Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/33368427b9e24a79ad3528c46ec03b/fi_workdir/786-O_FFPE_RNA_0001_B23LG7FLT4_3.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cf/e9b02a541893b66a4eb86b3eaa64c7/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cf/e9b02a541893b66a4eb86b3eaa64c7/.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: 6152
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 6152
=> 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:6152
=> 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 1 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:
AC008969.1--SMARCA4 HAVANA gene 13271 58742 . + . FI_gene_label "SMARCA4^ENSG00000127616.19" ; ID "AC008969.1--SMARCA4^SMARCA4^ENSG00000127616.19" ; ccdsid "CCDS12253.1" ; exon_id "ENSE00000874191.1" ; exon_number 2 ; gene_id "AC008969.1--SMARCA4^SMARCA4^ENSG00000127616.19" ; gene_name SMARCA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169272.16" ; havana_transcript "OTTHUMT00000403235.3" ; hgnc_id "HGNC:11100" ; level 2 ; orig_coord_info "chr19,10984152,10984373,+" ; protein_id "ENSP00000343896.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC008969.1--SMARCA4^ENST00000344626.10" ; transcript_name "SMARCA4-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC008969.1--SMARCA4 HAVANA mRNA 13271 58742 . + . FI_gene_label "SMARCA4^ENSG00000127616.19" ; ID "AC008969.1--SMARCA4^ENST00000344626.10" ; Parent "AC008969.1--SMARCA4^SMARCA4^ENSG00000127616.19" ; ccdsid "CCDS12253.1" ; exon_id "ENSE00000874191.1" ; exon_number 2 ; gene_id "AC008969.1--SMARCA4^SMARCA4^ENSG00000127616.19" ; gene_name SMARCA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169272.16" ; havana_transcript "OTTHUMT00000403235.3" ; hgnc_id "HGNC:11100" ; level 2 ; orig_coord_info "chr19,10984152,10984373,+" ; protein_id "ENSP00000343896.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC008969.1--SMARCA4^ENST00000344626.10" ; transcript_name "SMARCA4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ARHGEF3--RRP9 HAVANA gene 32069 38340 . + . FI_gene_label "RRP9^ENSG00000114767.7" ; ID "ARHGEF3--RRP9^RRP9^ENSG00000114767.7" ; ccdsid "CCDS2837.1" ; exon_id "ENSE00001081277.7" ; exon_number 1 ; gene_id "ARHGEF3--RRP9^RRP9^ENSG00000114767.7" ; gene_name RRP9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000156930.2" ; havana_transcript "OTTHUMT00000346637.2" ; hgnc_id "HGNC:16829" ; level 2 ; orig_coord_info "chr3,51941781,51941867,-" ; protein_id "ENSP00000232888.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARHGEF3--RRP9^ENST00000232888.7" ; transcript_name "RRP9-201" ; transcript_support_level 1 ; transcript_type protein_coding
ARHGEF3--RRP9 HAVANA mRNA 32069 38340 . + . FI_gene_label "RRP9^ENSG00000114767.7" ; ID "ARHGEF3--RRP9^ENST00000232888.7" ; Parent "ARHGEF3--RRP9^RRP9^ENSG00000114767.7" ; ccdsid "CCDS2837.1" ; exon_id "ENSE00001081277.7" ; exon_number 1 ; gene_id "ARHGEF3--RRP9^RRP9^ENSG00000114767.7" ; gene_name RRP9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000156930.2" ; havana_transcript "OTTHUMT00000346637.2" ; hgnc_id "HGNC:16829" ; level 2 ; orig_coord_info "chr3,51941781,51941867,-" ; protein_id "ENSP00000232888.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARHGEF3--RRP9^ENST00000232888.7" ; transcript_name "RRP9-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ARHGEF3--RRP9 HAVANA gene 15005 29066 . + . FI_gene_label "ARHGEF3^ENSG00000163947.12" ; ID "ARHGEF3--RRP9^ARHGEF3^ENSG00000163947.12" ; ccdsid "CCDS2878.1" ; exon_id "ENSE00003596462.1" ; exon_number 1 ; gene_id "ARHGEF3--RRP9^ARHGEF3^ENSG00000163947.12" ; gene_name ARHGEF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158857.9" ; havana_transcript "OTTHUMT00000352431.2" ; hgnc_id "HGNC:683" ; level 2 ; orig_coord_info "chr3,56801703,56801798,-" ; protein_id "ENSP00000296315.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ARHGEF3--RRP9^ENST00000296315.8" ; transcript_name "ARHGEF3-201" ; transcript_support_level 1 ; transcript_type protein_coding
ARHGEF3--RRP9 HAVANA mRNA 15005 29066 . + . FI_gene_label "ARHGEF3^ENSG00000163947.12" ; ID "ARHGEF3--RRP9^ENST00000296315.8" ; Parent "ARHGEF3--RRP9^ARHGEF3^ENSG00000163947.12" ; ccdsid "CCDS2878.1" ; exon_id "ENSE00003596462.1" ; exon_number 1 ; gene_id "ARHGEF3--RRP9^ARHGEF3^ENSG00000163947.12" ; gene_name ARHGEF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000158857.9" ; havana_transcript "OTTHUMT00000352431.2" ; hgnc_id "HGNC:683" ; level 2 ; orig_coord_info "chr3,56801703,56801798,-" ; protein_id "ENSP00000296315.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ARHGEF3--RRP9^ENST00000296315.8" ; transcript_name "ARHGEF3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ATAD2B--KLHL29 HAVANA gene 1001 44854 . + . FI_gene_label "ATAD2B^ENSG00000119778.15" ; ID "ATAD2B--KLHL29^ATAD2B^ENSG00000119778.15" ; ccdsid "CCDS46227.1" ; exon_id "ENSE00001558735.3" ; exon_number 1 ; gene_id "ATAD2B--KLHL29^ATAD2B^ENSG00000119778.15" ; gene_name ATAD2B ; gene_type protein_coding ; havana_gene "OTTHUMG00000151902.5" ; havana_transcript "OTTHUMT00000324333.3" ; hgnc_id "HGNC:29230" ; level 2 ; orig_coord_info "chr2,23926555,23926770,-" ; protein_id "ENSP00000238789.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ATAD2B--KLHL29^ENST00000238789.10" ; transcript_name "ATAD2B-201" ; transcript_support_level 5 ; transcript_type protein_coding
ATAD2B--KLHL29 HAVANA mRNA 1001 44854 . + . FI_gene_label "ATAD2B^ENSG00000119778.15" ; ID "ATAD2B--KLHL29^ENST00000238789.10" ; Parent "ATAD2B--KLHL29^ATAD2B^ENSG00000119778.15" ; ccdsid "CCDS46227.1" ; exon_id "ENSE00001558735.3" ; exon_number 1 ; gene_id "ATAD2B--KLHL29^ATAD2B^ENSG00000119778.15" ; gene_name ATAD2B ; gene_type protein_coding ; havana_gene "OTTHUMG00000151902.5" ; havana_transcript "OTTHUMT00000324333.3" ; hgnc_id "HGNC:29230" ; level 2 ; orig_coord_info "chr2,23926555,23926770,-" ; protein_id "ENSP00000238789.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ATAD2B--KLHL29^ENST00000238789.10" ; transcript_name "ATAD2B-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
ATAD2B--KLHL29 HAVANA gene 54127 65821 . + . FI_gene_label "KLHL29^ENSG00000119771.15" ; ID "ATAD2B--KLHL29^KLHL29^ENSG00000119771.15" ; exon_id "ENSE00001411521.3" ; exon_number 1 ; gene_id "ATAD2B--KLHL29^KLHL29^ENSG00000119771.15" ; gene_name KLHL29 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151899.4" ; havana_transcript "OTTHUMT00000324317.2" ; hgnc_id "HGNC:29404" ; level 2 ; orig_coord_info "chr2,23642392,23642850,+" ; protein_id "ENSP00000288548.5" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ATAD2B--KLHL29^ENST00000288548.5" ; transcript_name "KLHL29-201" ; transcript_support_level 1 ; transcript_type protein_coding
ATAD2B--KLHL29 HAVANA mRNA 54127 65821 . + . FI_gene_label "KLHL29^ENSG00000119771.15" ; ID "ATAD2B--KLHL29^ENST00000288548.5" ; Parent "ATAD2B--KLHL29^KLHL29^ENSG00000119771.15" ; exon_id "ENSE00001411521.3" ; exon_number 1 ; gene_id "ATAD2B--KLHL29^KLHL29^ENSG00000119771.15" ; gene_name KLHL29 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151899.4" ; havana_transcript "OTTHUMT00000324317.2" ; hgnc_id "HGNC:29404" ; level 2 ; orig_coord_info "chr2,23642392,23642850,+" ; protein_id "ENSP00000288548.5" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ATAD2B--KLHL29^ENST00000288548.5" ; transcript_name "KLHL29-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
BNC2--AL358117.1 HAVANA gene 2199 12030 . + . FI_gene_label "BNC2^ENSG00000173068.18" ; ID "BNC2--AL358117.1^BNC2^ENSG00000173068.18" ; exon_id "ENSE00003666105.1" ; exon_number 2 ; gene_id "BNC2--AL358117.1^BNC2^ENSG00000173068.18" ; gene_name BNC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019593.13" ; havana_transcript "OTTHUMT00000476395.2" ; hgnc_id "HGNC:30988" ; level 2 ; orig_coord_info "chr9,16727797,16727892,-" ; protein_id "ENSP00000370041.3" ; tag mRNA_end_NF cds_end_NF ; transcript_id "BNC2--AL358117.1^ENST00000380666.6" ; transcript_name "BNC2-201" ; transcript_support_level 5 ; transcript_type protein_coding
BNC2--AL358117.1 HAVANA mRNA 2199 12030 . + . FI_gene_label "BNC2^ENSG00000173068.18" ; ID "BNC2--AL358117.1^ENST00000380666.6" ; Parent "BNC2--AL358117.1^BNC2^ENSG00000173068.18" ; exon_id "ENSE00003666105.1" ; exon_number 2 ; gene_id "BNC2--AL358117.1^BNC2^ENSG00000173068.18" ; gene_name BNC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019593.13" ; havana_transcript "OTTHUMT00000476395.2" ; hgnc_id "HGNC:30988" ; level 2 ; orig_coord_info "chr9,16727797,16727892,-" ; protein_id "ENSP00000370041.3" ; tag mRNA_end_NF cds_end_NF ; transcript_id "BNC2--AL358117.1^ENST00000380666.6" ; transcript_name "BNC2-201" ; transcript_support_level 5 ; 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:
CENPU--ENPP6 HAVANA gene 1035 16683 . + . FI_gene_label "CENPU^ENSG00000151725.12" ; ID "CENPU--ENPP6^CENPU^ENSG00000151725.12" ; ccdsid "CCDS3838.1" ; exon_id "ENSE00002026850.2" ; exon_number 1 ; gene_id "CENPU--ENPP6^CENPU^ENSG00000151725.12" ; gene_name CENPU ; gene_type protein_coding ; havana_gene "OTTHUMG00000160499.20" ; havana_transcript "OTTHUMT00000360841.3" ; hgnc_id "HGNC:21348" ; level 2 ; orig_coord_info "chr4,184734016,184734062,-" ; protein_id "ENSP00000281453.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CENPU--ENPP6^ENST00000281453.10" ; transcript_name "CENPU-201" ; transcript_support_level 1 ; transcript_type protein_coding
CENPU--ENPP6 HAVANA mRNA 1035 16683 . + . FI_gene_label "CENPU^ENSG00000151725.12" ; ID "CENPU--ENPP6^ENST00000281453.10" ; Parent "CENPU--ENPP6^CENPU^ENSG00000151725.12" ; ccdsid "CCDS3838.1" ; exon_id "ENSE00002026850.2" ; exon_number 1 ; gene_id "CENPU--ENPP6^CENPU^ENSG00000151725.12" ; gene_name CENPU ; gene_type protein_coding ; havana_gene "OTTHUMG00000160499.20" ; havana_transcript "OTTHUMT00000360841.3" ; hgnc_id "HGNC:21348" ; level 2 ; orig_coord_info "chr4,184734016,184734062,-" ; protein_id "ENSP00000281453.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CENPU--ENPP6^ENST00000281453.10" ; transcript_name "CENPU-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CENPU--ENPP6 HAVANA gene 20782 33596 . + . FI_gene_label "ENPP6^ENSG00000164303.11" ; ID "CENPU--ENPP6^ENPP6^ENSG00000164303.11" ; ccdsid "CCDS3834.1" ; exon_id "ENSE00001151533.6" ; exon_number 1 ; gene_id "CENPU--ENPP6^ENPP6^ENSG00000164303.11" ; gene_name ENPP6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160617.3" ; havana_transcript "OTTHUMT00000361428.2" ; hgnc_id "HGNC:23409" ; level 2 ; orig_coord_info "chr4,184217579,184217819,-" ; protein_id "ENSP00000296741.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CENPU--ENPP6^ENST00000296741.7" ; transcript_name "ENPP6-201" ; transcript_support_level 1 ; transcript_type protein_coding
CENPU--ENPP6 HAVANA mRNA 20782 33596 . + . FI_gene_label "ENPP6^ENSG00000164303.11" ; ID "CENPU--ENPP6^ENST00000296741.7" ; Parent "CENPU--ENPP6^ENPP6^ENSG00000164303.11" ; ccdsid "CCDS3834.1" ; exon_id "ENSE00001151533.6" ; exon_number 1 ; gene_id "CENPU--ENPP6^ENPP6^ENSG00000164303.11" ; gene_name ENPP6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160617.3" ; havana_transcript "OTTHUMT00000361428.2" ; hgnc_id "HGNC:23409" ; level 2 ; orig_coord_info "chr4,184217579,184217819,-" ; protein_id "ENSP00000296741.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CENPU--ENPP6^ENST00000296741.7" ; transcript_name "ENPP6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
DHX38--AMPD1 HAVANA gene 1235 18399 . + . FI_gene_label "DHX38^ENSG00000140829.12" ; ID "DHX38--AMPD1^DHX38^ENSG00000140829.12" ; ccdsid "CCDS10907.1" ; exon_id "ENSE00000945215.1" ; exon_number 2 ; gene_id "DHX38--AMPD1^DHX38^ENSG00000140829.12" ; gene_name DHX38 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137596.7" ; havana_transcript "OTTHUMT00000269004.4" ; hgnc_id "HGNC:17211" ; level 2 ; orig_coord_info "chr16,72096158,72096480,+" ; protein_id "ENSP00000268482.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DHX38--AMPD1^ENST00000268482.8" ; transcript_name "DHX38-201" ; transcript_support_level 1 ; transcript_type protein_coding
DHX38--AMPD1 HAVANA mRNA 1235 18399 . + . FI_gene_label "DHX38^ENSG00000140829.12" ; ID "DHX38--AMPD1^ENST00000268482.8" ; Parent "DHX38--AMPD1^DHX38^ENSG00000140829.12" ; ccdsid "CCDS10907.1" ; exon_id "ENSE00000945215.1" ; exon_number 2 ; gene_id "DHX38--AMPD1^DHX38^ENSG00000140829.12" ; gene_name DHX38 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137596.7" ; havana_transcript "OTTHUMT00000269004.4" ; hgnc_id "HGNC:17211" ; level 2 ; orig_coord_info "chr16,72096158,72096480,+" ; protein_id "ENSP00000268482.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DHX38--AMPD1^ENST00000268482.8" ; transcript_name "DHX38-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
DHX38--AMPD1 HAVANA gene 21400 34555 . + . FI_gene_label "AMPD1^ENSG00000116748.21" ; ID "DHX38--AMPD1^AMPD1^ENSG00000116748.21" ; ccdsid "CCDS53349.1" ; exon_id "ENSE00001450288.1" ; exon_number 1 ; gene_id "DHX38--AMPD1^AMPD1^ENSG00000116748.21" ; gene_name AMPD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000011892.8" ; havana_transcript "OTTHUMT00000032861.2" ; hgnc_id "HGNC:468" ; level 1 ; orig_coord_info "chr1,114695450,114695570,-" ; protein_id "ENSP00000358551.3" ; tag basic appris_alternative_2 exp_conf CCDS ; transcript_id "DHX38--AMPD1^ENST00000369538.3" ; transcript_name "AMPD1-201" ; transcript_support_level 2 ; transcript_type protein_coding
DHX38--AMPD1 HAVANA mRNA 21400 34555 . + . FI_gene_label "AMPD1^ENSG00000116748.21" ; ID "DHX38--AMPD1^ENST00000369538.3" ; Parent "DHX38--AMPD1^AMPD1^ENSG00000116748.21" ; ccdsid "CCDS53349.1" ; exon_id "ENSE00001450288.1" ; exon_number 1 ; gene_id "DHX38--AMPD1^AMPD1^ENSG00000116748.21" ; gene_name AMPD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000011892.8" ; havana_transcript "OTTHUMT00000032861.2" ; hgnc_id "HGNC:468" ; level 1 ; orig_coord_info "chr1,114695450,114695570,-" ; protein_id "ENSP00000358551.3" ; tag basic appris_alternative_2 exp_conf CCDS ; transcript_id "DHX38--AMPD1^ENST00000369538.3" ; transcript_name "AMPD1-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
GTF2A1L--STON1-GTF2A1L HAVANA gene 1059 10137 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
GTF2A1L--STON1-GTF2A1L HAVANA mRNA 1059 10137 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "GTF2A1L--STON1-GTF2A1L^ENST00000403751.8" ; Parent "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GUSBP13--NAIP ENSEMBL gene 10656 31835 . + . FI_gene_label "NAIP^ENSG00000249437.8" ; ID "GUSBP13--NAIP^NAIP^ENSG00000249437.8" ; ccdsid "CCDS4009.1" ; exon_id "ENSE00002284906.1" ; exon_number 2 ; gene_id "GUSBP13--NAIP^NAIP^ENSG00000249437.8" ; gene_name NAIP ; gene_type protein_coding ; havana_gene "OTTHUMG00000163318.7" ; hgnc_id "HGNC:7634" ; level 3 ; orig_coord_info "chr5,71012348,71012915,-" ; protein_id "ENSP00000443944.1" ; tag basic appris_principal_2 CCDS ; transcript_id "GUSBP13--NAIP^ENST00000194097.8" ; transcript_name "NAIP-201" ; transcript_support_level 1 ; transcript_type protein_coding
GUSBP13--NAIP ENSEMBL mRNA 10656 31835 . + . FI_gene_label "NAIP^ENSG00000249437.8" ; ID "GUSBP13--NAIP^ENST00000194097.8" ; Parent "GUSBP13--NAIP^NAIP^ENSG00000249437.8" ; ccdsid "CCDS4009.1" ; exon_id "ENSE00002284906.1" ; exon_number 2 ; gene_id "GUSBP13--NAIP^NAIP^ENSG00000249437.8" ; gene_name NAIP ; gene_type protein_coding ; havana_gene "OTTHUMG00000163318.7" ; hgnc_id "HGNC:7634" ; level 3 ; orig_coord_info "chr5,71012348,71012915,-" ; protein_id "ENSP00000443944.1" ; tag basic appris_principal_2 CCDS ; transcript_id "GUSBP13--NAIP^ENST00000194097.8" ; transcript_name "NAIP-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HIF1A--SNAPC1 HAVANA gene 22641 33116 . + . FI_gene_label "SNAPC1^ENSG00000023608.5" ; ID "HIF1A--SNAPC1^SNAPC1^ENSG00000023608.5" ; ccdsid "CCDS9755.1" ; exon_id "ENSE00001143783.5" ; exon_number 1 ; gene_id "HIF1A--SNAPC1^SNAPC1^ENSG00000023608.5" ; gene_name SNAPC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140343.3" ; havana_transcript "OTTHUMT00000276976.3" ; hgnc_id "HGNC:11134" ; level 2 ; orig_coord_info "chr14,61762461,61762588,+" ; protein_id "ENSP00000216294.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HIF1A--SNAPC1^ENST00000216294.5" ; transcript_name "SNAPC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
HIF1A--SNAPC1 HAVANA mRNA 22641 33116 . + . FI_gene_label "SNAPC1^ENSG00000023608.5" ; ID "HIF1A--SNAPC1^ENST00000216294.5" ; Parent "HIF1A--SNAPC1^SNAPC1^ENSG00000023608.5" ; ccdsid "CCDS9755.1" ; exon_id "ENSE00001143783.5" ; exon_number 1 ; gene_id "HIF1A--SNAPC1^SNAPC1^ENSG00000023608.5" ; gene_name SNAPC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140343.3" ; havana_transcript "OTTHUMT00000276976.3" ; hgnc_id "HGNC:11134" ; level 2 ; orig_coord_info "chr14,61762461,61762588,+" ; protein_id "ENSP00000216294.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HIF1A--SNAPC1^ENST00000216294.5" ; transcript_name "SNAPC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HIF1A--SNAPC1 HAVANA gene 1265 19639 . + . FI_gene_label "HIF1A^ENSG00000100644.17" ; ID "HIF1A--SNAPC1^HIF1A^ENSG00000100644.17" ; ccdsid "CCDS9754.1" ; exon_id "ENSE00001874576.1" ; exon_number 1 ; gene_id "HIF1A--SNAPC1^HIF1A^ENSG00000100644.17" ; gene_name HIF1A ; gene_type protein_coding ; havana_gene "OTTHUMG00000140344.4" ; havana_transcript "OTTHUMT00000276978.1" ; hgnc_id "HGNC:4910" ; level 2 ; orig_coord_info "chr14,61695805,61695839,+" ; protein_id "ENSP00000323326.6" ; tag basic CCDS ; transcript_id "HIF1A--SNAPC1^ENST00000323441.10" ; transcript_name "HIF1A-201" ; transcript_support_level 1 ; transcript_type protein_coding
HIF1A--SNAPC1 HAVANA mRNA 1265 19639 . + . FI_gene_label "HIF1A^ENSG00000100644.17" ; ID "HIF1A--SNAPC1^ENST00000323441.10" ; Parent "HIF1A--SNAPC1^HIF1A^ENSG00000100644.17" ; ccdsid "CCDS9754.1" ; exon_id "ENSE00001874576.1" ; exon_number 1 ; gene_id "HIF1A--SNAPC1^HIF1A^ENSG00000100644.17" ; gene_name HIF1A ; gene_type protein_coding ; havana_gene "OTTHUMG00000140344.4" ; havana_transcript "OTTHUMT00000276978.1" ; hgnc_id "HGNC:4910" ; level 2 ; orig_coord_info "chr14,61695805,61695839,+" ; protein_id "ENSP00000323326.6" ; tag basic CCDS ; transcript_id "HIF1A--SNAPC1^ENST00000323441.10" ; transcript_name "HIF1A-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HMGB3P23--ACO1 HAVANA gene 4626 31352 . + . FI_gene_label "ACO1^ENSG00000122729.19" ; ID "HMGB3P23--ACO1^ACO1^ENSG00000122729.19" ; ccdsid "CCDS6525.1" ; exon_id "ENSE00003738356.1" ; exon_number 2 ; gene_id "HMGB3P23--ACO1^ACO1^ENSG00000122729.19" ; gene_name ACO1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019740.4" ; havana_transcript "OTTHUMT00000051998.4" ; hgnc_id "HGNC:117" ; level 2 ; orig_coord_info "chr9,32405507,32405603,+" ; protein_id "ENSP00000309477.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HMGB3P23--ACO1^ENST00000309951.8" ; transcript_name "ACO1-201" ; transcript_support_level 1 ; transcript_type protein_coding
HMGB3P23--ACO1 HAVANA mRNA 4626 31352 . + . FI_gene_label "ACO1^ENSG00000122729.19" ; ID "HMGB3P23--ACO1^ENST00000309951.8" ; Parent "HMGB3P23--ACO1^ACO1^ENSG00000122729.19" ; ccdsid "CCDS6525.1" ; exon_id "ENSE00003738356.1" ; exon_number 2 ; gene_id "HMGB3P23--ACO1^ACO1^ENSG00000122729.19" ; gene_name ACO1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019740.4" ; havana_transcript "OTTHUMT00000051998.4" ; hgnc_id "HGNC:117" ; level 2 ; orig_coord_info "chr9,32405507,32405603,+" ; protein_id "ENSP00000309477.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HMGB3P23--ACO1^ENST00000309951.8" ; transcript_name "ACO1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LHCGR--GTF2A1L HAVANA gene 1007 16088 . + . FI_gene_label "LHCGR^ENSG00000138039.15" ; ID "LHCGR--GTF2A1L^LHCGR^ENSG00000138039.15" ; ccdsid "CCDS1842.1" ; exon_id "ENSE00001894530.2" ; exon_number 1 ; gene_id "LHCGR--GTF2A1L^LHCGR^ENSG00000138039.15" ; gene_name LHCGR ; gene_type protein_coding ; havana_gene "OTTHUMG00000129257.11" ; havana_transcript "OTTHUMT00000251364.5" ; hgnc_id "HGNC:6585" ; level 2 ; orig_coord_info "chr2,48755511,48755671,-" ; protein_id "ENSP00000294954.6" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "LHCGR--GTF2A1L^ENST00000294954.12" ; transcript_name "LHCGR-201" ; transcript_support_level 1 ; transcript_type protein_coding
LHCGR--GTF2A1L HAVANA mRNA 1007 16088 . + . FI_gene_label "LHCGR^ENSG00000138039.15" ; ID "LHCGR--GTF2A1L^ENST00000294954.12" ; Parent "LHCGR--GTF2A1L^LHCGR^ENSG00000138039.15" ; ccdsid "CCDS1842.1" ; exon_id "ENSE00001894530.2" ; exon_number 1 ; gene_id "LHCGR--GTF2A1L^LHCGR^ENSG00000138039.15" ; gene_name LHCGR ; gene_type protein_coding ; havana_gene "OTTHUMG00000129257.11" ; havana_transcript "OTTHUMT00000251364.5" ; hgnc_id "HGNC:6585" ; level 2 ; orig_coord_info "chr2,48755511,48755671,-" ; protein_id "ENSP00000294954.6" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "LHCGR--GTF2A1L^ENST00000294954.12" ; transcript_name "LHCGR-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LHCGR--GTF2A1L HAVANA gene 19147 28225 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "LHCGR--GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "LHCGR--GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHCGR--GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
LHCGR--GTF2A1L HAVANA mRNA 19147 28225 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "LHCGR--GTF2A1L^ENST00000403751.8" ; Parent "LHCGR--GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "LHCGR--GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHCGR--GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LHCGR--STON1 HAVANA gene 1007 16088 . + . FI_gene_label "LHCGR^ENSG00000138039.15" ; ID "LHCGR--STON1^LHCGR^ENSG00000138039.15" ; ccdsid "CCDS1842.1" ; exon_id "ENSE00001894530.2" ; exon_number 1 ; gene_id "LHCGR--STON1^LHCGR^ENSG00000138039.15" ; gene_name LHCGR ; gene_type protein_coding ; havana_gene "OTTHUMG00000129257.11" ; havana_transcript "OTTHUMT00000251364.5" ; hgnc_id "HGNC:6585" ; level 2 ; orig_coord_info "chr2,48755511,48755671,-" ; protein_id "ENSP00000294954.6" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "LHCGR--STON1^ENST00000294954.12" ; transcript_name "LHCGR-201" ; transcript_support_level 1 ; transcript_type protein_coding
LHCGR--STON1 HAVANA mRNA 1007 16088 . + . FI_gene_label "LHCGR^ENSG00000138039.15" ; ID "LHCGR--STON1^ENST00000294954.12" ; Parent "LHCGR--STON1^LHCGR^ENSG00000138039.15" ; ccdsid "CCDS1842.1" ; exon_id "ENSE00001894530.2" ; exon_number 1 ; gene_id "LHCGR--STON1^LHCGR^ENSG00000138039.15" ; gene_name LHCGR ; gene_type protein_coding ; havana_gene "OTTHUMG00000129257.11" ; havana_transcript "OTTHUMT00000251364.5" ; hgnc_id "HGNC:6585" ; level 2 ; orig_coord_info "chr2,48755511,48755671,-" ; protein_id "ENSP00000294954.6" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "LHCGR--STON1^ENST00000294954.12" ; transcript_name "LHCGR-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LHCGR--STON1 HAVANA gene 19860 30089 . + . FI_gene_label "STON1^ENSG00000243244.7" ; ID "LHCGR--STON1^STON1^ENSG00000243244.7" ; ccdsid "CCDS1841.1" ; exon_id "ENSE00003530448.1" ; exon_number 2 ; gene_id "LHCGR--STON1^STON1^ENSG00000243244.7" ; gene_name STON1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129169.7" ; havana_transcript "OTTHUMT00000325006.1" ; hgnc_id "HGNC:17003" ; level 2 ; orig_coord_info "chr2,48580634,48582563,+" ; protein_id "ENSP00000385273.1" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHCGR--STON1^ENST00000404752.6" ; transcript_name "STON1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LHCGR--STON1 HAVANA mRNA 19860 30089 . + . FI_gene_label "STON1^ENSG00000243244.7" ; ID "LHCGR--STON1^ENST00000404752.6" ; Parent "LHCGR--STON1^STON1^ENSG00000243244.7" ; ccdsid "CCDS1841.1" ; exon_id "ENSE00003530448.1" ; exon_number 2 ; gene_id "LHCGR--STON1^STON1^ENSG00000243244.7" ; gene_name STON1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129169.7" ; havana_transcript "OTTHUMT00000325006.1" ; hgnc_id "HGNC:17003" ; level 2 ; orig_coord_info "chr2,48580634,48582563,+" ; protein_id "ENSP00000385273.1" ; tag alternative_5_UTR basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHCGR--STON1^ENST00000404752.6" ; transcript_name "STON1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LMNA--MEX3A HAVANA gene 11719 23624 . + . FI_gene_label "LMNA^ENSG00000160789.23" ; ID "LMNA--MEX3A^LMNA^ENSG00000160789.23" ; ccdsid "CCDS1129.1" ; exon_id "ENSE00001554780.1" ; exon_number 2 ; gene_id "LMNA--MEX3A^LMNA^ENSG00000160789.23" ; gene_name LMNA ; gene_type protein_coding ; havana_gene "OTTHUMG00000013961.6" ; hgnc_id "HGNC:6636" ; level 2 ; orig_coord_info "chr1,156114919,156115274,+" ; protein_id "ENSP00000355292.6" ; tag RNA_Seq_supported_only basic appris_principal_1 CCDS ; transcript_id "LMNA--MEX3A^ENST00000361308.9" ; transcript_name "LMNA-201" ; transcript_support_level 5 ; transcript_type protein_coding
LMNA--MEX3A HAVANA mRNA 11719 23624 . + . FI_gene_label "LMNA^ENSG00000160789.23" ; ID "LMNA--MEX3A^ENST00000361308.9" ; Parent "LMNA--MEX3A^LMNA^ENSG00000160789.23" ; ccdsid "CCDS1129.1" ; exon_id "ENSE00001554780.1" ; exon_number 2 ; gene_id "LMNA--MEX3A^LMNA^ENSG00000160789.23" ; gene_name LMNA ; gene_type protein_coding ; havana_gene "OTTHUMG00000013961.6" ; hgnc_id "HGNC:6636" ; level 2 ; orig_coord_info "chr1,156114919,156115274,+" ; protein_id "ENSP00000355292.6" ; tag RNA_Seq_supported_only basic appris_principal_1 CCDS ; transcript_id "LMNA--MEX3A^ENST00000361308.9" ; transcript_name "LMNA-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
LMNA--MEX3A HAVANA gene 27413 35003 . + . FI_gene_label "MEX3A^ENSG00000254726.3" ; ID "LMNA--MEX3A^MEX3A^ENSG00000254726.3" ; ccdsid "CCDS53377.1" ; exon_id "ENSE00002192814.2" ; exon_number 1 ; gene_id "LMNA--MEX3A^MEX3A^ENSG00000254726.3" ; gene_name MEX3A ; gene_type protein_coding ; havana_gene "OTTHUMG00000017465.4" ; havana_transcript "OTTHUMT00000046218.4" ; hgnc_id "HGNC:33482" ; level 2 ; orig_coord_info "chr1,156081545,156081998,-" ; protein_id "ENSP00000432845.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LMNA--MEX3A^ENST00000532414.3" ; transcript_name "MEX3A-202" ; transcript_support_level 1 ; transcript_type protein_coding
LMNA--MEX3A HAVANA mRNA 27413 35003 . + . FI_gene_label "MEX3A^ENSG00000254726.3" ; ID "LMNA--MEX3A^ENST00000532414.3" ; Parent "LMNA--MEX3A^MEX3A^ENSG00000254726.3" ; ccdsid "CCDS53377.1" ; exon_id "ENSE00002192814.2" ; exon_number 1 ; gene_id "LMNA--MEX3A^MEX3A^ENSG00000254726.3" ; gene_name MEX3A ; gene_type protein_coding ; havana_gene "OTTHUMG00000017465.4" ; havana_transcript "OTTHUMT00000046218.4" ; hgnc_id "HGNC:33482" ; level 2 ; orig_coord_info "chr1,156081545,156081998,-" ; protein_id "ENSP00000432845.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LMNA--MEX3A^ENST00000532414.3" ; transcript_name "MEX3A-202" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LRP1B--AC078882.1 HAVANA gene 1001 103254 . + . FI_gene_label "LRP1B^ENSG00000168702.18" ; ID "LRP1B--AC078882.1^LRP1B^ENSG00000168702.18" ; ccdsid "CCDS2182.1" ; exon_id "ENSE00001794248.2" ; exon_number 1 ; gene_id "LRP1B--AC078882.1^LRP1B^ENSG00000168702.18" ; gene_name LRP1B ; gene_type protein_coding ; havana_gene "OTTHUMG00000131799.6" ; havana_transcript "OTTHUMT00000254736.3" ; hgnc_id "HGNC:6693" ; level 2 ; orig_coord_info "chr2,142130648,142130729,-" ; protein_id "ENSP00000374135.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LRP1B--AC078882.1^ENST00000389484.8" ; transcript_name "LRP1B-201" ; transcript_support_level 1 ; transcript_type protein_coding
LRP1B--AC078882.1 HAVANA mRNA 1001 103254 . + . FI_gene_label "LRP1B^ENSG00000168702.18" ; ID "LRP1B--AC078882.1^ENST00000389484.8" ; Parent "LRP1B--AC078882.1^LRP1B^ENSG00000168702.18" ; ccdsid "CCDS2182.1" ; exon_id "ENSE00001794248.2" ; exon_number 1 ; gene_id "LRP1B--AC078882.1^LRP1B^ENSG00000168702.18" ; gene_name LRP1B ; gene_type protein_coding ; havana_gene "OTTHUMG00000131799.6" ; havana_transcript "OTTHUMT00000254736.3" ; hgnc_id "HGNC:6693" ; level 2 ; orig_coord_info "chr2,142130648,142130729,-" ; protein_id "ENSP00000374135.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LRP1B--AC078882.1^ENST00000389484.8" ; transcript_name "LRP1B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MTAP--AL157937.1 HAVANA gene 1022 14638 . + . FI_gene_label "MTAP^ENSG00000099810.21" ; ID "MTAP--AL157937.1^MTAP^ENSG00000099810.21" ; exon_id "ENSE00001547793.2" ; exon_number 1 ; gene_id "MTAP--AL157937.1^MTAP^ENSG00000099810.21" ; gene_name MTAP ; gene_type protein_coding ; havana_gene "OTTHUMG00000019690.10" ; havana_transcript "OTTHUMT00000334287.1" ; hgnc_id "HGNC:7413" ; level 2 ; orig_coord_info "chr9,21802749,21802781,+" ; protein_id "ENSP00000393507.1" ; tag not_organism_supported ; transcript_id "MTAP--AL157937.1^ENST00000419385.5" ; transcript_name "MTAP-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
MTAP--AL157937.1 HAVANA mRNA 1022 14638 . + . FI_gene_label "MTAP^ENSG00000099810.21" ; ID "MTAP--AL157937.1^ENST00000419385.5" ; Parent "MTAP--AL157937.1^MTAP^ENSG00000099810.21" ; exon_id "ENSE00001547793.2" ; exon_number 1 ; gene_id "MTAP--AL157937.1^MTAP^ENSG00000099810.21" ; gene_name MTAP ; gene_type protein_coding ; havana_gene "OTTHUMG00000019690.10" ; havana_transcript "OTTHUMT00000334287.1" ; hgnc_id "HGNC:7413" ; level 2 ; orig_coord_info "chr9,21802749,21802781,+" ; protein_id "ENSP00000393507.1" ; tag not_organism_supported ; transcript_id "MTAP--AL157937.1^ENST00000419385.5" ; transcript_name "MTAP-201" ; transcript_support_level 5 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
PCDHGB2--PCDHGA10 HAVANA gene 6778 16231 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; gene_name PCDHGA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163688.2" ; havana_transcript "OTTHUMT00000374747.1" ; hgnc_id "HGNC:8697" ; level 2 ; orig_coord_info "chr5,141413176,141415611,+" ; protein_id "ENSP00000381611.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA10 HAVANA mRNA 6778 16231 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGB2--PCDHGA10^ENST00000398610.2" ; Parent "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; gene_name PCDHGA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163688.2" ; havana_transcript "OTTHUMT00000374747.1" ; hgnc_id "HGNC:8697" ; level 2 ; orig_coord_info "chr5,141413176,141415611,+" ; protein_id "ENSP00000381611.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA10 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA10 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA10^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA11 HAVANA gene 6593 15398 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; gene_name PCDHGA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164055.3" ; havana_transcript "OTTHUMT00000376974.3" ; hgnc_id "HGNC:8698" ; level 2 ; orig_coord_info "chr5,141421228,141423660,+" ; protein_id "ENSP00000381589.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA11 HAVANA mRNA 6593 15398 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGB2--PCDHGA11^ENST00000398587.7" ; Parent "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; gene_name PCDHGA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164055.3" ; havana_transcript "OTTHUMT00000376974.3" ; hgnc_id "HGNC:8698" ; level 2 ; orig_coord_info "chr5,141421228,141423660,+" ; protein_id "ENSP00000381589.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA11 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA11 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA11^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA12 HAVANA gene 6589 14481 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; gene_name PCDHGA12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129611.6" ; havana_transcript "OTTHUMT00000251806.3" ; hgnc_id "HGNC:8699" ; level 2 ; orig_coord_info "chr5,141430760,141433183,+" ; protein_id "ENSP00000252085.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA12 HAVANA mRNA 6589 14481 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGB2--PCDHGA12^ENST00000252085.4" ; Parent "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; gene_name PCDHGA12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129611.6" ; havana_transcript "OTTHUMT00000251806.3" ; hgnc_id "HGNC:8699" ; level 2 ; orig_coord_info "chr5,141430760,141433183,+" ; protein_id "ENSP00000252085.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA12 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA12 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA12^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA8 HAVANA gene 9065 18245 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; gene_name PCDHGA8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164053.2" ; havana_transcript "OTTHUMT00000376972.1" ; hgnc_id "HGNC:8706" ; level 2 ; orig_coord_info "chr5,141392814,141395237,+" ; protein_id "ENSP00000381605.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA8 HAVANA mRNA 9065 18245 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGB2--PCDHGA8^ENST00000398604.3" ; Parent "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; gene_name PCDHGA8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164053.2" ; havana_transcript "OTTHUMT00000376972.1" ; hgnc_id "HGNC:8706" ; level 2 ; orig_coord_info "chr5,141392814,141395237,+" ; protein_id "ENSP00000381605.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA8 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA8 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA8^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA9 HAVANA gene 6610 14337 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; gene_name PCDHGA9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177473.2" ; havana_transcript "OTTHUMT00000437105.1" ; hgnc_id "HGNC:8707" ; level 2 ; orig_coord_info "chr5,141402953,141405376,+" ; protein_id "ENSP00000460274.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA9 HAVANA mRNA 6610 14337 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGB2--PCDHGA9^ENST00000573521.1" ; Parent "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; gene_name PCDHGA9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177473.2" ; havana_transcript "OTTHUMT00000437105.1" ; hgnc_id "HGNC:8707" ; level 2 ; orig_coord_info "chr5,141402953,141405376,+" ; protein_id "ENSP00000460274.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA9 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA9 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA9^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB6 HAVANA gene 6771 16370 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; gene_name PCDHGB6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163687.2" ; havana_transcript "OTTHUMT00000374746.1" ; hgnc_id "HGNC:8713" ; level 2 ; orig_coord_info "chr5,141408203,141410620,+" ; protein_id "ENSP00000428603.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGB6 HAVANA mRNA 6771 16370 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGB2--PCDHGB6^ENST00000520790.1" ; Parent "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; gene_name PCDHGB6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163687.2" ; havana_transcript "OTTHUMT00000374746.1" ; hgnc_id "HGNC:8713" ; level 2 ; orig_coord_info "chr5,141408203,141410620,+" ; protein_id "ENSP00000428603.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB6 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGB6 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB6^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB7 HAVANA gene 6621 14550 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; gene_name PCDHGB7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164054.2" ; havana_transcript "OTTHUMT00000376973.2" ; hgnc_id "HGNC:8714" ; level 2 ; orig_coord_info "chr5,141417860,141420274,+" ; protein_id "ENSP00000381594.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGB7 HAVANA mRNA 6621 14550 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGB2--PCDHGB7^ENST00000398594.4" ; Parent "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; gene_name PCDHGB7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164054.2" ; havana_transcript "OTTHUMT00000376973.2" ; hgnc_id "HGNC:8714" ; level 2 ; orig_coord_info "chr5,141417860,141420274,+" ; protein_id "ENSP00000381594.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB7 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGB7 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB7^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC3 HAVANA gene 6608 16794 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; gene_name PCDHGC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129613.8" ; havana_transcript "OTTHUMT00000251808.5" ; hgnc_id "HGNC:8716" ; level 2 ; orig_coord_info "chr5,141476117,141478546,+" ; protein_id "ENSP00000312070.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC3 HAVANA mRNA 6608 16794 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGB2--PCDHGC3^ENST00000308177.5" ; Parent "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; gene_name PCDHGC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129613.8" ; havana_transcript "OTTHUMT00000251808.5" ; hgnc_id "HGNC:8716" ; level 2 ; orig_coord_info "chr5,141476117,141478546,+" ; protein_id "ENSP00000312070.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC3 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC3 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC3^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC4 HAVANA gene 6766 14562 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; gene_name PCDHGC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129625.4" ; havana_transcript "OTTHUMT00000251820.2" ; hgnc_id "HGNC:8717" ; level 2 ; orig_coord_info "chr5,141485174,141487615,+" ; protein_id "ENSP00000306918.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC4 HAVANA mRNA 6766 14562 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGB2--PCDHGC4^ENST00000306593.1" ; Parent "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; gene_name PCDHGC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129625.4" ; havana_transcript "OTTHUMT00000251820.2" ; hgnc_id "HGNC:8717" ; level 2 ; orig_coord_info "chr5,141485174,141487615,+" ; protein_id "ENSP00000306918.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC4 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC4 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC4^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC5 HAVANA gene 6589 14614 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; gene_name PCDHGC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129624.2" ; havana_transcript "OTTHUMT00000251819.2" ; hgnc_id "HGNC:8718" ; level 2 ; orig_coord_info "chr5,141489241,141491700,+" ; protein_id "ENSP00000252087.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC5 HAVANA mRNA 6589 14614 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGB2--PCDHGC5^ENST00000252087.3" ; Parent "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; gene_name PCDHGC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129624.2" ; havana_transcript "OTTHUMT00000251819.2" ; hgnc_id "HGNC:8718" ; level 2 ; orig_coord_info "chr5,141489241,141491700,+" ; protein_id "ENSP00000252087.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC5 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC5 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC5^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
RNA5SP281--ACO1 HAVANA gene 4176 30902 . + . FI_gene_label "ACO1^ENSG00000122729.19" ; ID "RNA5SP281--ACO1^ACO1^ENSG00000122729.19" ; ccdsid "CCDS6525.1" ; exon_id "ENSE00003738356.1" ; exon_number 2 ; gene_id "RNA5SP281--ACO1^ACO1^ENSG00000122729.19" ; gene_name ACO1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019740.4" ; havana_transcript "OTTHUMT00000051998.4" ; hgnc_id "HGNC:117" ; level 2 ; orig_coord_info "chr9,32405507,32405603,+" ; protein_id "ENSP00000309477.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RNA5SP281--ACO1^ENST00000309951.8" ; transcript_name "ACO1-201" ; transcript_support_level 1 ; transcript_type protein_coding
RNA5SP281--ACO1 HAVANA mRNA 4176 30902 . + . FI_gene_label "ACO1^ENSG00000122729.19" ; ID "RNA5SP281--ACO1^ENST00000309951.8" ; Parent "RNA5SP281--ACO1^ACO1^ENSG00000122729.19" ; ccdsid "CCDS6525.1" ; exon_id "ENSE00003738356.1" ; exon_number 2 ; gene_id "RNA5SP281--ACO1^ACO1^ENSG00000122729.19" ; gene_name ACO1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019740.4" ; havana_transcript "OTTHUMT00000051998.4" ; hgnc_id "HGNC:117" ; level 2 ; orig_coord_info "chr9,32405507,32405603,+" ; protein_id "ENSP00000309477.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RNA5SP281--ACO1^ENST00000309951.8" ; transcript_name "ACO1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TAS2R14--PRH2 HAVANA gene 10349 12277 . + . FI_gene_label "PRH2^ENSG00000134551.13" ; ID "TAS2R14--PRH2^PRH2^ENSG00000134551.13" ; ccdsid "CCDS8636.1" ; exon_id "ENSE00001703064.1" ; exon_number 1 ; gene_id "TAS2R14--PRH2^PRH2^ENSG00000134551.13" ; gene_name PRH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168556.2" ; havana_transcript "OTTHUMT00000400230.1" ; hgnc_id "HGNC:9367" ; level 2 ; orig_coord_info "chr12,10929274,10929337,+" ; protein_id "ENSP00000371271.3" ; tag basic appris_principal_1 CCDS ; transcript_id "TAS2R14--PRH2^ENST00000381847.7" ; transcript_name "PRH2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TAS2R14--PRH2 HAVANA mRNA 10349 12277 . + . FI_gene_label "PRH2^ENSG00000134551.13" ; ID "TAS2R14--PRH2^ENST00000381847.7" ; Parent "TAS2R14--PRH2^PRH2^ENSG00000134551.13" ; ccdsid "CCDS8636.1" ; exon_id "ENSE00001703064.1" ; exon_number 1 ; gene_id "TAS2R14--PRH2^PRH2^ENSG00000134551.13" ; gene_name PRH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168556.2" ; havana_transcript "OTTHUMT00000400230.1" ; hgnc_id "HGNC:9367" ; level 2 ; orig_coord_info "chr12,10929274,10929337,+" ; protein_id "ENSP00000371271.3" ; tag basic appris_principal_1 CCDS ; transcript_id "TAS2R14--PRH2^ENST00000381847.7" ; transcript_name "PRH2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TAS2R14--PRH2 HAVANA gene 5493 7346 . + . FI_gene_label "TAS2R14^ENSG00000212127.6" ; ID "TAS2R14--PRH2^TAS2R14^ENSG00000212127.6" ; ccdsid "CCDS8637.1" ; exon_id "ENSE00002238942.2" ; exon_number 1 ; gene_id "TAS2R14--PRH2^TAS2R14^ENSG00000212127.6" ; gene_name TAS2R14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000162720.5" ; havana_transcript "OTTHUMT00000370194.5" ; hgnc_id "HGNC:14920" ; level 2 ; orig_coord_info "chr12,10938257,10939207,-" ; protein_id "ENSP00000441949.1" ; tag upstream_ATG basic appris_principal_1 CCDS ; transcript_id "TAS2R14--PRH2^ENST00000537503.2" ; transcript_name "TAS2R14-202" ; transcript_support_level NA ; transcript_type protein_coding
TAS2R14--PRH2 HAVANA mRNA 5493 7346 . + . FI_gene_label "TAS2R14^ENSG00000212127.6" ; ID "TAS2R14--PRH2^ENST00000537503.2" ; Parent "TAS2R14--PRH2^TAS2R14^ENSG00000212127.6" ; ccdsid "CCDS8637.1" ; exon_id "ENSE00002238942.2" ; exon_number 1 ; gene_id "TAS2R14--PRH2^TAS2R14^ENSG00000212127.6" ; gene_name TAS2R14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000162720.5" ; havana_transcript "OTTHUMT00000370194.5" ; hgnc_id "HGNC:14920" ; level 2 ; orig_coord_info "chr12,10938257,10939207,-" ; protein_id "ENSP00000441949.1" ; tag upstream_ATG basic appris_principal_1 CCDS ; transcript_id "TAS2R14--PRH2^ENST00000537503.2" ; transcript_name "TAS2R14-202" ; transcript_support_level NA ; 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:
TMED7--TICAM2 HAVANA gene 11056 15867 . + . FI_gene_label "TICAM2^ENSG00000243414.6" ; ID "TMED7--TICAM2^TICAM2^ENSG00000243414.6" ; ccdsid "CCDS4119.1" ; exon_id "ENSE00001741902.2" ; exon_number 2 ; gene_id "TMED7--TICAM2^TICAM2^ENSG00000243414.6" ; gene_name TICAM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000162905.2" ; havana_transcript "OTTHUMT00000338755.1" ; hgnc_id "HGNC:21354" ; level 2 ; orig_coord_info "chr5,115580552,115581256,-" ; protein_id "ENSP00000415139.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMED7--TICAM2^ENST00000427199.3" ; transcript_name "TICAM2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMED7--TICAM2 HAVANA mRNA 11056 15867 . + . FI_gene_label "TICAM2^ENSG00000243414.6" ; ID "TMED7--TICAM2^ENST00000427199.3" ; Parent "TMED7--TICAM2^TICAM2^ENSG00000243414.6" ; ccdsid "CCDS4119.1" ; exon_id "ENSE00001741902.2" ; exon_number 2 ; gene_id "TMED7--TICAM2^TICAM2^ENSG00000243414.6" ; gene_name TICAM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000162905.2" ; havana_transcript "OTTHUMT00000338755.1" ; hgnc_id "HGNC:21354" ; level 2 ; orig_coord_info "chr5,115580552,115581256,-" ; protein_id "ENSP00000415139.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMED7--TICAM2^ENST00000427199.3" ; transcript_name "TICAM2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TMED7--TICAM2 HAVANA gene 2138 8055 . + . FI_gene_label "TMED7^ENSG00000134970.14" ; ID "TMED7--TICAM2^TMED7^ENSG00000134970.14" ; ccdsid "CCDS4120.1" ; exon_id "ENSE00002252373.2" ; exon_number 1 ; gene_id "TMED7--TICAM2^TMED7^ENSG00000134970.14" ; gene_name TMED7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132013.8" ; havana_transcript "OTTHUMT00000254990.5" ; hgnc_id "HGNC:24253" ; level 2 ; orig_coord_info "chr5,115625601,115625792,-" ; protein_id "ENSP00000405926.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMED7--TICAM2^ENST00000456936.4" ; transcript_name "TMED7-201" ; transcript_support_level 1 ; transcript_type protein_coding
TMED7--TICAM2 HAVANA mRNA 2138 8055 . + . FI_gene_label "TMED7^ENSG00000134970.14" ; ID "TMED7--TICAM2^ENST00000456936.4" ; Parent "TMED7--TICAM2^TMED7^ENSG00000134970.14" ; ccdsid "CCDS4120.1" ; exon_id "ENSE00002252373.2" ; exon_number 1 ; gene_id "TMED7--TICAM2^TMED7^ENSG00000134970.14" ; gene_name TMED7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000132013.8" ; havana_transcript "OTTHUMT00000254990.5" ; hgnc_id "HGNC:24253" ; level 2 ; orig_coord_info "chr5,115625601,115625792,-" ; protein_id "ENSP00000405926.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TMED7--TICAM2^ENST00000456936.4" ; transcript_name "TMED7-201" ; 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:
ZKSCAN7--KIF15 HAVANA gene 1016 8839 . + . FI_gene_label "ZKSCAN7^ENSG00000196345.13" ; ID "ZKSCAN7--KIF15^ZKSCAN7^ENSG00000196345.13" ; ccdsid "CCDS2715.1" ; exon_id "ENSE00001236042.4" ; exon_number 2 ; gene_id "ZKSCAN7--KIF15^ZKSCAN7^ENSG00000196345.13" ; gene_name ZKSCAN7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000186378.2" ; havana_transcript "OTTHUMT00000256752.4" ; hgnc_id "HGNC:12955" ; level 2 ; orig_coord_info "chr3,44557048,44557470,+" ; protein_id "ENSP00000273320.3" ; tag basic appris_principal_1 CCDS ; transcript_id "ZKSCAN7--KIF15^ENST00000273320.7" ; transcript_name "ZKSCAN7-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZKSCAN7--KIF15 HAVANA mRNA 1016 8839 . + . FI_gene_label "ZKSCAN7^ENSG00000196345.13" ; ID "ZKSCAN7--KIF15^ENST00000273320.7" ; Parent "ZKSCAN7--KIF15^ZKSCAN7^ENSG00000196345.13" ; ccdsid "CCDS2715.1" ; exon_id "ENSE00001236042.4" ; exon_number 2 ; gene_id "ZKSCAN7--KIF15^ZKSCAN7^ENSG00000196345.13" ; gene_name ZKSCAN7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000186378.2" ; havana_transcript "OTTHUMT00000256752.4" ; hgnc_id "HGNC:12955" ; level 2 ; orig_coord_info "chr3,44557048,44557470,+" ; protein_id "ENSP00000273320.3" ; tag basic appris_principal_1 CCDS ; transcript_id "ZKSCAN7--KIF15^ENST00000273320.7" ; transcript_name "ZKSCAN7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZKSCAN7--KIF15 HAVANA gene 14585 48408 . + . FI_gene_label "KIF15^ENSG00000163808.17" ; ID "ZKSCAN7--KIF15^KIF15^ENSG00000163808.17" ; ccdsid "CCDS33744.1" ; exon_id "ENSE00001770852.2" ; exon_number 1 ; gene_id "ZKSCAN7--KIF15^KIF15^ENSG00000163808.17" ; gene_name KIF15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000156307.8" ; havana_transcript "OTTHUMT00000343831.3" ; hgnc_id "HGNC:17273" ; level 2 ; orig_coord_info "chr3,44761866,44761884,+" ; protein_id "ENSP00000324020.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZKSCAN7--KIF15^ENST00000326047.9" ; transcript_name "KIF15-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZKSCAN7--KIF15 HAVANA mRNA 14585 48408 . + . FI_gene_label "KIF15^ENSG00000163808.17" ; ID "ZKSCAN7--KIF15^ENST00000326047.9" ; Parent "ZKSCAN7--KIF15^KIF15^ENSG00000163808.17" ; ccdsid "CCDS33744.1" ; exon_id "ENSE00001770852.2" ; exon_number 1 ; gene_id "ZKSCAN7--KIF15^KIF15^ENSG00000163808.17" ; gene_name KIF15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000156307.8" ; havana_transcript "OTTHUMT00000343831.3" ; hgnc_id "HGNC:17273" ; level 2 ; orig_coord_info "chr3,44761866,44761884,+" ; protein_id "ENSP00000324020.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZKSCAN7--KIF15^ENST00000326047.9" ; transcript_name "KIF15-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC008969.1--SMARCA4 HAVANA gene 1812 6146 . + . FI_gene_label "AC008969.1^ENSG00000176593.8" ; ID "AC008969.1--SMARCA4^AC008969.1^ENSG00000176593.8" ; exon_id "ENSE00002351715.2" ; exon_number 1 ; gene_id "AC008969.1--SMARCA4^AC008969.1^ENSG00000176593.8" ; gene_name "AC008969.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000169805.2" ; havana_transcript "OTTHUMT00000405973.2" ; level 2 ; orig_coord_info "chr19,58002872,58003046,+" ; tag basic TAGENE ; transcript_id "AC008969.1--SMARCA4^ENST00000313957.8" ; transcript_name "AC008969.1-203" ; transcript_support_level 2 ; transcript_type lncRNA
AC008969.1--SMARCA4 HAVANA RNA 1812 6146 . + . FI_gene_label "AC008969.1^ENSG00000176593.8" ; ID "AC008969.1--SMARCA4^ENST00000313957.8" ; Parent "AC008969.1--SMARCA4^AC008969.1^ENSG00000176593.8" ; exon_id "ENSE00002351715.2" ; exon_number 1 ; gene_id "AC008969.1--SMARCA4^AC008969.1^ENSG00000176593.8" ; gene_name "AC008969.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000169805.2" ; havana_transcript "OTTHUMT00000405973.2" ; level 2 ; orig_coord_info "chr19,58002872,58003046,+" ; tag basic TAGENE ; transcript_id "AC008969.1--SMARCA4^ENST00000313957.8" ; transcript_name "AC008969.1-203" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
BNC2--AL358117.1 HAVANA gene 36103 36839 . + . FI_gene_label "AL358117.1^ENSG00000285169.2" ; ID "BNC2--AL358117.1^AL358117.1^ENSG00000285169.2" ; exon_id "ENSE00003820336.1" ; exon_number 1 ; gene_id "BNC2--AL358117.1^AL358117.1^ENSG00000285169.2" ; gene_name "AL358117.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000192359.2" ; havana_transcript "OTTHUMT00000493727.1" ; level 2 ; orig_coord_info "chr9,16983386,16983459,-" ; transcript_id "BNC2--AL358117.1^ENST00000643763.1" ; transcript_name "AL358117.1-201" ; transcript_type lncRNA
BNC2--AL358117.1 HAVANA RNA 36103 36839 . + . FI_gene_label "AL358117.1^ENSG00000285169.2" ; ID "BNC2--AL358117.1^ENST00000643763.1" ; Parent "BNC2--AL358117.1^AL358117.1^ENSG00000285169.2" ; exon_id "ENSE00003820336.1" ; exon_number 1 ; gene_id "BNC2--AL358117.1^AL358117.1^ENSG00000285169.2" ; gene_name "AL358117.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000192359.2" ; havana_transcript "OTTHUMT00000493727.1" ; level 2 ; orig_coord_info "chr9,16983386,16983459,-" ; transcript_id "BNC2--AL358117.1^ENST00000643763.1" ; transcript_name "AL358117.1-201" ; transcript_type lncRNA
L1 and L2 created:
GTF2A1L--STON1-GTF2A1L HAVANA gene 14395 15764 . + . FI_gene_label "STON1-GTF2A1L^ENSG00000068781.21" ; ID "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; exon_id "ENSE00001916353.1" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; gene_name "STON1-GTF2A1L" ; gene_type protein_coding ; havana_gene "OTTHUMG00000152037.6" ; havana_transcript "OTTHUMT00000325207.1" ; hgnc_id "HGNC:30651" ; level 1 ; orig_coord_info "chr2,48768954,48769121,+" ; tag exp_conf ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000463040.5" ; transcript_name "STON1-GTF2A1L-205" ; transcript_support_level 5 ; transcript_type processed_transcript
GTF2A1L--STON1-GTF2A1L HAVANA RNA 14395 15764 . + . FI_gene_label "STON1-GTF2A1L^ENSG00000068781.21" ; ID "GTF2A1L--STON1-GTF2A1L^ENST00000463040.5" ; Parent "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; exon_id "ENSE00001916353.1" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; gene_name "STON1-GTF2A1L" ; gene_type protein_coding ; havana_gene "OTTHUMG00000152037.6" ; havana_transcript "OTTHUMT00000325207.1" ; hgnc_id "HGNC:30651" ; level 1 ; orig_coord_info "chr2,48768954,48769121,+" ; tag exp_conf ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000463040.5" ; transcript_name "STON1-GTF2A1L-205" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
GUSBP13--NAIP HAVANA gene 1001 5633 . + . FI_gene_label "GUSBP13^ENSG00000198237.8" ; ID "GUSBP13--NAIP^GUSBP13^ENSG00000198237.8" ; exon_id "ENSE00002091111.1" ; exon_number 1 ; gene_id "GUSBP13--NAIP^GUSBP13^ENSG00000198237.8" ; gene_name GUSBP13 ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000164581.1" ; havana_transcript "OTTHUMT00000379319.1" ; hgnc_id "HGNC:54495" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr5,69875271,69875319,+" ; tag basic ; transcript_id "GUSBP13--NAIP^ENST00000506490.2" ; transcript_name "GUSBP13-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
GUSBP13--NAIP HAVANA RNA 1001 5633 . + . FI_gene_label "GUSBP13^ENSG00000198237.8" ; ID "GUSBP13--NAIP^ENST00000506490.2" ; Parent "GUSBP13--NAIP^GUSBP13^ENSG00000198237.8" ; exon_id "ENSE00002091111.1" ; exon_number 1 ; gene_id "GUSBP13--NAIP^GUSBP13^ENSG00000198237.8" ; gene_name GUSBP13 ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000164581.1" ; havana_transcript "OTTHUMT00000379319.1" ; hgnc_id "HGNC:54495" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr5,69875271,69875319,+" ; tag basic ; transcript_id "GUSBP13--NAIP^ENST00000506490.2" ; transcript_name "GUSBP13-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
L1 and L2 created:
HMGB3P23--ACO1 HAVANA gene 1001 1585 . + . FI_gene_label "HMGB3P23^ENSG00000235148.2" ; ID "HMGB3P23--ACO1^HMGB3P23^ENSG00000235148.2" ; exon_id "ENSE00001792714.2" ; exon_number 1 ; gene_id "HMGB3P23--ACO1^HMGB3P23^ENSG00000235148.2" ; gene_name HMGB3P23 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000019738.2" ; havana_transcript "OTTHUMT00000051996.2" ; hgnc_id "HGNC:39315" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr9,31644576,31645160,-" ; tag pseudo_consens basic ; transcript_id "HMGB3P23--ACO1^ENST00000414981.2" ; transcript_name "HMGB3P23-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
HMGB3P23--ACO1 HAVANA RNA 1001 1585 . + . FI_gene_label "HMGB3P23^ENSG00000235148.2" ; ID "HMGB3P23--ACO1^ENST00000414981.2" ; Parent "HMGB3P23--ACO1^HMGB3P23^ENSG00000235148.2" ; exon_id "ENSE00001792714.2" ; exon_number 1 ; gene_id "HMGB3P23--ACO1^HMGB3P23^ENSG00000235148.2" ; gene_name HMGB3P23 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000019738.2" ; havana_transcript "OTTHUMT00000051996.2" ; hgnc_id "HGNC:39315" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr9,31644576,31645160,-" ; tag pseudo_consens basic ; transcript_id "HMGB3P23--ACO1^ENST00000414981.2" ; transcript_name "HMGB3P23-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
LRP1B--AC078882.1 HAVANA gene 106255 107670 . + . FI_gene_label "AC078882.1^ENSG00000244125.1" ; ID "LRP1B--AC078882.1^AC078882.1^ENSG00000244125.1" ; exon_id "ENSE00001703646.1" ; exon_number 1 ; gene_id "LRP1B--AC078882.1^AC078882.1^ENSG00000244125.1" ; gene_name "AC078882.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000153687.1" ; havana_transcript "OTTHUMT00000332126.1" ; level 2 ; orig_coord_info "chr2,142137764,142137830,-" ; tag basic ; transcript_id "LRP1B--AC078882.1^ENST00000436132.1" ; transcript_name "AC078882.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
LRP1B--AC078882.1 HAVANA RNA 106255 107670 . + . FI_gene_label "AC078882.1^ENSG00000244125.1" ; ID "LRP1B--AC078882.1^ENST00000436132.1" ; Parent "LRP1B--AC078882.1^AC078882.1^ENSG00000244125.1" ; exon_id "ENSE00001703646.1" ; exon_number 1 ; gene_id "LRP1B--AC078882.1^AC078882.1^ENSG00000244125.1" ; gene_name "AC078882.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000153687.1" ; havana_transcript "OTTHUMT00000332126.1" ; level 2 ; orig_coord_info "chr2,142137764,142137830,-" ; tag basic ; transcript_id "LRP1B--AC078882.1^ENST00000436132.1" ; transcript_name "AC078882.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
MTAP--AL157937.1 HAVANA gene 29696 32160 . + . FI_gene_label "AL157937.1^ENSG00000236921.1" ; ID "MTAP--AL157937.1^AL157937.1^ENSG00000236921.1" ; exon_id "ENSE00001745122.1" ; exon_number 1 ; gene_id "MTAP--AL157937.1^AL157937.1^ENSG00000236921.1" ; gene_name "AL157937.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019692.1" ; havana_transcript "OTTHUMT00000051934.1" ; level 2 ; orig_coord_info "chr9,22214465,22214672,-" ; tag basic ; transcript_id "MTAP--AL157937.1^ENST00000435092.1" ; transcript_name "AL157937.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
MTAP--AL157937.1 HAVANA RNA 29696 32160 . + . FI_gene_label "AL157937.1^ENSG00000236921.1" ; ID "MTAP--AL157937.1^ENST00000435092.1" ; Parent "MTAP--AL157937.1^AL157937.1^ENSG00000236921.1" ; exon_id "ENSE00001745122.1" ; exon_number 1 ; gene_id "MTAP--AL157937.1^AL157937.1^ENSG00000236921.1" ; gene_name "AL157937.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019692.1" ; havana_transcript "OTTHUMT00000051934.1" ; level 2 ; orig_coord_info "chr9,22214465,22214672,-" ; tag basic ; transcript_id "MTAP--AL157937.1^ENST00000435092.1" ; transcript_name "AL157937.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
RNA5SP281--ACO1 ENSEMBL gene 1001 1135 . + . FI_gene_label "RNA5SP281^ENSG00000252313.1" ; ID "RNA5SP281--ACO1^RNA5SP281^ENSG00000252313.1" ; exon_id "ENSE00002088781.1" ; exon_number 1 ; gene_id "RNA5SP281--ACO1^RNA5SP281^ENSG00000252313.1" ; gene_name RNA5SP281 ; gene_type rRNA_pseudogene ; hgnc_id "HGNC:43181" ; level 3 ; orig_coord_info "chr9,32293558,32293692,+" ; tag basic ; transcript_id "RNA5SP281--ACO1^ENST00000516504.1" ; transcript_name "RNA5SP281-201" ; transcript_support_level NA ; transcript_type rRNA_pseudogene
RNA5SP281--ACO1 ENSEMBL RNA 1001 1135 . + . FI_gene_label "RNA5SP281^ENSG00000252313.1" ; ID "RNA5SP281--ACO1^ENST00000516504.1" ; Parent "RNA5SP281--ACO1^RNA5SP281^ENSG00000252313.1" ; exon_id "ENSE00002088781.1" ; exon_number 1 ; gene_id "RNA5SP281--ACO1^RNA5SP281^ENSG00000252313.1" ; gene_name RNA5SP281 ; gene_type rRNA_pseudogene ; hgnc_id "HGNC:43181" ; level 3 ; orig_coord_info "chr9,32293558,32293692,+" ; tag basic ; transcript_id "RNA5SP281--ACO1^ENST00000516504.1" ; transcript_name "RNA5SP281-201" ; transcript_support_level NA ; transcript_type rRNA_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
374 cases fixed where L3 features have parent feature(s) missing
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--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
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--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
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------------------------- Check7: all level3 locations -------------------------
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------------------------------ Check8: check cds -------------------------------
No problem found
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----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
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----------------------------- Check10: check utrs ------------------------------
782 UTRs created that were missing
No UTRs locations modified
No supernumerary UTRs removed
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------------------------ Check11: all level2 locations -------------------------
No problem found
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------------------------ Check12: all level1 locations -------------------------
We fixed 39 wrong level1 location cases
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---------------------- Check13: remove identical isoforms ----------------------
None found
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------ End checks (done in 1 second) ------
GFF3 file parsed