" ; gene_name FAF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000007930.7" ; hgnc_id "HGNC:3578" ; level 3 ; orig_coord_info "chr1,50959767,50959787,-" ; protein_id "ENSP00000360843.5" ; tag basic ; transcript_id "TTC39A--FAF1^ENST00000371778.5" ; transcript_name "FAF1-201" ; transcript_support_level 1 ; transcript_type protein_coding
TTC39A--FAF1 ENSEMBL mRNA 30608 53383 . + . FI_gene_label "FAF1^ENSG00000185104.20" ; ID "TTC39A--FAF1^ENST00000371778.5" ; Parent "TTC39A--FAF1^FAF1^ENSG00000185104.20" ; exon_id "ENSE00002276283.2" ; exon_number 1 ; gene_id "TTC39A--FAF1^FAF1^ENSG00000185104.20" ; gene_name FAF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000007930.7" ; hgnc_id "HGNC:3578" ; level 3 ; orig_coord_info "chr1,50959767,50959787,-" ; protein_id "ENSP00000360843.5" ; tag basic ; transcript_id "TTC39A--FAF1^ENST00000371778.5" ; transcript_name "FAF1-201" ; 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:
USP37--MRGPRF-AS1 HAVANA gene 1001 37097 . + . FI_gene_label "USP37^ENSG00000135913.11" ; ID "USP37--MRGPRF-AS1^USP37^ENSG00000135913.11" ; ccdsid "CCDS2418.1" ; exon_id "ENSE00002235042.1" ; exon_number 4 ; gene_id "USP37--MRGPRF-AS1^USP37^ENSG00000135913.11" ; gene_name USP37 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133113.5" ; havana_transcript "OTTHUMT00000256779.4" ; hgnc_id "HGNC:20063" ; level 2 ; orig_coord_info "chr2,218558498,218558653,-" ; protein_id "ENSP00000258399.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP37--MRGPRF-AS1^ENST00000258399.8" ; transcript_name "USP37-201" ; transcript_support_level 1 ; transcript_type protein_coding
USP37--MRGPRF-AS1 HAVANA mRNA 1001 37097 . + . FI_gene_label "USP37^ENSG00000135913.11" ; ID "USP37--MRGPRF-AS1^ENST00000258399.8" ; Parent "USP37--MRGPRF-AS1^USP37^ENSG00000135913.11" ; ccdsid "CCDS2418.1" ; exon_id "ENSE00002235042.1" ; exon_number 4 ; gene_id "USP37--MRGPRF-AS1^USP37^ENSG00000135913.11" ; gene_name USP37 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133113.5" ; havana_transcript "OTTHUMT00000256779.4" ; hgnc_id "HGNC:20063" ; level 2 ; orig_coord_info "chr2,218558498,218558653,-" ; protein_id "ENSP00000258399.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP37--MRGPRF-AS1^ENST00000258399.8" ; transcript_name "USP37-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
USP37--TPCN2 HAVANA gene 1001 37097 . + . FI_gene_label "USP37^ENSG00000135913.11" ; ID "USP37--TPCN2^USP37^ENSG00000135913.11" ; ccdsid "CCDS2418.1" ; exon_id "ENSE00002235042.1" ; exon_number 4 ; gene_id "USP37--TPCN2^USP37^ENSG00000135913.11" ; gene_name USP37 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133113.5" ; havana_transcript "OTTHUMT00000256779.4" ; hgnc_id "HGNC:20063" ; level 2 ; orig_coord_info "chr2,218558498,218558653,-" ; protein_id "ENSP00000258399.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP37--TPCN2^ENST00000258399.8" ; transcript_name "USP37-201" ; transcript_support_level 1 ; transcript_type protein_coding
USP37--TPCN2 HAVANA mRNA 1001 37097 . + . FI_gene_label "USP37^ENSG00000135913.11" ; ID "USP37--TPCN2^ENST00000258399.8" ; Parent "USP37--TPCN2^USP37^ENSG00000135913.11" ; ccdsid "CCDS2418.1" ; exon_id "ENSE00002235042.1" ; exon_number 4 ; gene_id "USP37--TPCN2^USP37^ENSG00000135913.11" ; gene_name USP37 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133113.5" ; havana_transcript "OTTHUMT00000256779.4" ; hgnc_id "HGNC:20063" ; level 2 ; orig_coord_info "chr2,218558498,218558653,-" ; protein_id "ENSP00000258399.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP37--TPCN2^ENST00000258399.8" ; transcript_name "USP37-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
USP37--TPCN2 HAVANA gene 40098 61430 . + . FI_gene_label "TPCN2^ENSG00000162341.18" ; ID "USP37--TPCN2^TPCN2^ENSG00000162341.18" ; ccdsid "CCDS8189.1" ; exon_id "ENSE00003799742.1" ; exon_number 1 ; gene_id "USP37--TPCN2^TPCN2^ENSG00000162341.18" ; gene_name TPCN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000193817.1" ; havana_transcript "OTTHUMT00000396878.3" ; hgnc_id "HGNC:20820" ; level 2 ; orig_coord_info "chr11,69048998,69049106,+" ; protein_id "ENSP00000294309.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP37--TPCN2^ENST00000294309.8" ; transcript_name "TPCN2-201" ; transcript_support_level 1 ; transcript_type protein_coding
USP37--TPCN2 HAVANA mRNA 40098 61430 . + . FI_gene_label "TPCN2^ENSG00000162341.18" ; ID "USP37--TPCN2^ENST00000294309.8" ; Parent "USP37--TPCN2^TPCN2^ENSG00000162341.18" ; ccdsid "CCDS8189.1" ; exon_id "ENSE00003799742.1" ; exon_number 1 ; gene_id "USP37--TPCN2^TPCN2^ENSG00000162341.18" ; gene_name TPCN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000193817.1" ; havana_transcript "OTTHUMT00000396878.3" ; hgnc_id "HGNC:20820" ; level 2 ; orig_coord_info "chr11,69048998,69049106,+" ; protein_id "ENSP00000294309.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP37--TPCN2^ENST00000294309.8" ; transcript_name "TPCN2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF227--ZNF225 HAVANA gene 16003 26871 . + . FI_gene_label "ZNF225^ENSG00000256294.8" ; ID "ZNF227--ZNF225^ZNF225^ENSG00000256294.8" ; ccdsid "CCDS46100.1" ; exon_id "ENSE00002460569.1" ; exon_number 2 ; gene_id "ZNF227--ZNF225^ZNF225^ENSG00000256294.8" ; gene_name ZNF225 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182336.5" ; havana_transcript "OTTHUMT00000460581.3" ; hgnc_id "HGNC:13018" ; level 2 ; orig_coord_info "chr19,44115828,44115842,+" ; protein_id "ENSP00000262894.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF227--ZNF225^ENST00000262894.11" ; transcript_name "ZNF225-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF227--ZNF225 HAVANA mRNA 16003 26871 . + . FI_gene_label "ZNF225^ENSG00000256294.8" ; ID "ZNF227--ZNF225^ENST00000262894.11" ; Parent "ZNF227--ZNF225^ZNF225^ENSG00000256294.8" ; ccdsid "CCDS46100.1" ; exon_id "ENSE00002460569.1" ; exon_number 2 ; gene_id "ZNF227--ZNF225^ZNF225^ENSG00000256294.8" ; gene_name ZNF225 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182336.5" ; havana_transcript "OTTHUMT00000460581.3" ; hgnc_id "HGNC:13018" ; level 2 ; orig_coord_info "chr19,44115828,44115842,+" ; protein_id "ENSP00000262894.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF227--ZNF225^ENST00000262894.11" ; transcript_name "ZNF225-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF227--ZNF225 HAVANA gene 2342 11885 . + . FI_gene_label "ZNF227^ENSG00000131115.16" ; ID "ZNF227--ZNF225^ZNF227^ENSG00000131115.16" ; ccdsid "CCDS12636.1" ; exon_id "ENSE00002522182.1" ; exon_number 3 ; gene_id "ZNF227--ZNF225^ZNF227^ENSG00000131115.16" ; gene_name ZNF227 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182352.3" ; havana_transcript "OTTHUMT00000460720.2" ; hgnc_id "HGNC:13020" ; level 2 ; orig_coord_info "chr19,44217793,44217852,+" ; protein_id "ENSP00000321049.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF227--ZNF225^ENST00000313040.12" ; transcript_name "ZNF227-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF227--ZNF225 HAVANA mRNA 2342 11885 . + . FI_gene_label "ZNF227^ENSG00000131115.16" ; ID "ZNF227--ZNF225^ENST00000313040.12" ; Parent "ZNF227--ZNF225^ZNF227^ENSG00000131115.16" ; ccdsid "CCDS12636.1" ; exon_id "ENSE00002522182.1" ; exon_number 3 ; gene_id "ZNF227--ZNF225^ZNF227^ENSG00000131115.16" ; gene_name ZNF227 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182352.3" ; havana_transcript "OTTHUMT00000460720.2" ; hgnc_id "HGNC:13020" ; level 2 ; orig_coord_info "chr19,44217793,44217852,+" ; protein_id "ENSP00000321049.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF227--ZNF225^ENST00000313040.12" ; transcript_name "ZNF227-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF664--CARD8 HAVANA gene 2130 14983 . + . FI_gene_label "ZNF664^ENSG00000179195.16" ; ID "ZNF664--CARD8^ZNF664^ENSG00000179195.16" ; ccdsid "CCDS9257.1" ; exon_id "ENSE00003841583.1" ; exon_number 5 ; gene_id "ZNF664--CARD8^ZNF664^ENSG00000179195.16" ; gene_name ZNF664 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168596.3" ; havana_transcript "OTTHUMT00000400374.2" ; hgnc_id "HGNC:25406" ; level 2 ; orig_coord_info "chr12,124012145,124012927,+" ; protein_id "ENSP00000337320.4" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF664--CARD8^ENST00000337815.9" ; transcript_name "ZNF664-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF664--CARD8 HAVANA mRNA 2130 14983 . + . FI_gene_label "ZNF664^ENSG00000179195.16" ; ID "ZNF664--CARD8^ENST00000337815.9" ; Parent "ZNF664--CARD8^ZNF664^ENSG00000179195.16" ; ccdsid "CCDS9257.1" ; exon_id "ENSE00003841583.1" ; exon_number 5 ; gene_id "ZNF664--CARD8^ZNF664^ENSG00000179195.16" ; gene_name ZNF664 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168596.3" ; havana_transcript "OTTHUMT00000400374.2" ; hgnc_id "HGNC:25406" ; level 2 ; orig_coord_info "chr12,124012145,124012927,+" ; protein_id "ENSP00000337320.4" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZNF664--CARD8^ENST00000337815.9" ; transcript_name "ZNF664-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF664--CARD8 ENSEMBL gene 22919 38934 . + . FI_gene_label "CARD8^ENSG00000105483.18" ; ID "ZNF664--CARD8^CARD8^ENSG00000105483.18" ; ccdsid "CCDS54289.1" ; exon_id "ENSE00003566731.1" ; exon_number 1 ; gene_id "ZNF664--CARD8^CARD8^ENSG00000105483.18" ; gene_name CARD8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165047.10" ; hgnc_id "HGNC:17057" ; level 3 ; orig_coord_info "chr19,48240962,48241020,-" ; protein_id "ENSP00000375767.3" ; tag basic appris_principal_4 CCDS ; transcript_id "ZNF664--CARD8^ENST00000391898.7" ; transcript_name "CARD8-202" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF664--CARD8 ENSEMBL mRNA 22919 38934 . + . FI_gene_label "CARD8^ENSG00000105483.18" ; ID "ZNF664--CARD8^ENST00000391898.7" ; Parent "ZNF664--CARD8^CARD8^ENSG00000105483.18" ; ccdsid "CCDS54289.1" ; exon_id "ENSE00003566731.1" ; exon_number 1 ; gene_id "ZNF664--CARD8^CARD8^ENSG00000105483.18" ; gene_name CARD8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165047.10" ; hgnc_id "HGNC:17057" ; level 3 ; orig_coord_info "chr19,48240962,48241020,-" ; protein_id "ENSP00000375767.3" ; tag basic appris_principal_4 CCDS ; transcript_id "ZNF664--CARD8^ENST00000391898.7" ; transcript_name "CARD8-202" ; 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:
ELP4--THEM7P HAVANA gene 55465 58536 . + . FI_gene_label "THEM7P^ENSG00000227160.3" ; ID "ELP4--THEM7P^THEM7P^ENSG00000227160.3" ; exon_id "ENSE00002144045.1" ; exon_number 1 ; gene_id "ELP4--THEM7P^THEM7P^ENSG00000227160.3" ; gene_name THEM7P ; gene_type transcribed_unitary_pseudogene ; havana_gene "OTTHUMG00000154120.3" ; havana_transcript "OTTHUMT00000333968.2" ; hgnc_id "HGNC:50386" ; level 2 ; orig_coord_info "chr11,32254346,32254395,-" ; tag basic ; transcript_id "ELP4--THEM7P^ENST00000419556.2" ; transcript_name "THEM7P-201" ; transcript_support_level NA ; transcript_type transcribed_unitary_pseudogene
ELP4--THEM7P HAVANA RNA 55465 58536 . + . FI_gene_label "THEM7P^ENSG00000227160.3" ; ID "ELP4--THEM7P^ENST00000419556.2" ; Parent "ELP4--THEM7P^THEM7P^ENSG00000227160.3" ; exon_id "ENSE00002144045.1" ; exon_number 1 ; gene_id "ELP4--THEM7P^THEM7P^ENSG00000227160.3" ; gene_name THEM7P ; gene_type transcribed_unitary_pseudogene ; havana_gene "OTTHUMG00000154120.3" ; havana_transcript "OTTHUMT00000333968.2" ; hgnc_id "HGNC:50386" ; level 2 ; orig_coord_info "chr11,32254346,32254395,-" ; tag basic ; transcript_id "ELP4--THEM7P^ENST00000419556.2" ; transcript_name "THEM7P-201" ; transcript_support_level NA ; transcript_type transcribed_unitary_pseudogene
L1 and L2 created:
EPS15--AL583785.1 HAVANA gene 38618 42271 . + . FI_gene_label "AL583785.1^ENSG00000226197.3" ; ID "EPS15--AL583785.1^AL583785.1^ENSG00000226197.3" ; exon_id "ENSE00003869976.1" ; exon_number 1 ; gene_id "EPS15--AL583785.1^AL583785.1^ENSG00000226197.3" ; gene_name "AL583785.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019563.7" ; havana_transcript "OTTHUMT00000510705.1" ; level 2 ; orig_coord_info "chr9,13438237,13438258,+" ; tag TAGENE ; transcript_id "EPS15--AL583785.1^ENST00000428006.3" ; transcript_name "AL583785.1-202" ; transcript_support_level 2 ; transcript_type lncRNA
EPS15--AL583785.1 HAVANA RNA 38618 42271 . + . FI_gene_label "AL583785.1^ENSG00000226197.3" ; ID "EPS15--AL583785.1^ENST00000428006.3" ; Parent "EPS15--AL583785.1^AL583785.1^ENSG00000226197.3" ; exon_id "ENSE00003869976.1" ; exon_number 1 ; gene_id "EPS15--AL583785.1^AL583785.1^ENSG00000226197.3" ; gene_name "AL583785.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019563.7" ; havana_transcript "OTTHUMT00000510705.1" ; level 2 ; orig_coord_info "chr9,13438237,13438258,+" ; tag TAGENE ; transcript_id "EPS15--AL583785.1^ENST00000428006.3" ; transcript_name "AL583785.1-202" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
INTS1--AC093734.1 HAVANA gene 34419 35191 . + . FI_gene_label "AC093734.1^ENSG00000231927.1" ; ID "INTS1--AC093734.1^AC093734.1^ENSG00000231927.1" ; exon_id "ENSE00001656180.1" ; exon_number 1 ; gene_id "INTS1--AC093734.1^AC093734.1^ENSG00000231927.1" ; gene_name "AC093734.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000151728.1" ; havana_transcript "OTTHUMT00000323690.1" ; level 2 ; orig_coord_info "chr7,1509305,1509427,-" ; tag basic ; transcript_id "INTS1--AC093734.1^ENST00000416100.1" ; transcript_name "AC093734.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
INTS1--AC093734.1 HAVANA RNA 34419 35191 . + . FI_gene_label "AC093734.1^ENSG00000231927.1" ; ID "INTS1--AC093734.1^ENST00000416100.1" ; Parent "INTS1--AC093734.1^AC093734.1^ENSG00000231927.1" ; exon_id "ENSE00001656180.1" ; exon_number 1 ; gene_id "INTS1--AC093734.1^AC093734.1^ENSG00000231927.1" ; gene_name "AC093734.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000151728.1" ; havana_transcript "OTTHUMT00000323690.1" ; level 2 ; orig_coord_info "chr7,1509305,1509427,-" ; tag basic ; transcript_id "INTS1--AC093734.1^ENST00000416100.1" ; transcript_name "AC093734.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
LDLRAD3--LINC02758 HAVANA gene 17576 19341 . + . FI_gene_label "LINC02758^ENSG00000248990.1" ; ID "LDLRAD3--LINC02758^LINC02758^ENSG00000248990.1" ; exon_id "ENSE00002045345.1" ; exon_number 1 ; gene_id "LDLRAD3--LINC02758^LINC02758^ENSG00000248990.1" ; gene_name LINC02758 ; gene_type lncRNA ; havana_gene "OTTHUMG00000163392.1" ; havana_transcript "OTTHUMT00000373088.1" ; hgnc_id "HGNC:54278" ; level 2 ; orig_coord_info "chr11,28679183,28679303,+" ; tag dotter_confirmed basic ; transcript_id "LDLRAD3--LINC02758^ENST00000505409.1" ; transcript_name "LINC02758-201" ; transcript_support_level 5 ; transcript_type lncRNA
LDLRAD3--LINC02758 HAVANA RNA 17576 19341 . + . FI_gene_label "LINC02758^ENSG00000248990.1" ; ID "LDLRAD3--LINC02758^ENST00000505409.1" ; Parent "LDLRAD3--LINC02758^LINC02758^ENSG00000248990.1" ; exon_id "ENSE00002045345.1" ; exon_number 1 ; gene_id "LDLRAD3--LINC02758^LINC02758^ENSG00000248990.1" ; gene_name LINC02758 ; gene_type lncRNA ; havana_gene "OTTHUMG00000163392.1" ; havana_transcript "OTTHUMT00000373088.1" ; hgnc_id "HGNC:54278" ; level 2 ; orig_coord_info "chr11,28679183,28679303,+" ; tag dotter_confirmed basic ; transcript_id "LDLRAD3--LINC02758^ENST00000505409.1" ; transcript_name "LINC02758-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
PRRG4--AC061997.1 ENSEMBL gene 13878 13973 . + . FI_gene_label "AC061997.1^ENSG00000251838.1" ; ID "PRRG4--AC061997.1^AC061997.1^ENSG00000251838.1" ; exon_id "ENSE00002088306.1" ; exon_number 1 ; gene_id "PRRG4--AC061997.1^AC061997.1^ENSG00000251838.1" ; gene_name "AC061997.1" ; gene_type snoRNA ; level 3 ; orig_coord_info "chr11,37702125,37702220,-" ; tag basic ; transcript_id "PRRG4--AC061997.1^ENST00000516029.1" ; transcript_name "AC061997.1-201" ; transcript_support_level NA ; transcript_type snoRNA
PRRG4--AC061997.1 ENSEMBL RNA 13878 13973 . + . FI_gene_label "AC061997.1^ENSG00000251838.1" ; ID "PRRG4--AC061997.1^ENST00000516029.1" ; Parent "PRRG4--AC061997.1^AC061997.1^ENSG00000251838.1" ; exon_id "ENSE00002088306.1" ; exon_number 1 ; gene_id "PRRG4--AC061997.1^AC061997.1^ENSG00000251838.1" ; gene_name "AC061997.1" ; gene_type snoRNA ; level 3 ; orig_coord_info "chr11,37702125,37702220,-" ; tag basic ; transcript_id "PRRG4--AC061997.1^ENST00000516029.1" ; transcript_name "AC061997.1-201" ; transcript_support_level NA ; transcript_type snoRNA
L1 and L2 created:
PRRG4--AC104042.1 HAVANA gene 13878 15428 . + . FI_gene_label "AC104042.1^ENSG00000254498.1" ; ID "PRRG4--AC104042.1^AC104042.1^ENSG00000254498.1" ; exon_id "ENSE00002168998.1" ; exon_number 1 ; gene_id "PRRG4--AC104042.1^AC104042.1^ENSG00000254498.1" ; gene_name "AC104042.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166332.1" ; havana_transcript "OTTHUMT00000389187.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr11,36696317,36697090,+" ; tag pseudo_consens basic ; transcript_id "PRRG4--AC104042.1^ENST00000524806.1" ; transcript_name "AC104042.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
PRRG4--AC104042.1 HAVANA RNA 13878 15428 . + . FI_gene_label "AC104042.1^ENSG00000254498.1" ; ID "PRRG4--AC104042.1^ENST00000524806.1" ; Parent "PRRG4--AC104042.1^AC104042.1^ENSG00000254498.1" ; exon_id "ENSE00002168998.1" ; exon_number 1 ; gene_id "PRRG4--AC104042.1^AC104042.1^ENSG00000254498.1" ; gene_name "AC104042.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166332.1" ; havana_transcript "OTTHUMT00000389187.1" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr11,36696317,36697090,+" ; tag pseudo_consens basic ; transcript_id "PRRG4--AC104042.1^ENST00000524806.1" ; transcript_name "AC104042.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2--FAM157A HAVANA gene 40046 44186 . + . FI_gene_label "FAM157A^ENSG00000236438.7" ; ID "TLK2--FAM157A^FAM157A^ENSG00000236438.7" ; exon_id "ENSE00002579345.3" ; exon_number 1 ; gene_id "TLK2--FAM157A^FAM157A^ENSG00000236438.7" ; gene_name FAM157A ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000187506.3" ; havana_transcript "OTTHUMT00000488453.1" ; hgnc_id "HGNC:34079" ; level 2 ; orig_coord_info "chr3,198153287,198153409,+" ; tag basic ; transcript_id "TLK2--FAM157A^ENST00000437428.3" ; transcript_name "FAM157A-201" ; transcript_support_level 3 ; transcript_type processed_transcript
TLK2--FAM157A HAVANA RNA 40046 44186 . + . FI_gene_label "FAM157A^ENSG00000236438.7" ; ID "TLK2--FAM157A^ENST00000437428.3" ; Parent "TLK2--FAM157A^FAM157A^ENSG00000236438.7" ; exon_id "ENSE00002579345.3" ; exon_number 1 ; gene_id "TLK2--FAM157A^FAM157A^ENSG00000236438.7" ; gene_name FAM157A ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000187506.3" ; havana_transcript "OTTHUMT00000488453.1" ; hgnc_id "HGNC:34079" ; level 2 ; orig_coord_info "chr3,198153287,198153409,+" ; tag basic ; transcript_id "TLK2--FAM157A^ENST00000437428.3" ; transcript_name "FAM157A-201" ; transcript_support_level 3 ; transcript_type processed_transcript
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:
TP53BP2--AL669831.1 HAVANA gene 27606 33596 . + . FI_gene_label "AL669831.1^ENSG00000228327.3" ; ID "TP53BP2--AL669831.1^AL669831.1^ENSG00000228327.3" ; exon_id "ENSE00001630466.1" ; exon_number 1 ; gene_id "TP53BP2--AL669831.1^AL669831.1^ENSG00000228327.3" ; gene_name "AL669831.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000002406.2" ; havana_transcript "OTTHUMT00000488438.1" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr1,774171,774280,-" ; tag basic ; transcript_id "TP53BP2--AL669831.1^ENST00000428504.2" ; transcript_name "AL669831.1-202" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
TP53BP2--AL669831.1 HAVANA RNA 27606 33596 . + . FI_gene_label "AL669831.1^ENSG00000228327.3" ; ID "TP53BP2--AL669831.1^ENST00000428504.2" ; Parent "TP53BP2--AL669831.1^AL669831.1^ENSG00000228327.3" ; exon_id "ENSE00001630466.1" ; exon_number 1 ; gene_id "TP53BP2--AL669831.1^AL669831.1^ENSG00000228327.3" ; gene_name "AL669831.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000002406.2" ; havana_transcript "OTTHUMT00000488438.1" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr1,774171,774280,-" ; tag basic ; transcript_id "TP53BP2--AL669831.1^ENST00000428504.2" ; transcript_name "AL669831.1-202" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
TP53BP2--GTF2IP20 HAVANA gene 27618 31384 . + . FI_gene_label "GTF2IP20^ENSG00000272645.3" ; ID "TP53BP2--GTF2IP20^GTF2IP20^ENSG00000272645.3" ; exon_id "ENSE00002398450.1" ; exon_number 1 ; gene_id "TP53BP2--GTF2IP20^GTF2IP20^ENSG00000272645.3" ; gene_name GTF2IP20 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000037471.2" ; havana_transcript "OTTHUMT00000091225.2" ; hgnc_id "HGNC:51732" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr1,223988045,223988154,-" ; tag basic ; transcript_id "TP53BP2--GTF2IP20^ENST00000431663.1" ; transcript_name "GTF2IP20-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
TP53BP2--GTF2IP20 HAVANA RNA 27618 31384 . + . FI_gene_label "GTF2IP20^ENSG00000272645.3" ; ID "TP53BP2--GTF2IP20^ENST00000431663.1" ; Parent "TP53BP2--GTF2IP20^GTF2IP20^ENSG00000272645.3" ; exon_id "ENSE00002398450.1" ; exon_number 1 ; gene_id "TP53BP2--GTF2IP20^GTF2IP20^ENSG00000272645.3" ; gene_name GTF2IP20 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000037471.2" ; havana_transcript "OTTHUMT00000091225.2" ; hgnc_id "HGNC:51732" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr1,223988045,223988154,-" ; tag basic ; transcript_id "TP53BP2--GTF2IP20^ENST00000431663.1" ; transcript_name "GTF2IP20-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
USP37--MRGPRF-AS1 HAVANA gene 40246 45327 . + . FI_gene_label "MRGPRF-AS1^ENSG00000256508.2" ; ID "USP37--MRGPRF-AS1^MRGPRF-AS1^ENSG00000256508.2" ; exon_id "ENSE00002251721.1" ; exon_number 1 ; gene_id "USP37--MRGPRF-AS1^MRGPRF-AS1^ENSG00000256508.2" ; gene_name "MRGPRF-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000172940.1" ; havana_transcript "OTTHUMT00000421418.1" ; hgnc_id "HGNC:51140" ; level 2 ; orig_coord_info "chr11,69012431,69012548,+" ; tag basic ; transcript_id "USP37--MRGPRF-AS1^ENST00000538407.2" ; transcript_name "MRGPRF-AS1-201" ; transcript_support_level 1 ; transcript_type lncRNA
USP37--MRGPRF-AS1 HAVANA RNA 40246 45327 . + . FI_gene_label "MRGPRF-AS1^ENSG00000256508.2" ; ID "USP37--MRGPRF-AS1^ENST00000538407.2" ; Parent "USP37--MRGPRF-AS1^MRGPRF-AS1^ENSG00000256508.2" ; exon_id "ENSE00002251721.1" ; exon_number 1 ; gene_id "USP37--MRGPRF-AS1^MRGPRF-AS1^ENSG00000256508.2" ; gene_name "MRGPRF-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000172940.1" ; havana_transcript "OTTHUMT00000421418.1" ; hgnc_id "HGNC:51140" ; level 2 ; orig_coord_info "chr11,69012431,69012548,+" ; tag basic ; transcript_id "USP37--MRGPRF-AS1^ENST00000538407.2" ; transcript_name "MRGPRF-AS1-201" ; transcript_support_level 1 ; transcript_type lncRNA
550 cases fixed where L3 features have parent feature(s) missing
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
------------------------------ done in 0 seconds -------------------------------
------------------------- Check7: all level3 locations -------------------------
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check8: check cds -------------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
------------------------------ done in 0 seconds -------------------------------
----------------------------- Check10: check utrs ------------------------------
1208 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 40 wrong level1 location cases
------------------------------ done in 0 seconds -------------------------------
---------------------- Check13: remove identical isoforms ----------------------
None found
------------------------------ done in 0 seconds -------------------------------
------ End checks (done in 0 second) ------
GFF3 file parsed