Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/34/fff6e1135308923bf29a45e1ed8321/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/34/fff6e1135308923bf29a45e1ed8321/.command.run Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/3535abd337fe3496d6614c77b752fc/fi_workdir/KG1_FFPE_01_RNA_0003_B23LG7FLT4_1.gtf ==> 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: 4498 => Number of comment lines: 0 => Fasta included: No => Number of features lines: 4498 => 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:4498 => 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: AMN1--WIF1 HAVANA gene 1101 12834 . + . FI_gene_label "AMN1^ENSG00000151743.11" ; ID "AMN1--WIF1^AMN1^ENSG00000151743.11" ; ccdsid "CCDS44858.1" ; exon_id "ENSE00001323312.4" ; exon_number 1 ; gene_id "AMN1--WIF1^AMN1^ENSG00000151743.11" ; gene_name AMN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169192.4" ; havana_transcript "OTTHUMT00000402807.3" ; hgnc_id "HGNC:27281" ; level 2 ; orig_coord_info "chr12,31728971,31729008,-" ; protein_id "ENSP00000281471.6" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "AMN1--WIF1^ENST00000281471.11" ; transcript_name "AMN1-201" ; transcript_support_level 1 ; transcript_type protein_coding AMN1--WIF1 HAVANA mRNA 1101 12834 . + . FI_gene_label "AMN1^ENSG00000151743.11" ; ID "AMN1--WIF1^ENST00000281471.11" ; Parent "AMN1--WIF1^AMN1^ENSG00000151743.11" ; ccdsid "CCDS44858.1" ; exon_id "ENSE00001323312.4" ; exon_number 1 ; gene_id "AMN1--WIF1^AMN1^ENSG00000151743.11" ; gene_name AMN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169192.4" ; havana_transcript "OTTHUMT00000402807.3" ; hgnc_id "HGNC:27281" ; level 2 ; orig_coord_info "chr12,31728971,31729008,-" ; protein_id "ENSP00000281471.6" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "AMN1--WIF1^ENST00000281471.11" ; transcript_name "AMN1-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: AMN1--WIF1 HAVANA gene 15835 26046 . + . FI_gene_label "WIF1^ENSG00000156076.10" ; ID "AMN1--WIF1^WIF1^ENSG00000156076.10" ; ccdsid "CCDS8971.1" ; exon_id "ENSE00001313678.5" ; exon_number 1 ; gene_id "AMN1--WIF1^WIF1^ENSG00000156076.10" ; gene_name WIF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168832.5" ; havana_transcript "OTTHUMT00000401258.3" ; hgnc_id "HGNC:18081" ; level 2 ; orig_coord_info "chr12,65121044,65121191,-" ; protein_id "ENSP00000286574.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AMN1--WIF1^ENST00000286574.9" ; transcript_name "WIF1-201" ; transcript_support_level 1 ; transcript_type protein_coding AMN1--WIF1 HAVANA mRNA 15835 26046 . + . FI_gene_label "WIF1^ENSG00000156076.10" ; ID "AMN1--WIF1^ENST00000286574.9" ; Parent "AMN1--WIF1^WIF1^ENSG00000156076.10" ; ccdsid "CCDS8971.1" ; exon_id "ENSE00001313678.5" ; exon_number 1 ; gene_id "AMN1--WIF1^WIF1^ENSG00000156076.10" ; gene_name WIF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168832.5" ; havana_transcript "OTTHUMT00000401258.3" ; hgnc_id "HGNC:18081" ; level 2 ; orig_coord_info "chr12,65121044,65121191,-" ; protein_id "ENSP00000286574.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AMN1--WIF1^ENST00000286574.9" ; transcript_name "WIF1-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: BCAT1--AC023796.2 HAVANA gene 1001 25329 . + . FI_gene_label "BCAT1^ENSG00000060982.15" ; ID "BCAT1--AC023796.2^BCAT1^ENSG00000060982.15" ; ccdsid "CCDS44845.1" ; exon_id "ENSE00001535251.4" ; exon_number 1 ; gene_id "BCAT1--AC023796.2^BCAT1^ENSG00000060982.15" ; gene_name BCAT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169053.5" ; havana_transcript "OTTHUMT00000402080.3" ; hgnc_id "HGNC:976" ; level 2 ; orig_coord_info "chr12,24948927,24948932,-" ; protein_id "ENSP00000261192.7" ; tag upstream_uORF basic MANE_Select appris_principal_4 CCDS ; transcript_id "BCAT1--AC023796.2^ENST00000261192.12" ; transcript_name "BCAT1-201" ; transcript_support_level 1 ; transcript_type protein_coding BCAT1--AC023796.2 HAVANA mRNA 1001 25329 . + . FI_gene_label "BCAT1^ENSG00000060982.15" ; ID "BCAT1--AC023796.2^ENST00000261192.12" ; Parent "BCAT1--AC023796.2^BCAT1^ENSG00000060982.15" ; ccdsid "CCDS44845.1" ; exon_id "ENSE00001535251.4" ; exon_number 1 ; gene_id "BCAT1--AC023796.2^BCAT1^ENSG00000060982.15" ; gene_name BCAT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169053.5" ; havana_transcript "OTTHUMT00000402080.3" ; hgnc_id "HGNC:976" ; level 2 ; orig_coord_info "chr12,24948927,24948932,-" ; protein_id "ENSP00000261192.7" ; tag upstream_uORF basic MANE_Select appris_principal_4 CCDS ; transcript_id "BCAT1--AC023796.2^ENST00000261192.12" ; transcript_name "BCAT1-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: CCDC169--SOHLH2 HAVANA gene 1027 13795 . + . FI_gene_label "CCDC169^ENSG00000242715.8" ; ID "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8" ; ccdsid "CCDS45028.1" ; exon_id "ENSE00003461130.2" ; exon_number 1 ; gene_id "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8" ; gene_name CCDC169 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016731.4" ; havana_transcript "OTTHUMT00000368255.2" ; hgnc_id "HGNC:34361" ; level 2 ; orig_coord_info "chr13,36297637,36297719,-" ; protein_id "ENSP00000239859.7" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000239859.8" ; transcript_name "CCDC169-201" ; transcript_support_level 5 ; transcript_type protein_coding CCDC169--SOHLH2 HAVANA mRNA 1027 13795 . + . FI_gene_label "CCDC169^ENSG00000242715.8" ; ID "CCDC169--SOHLH2^ENST00000239859.8" ; Parent "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8" ; ccdsid "CCDS45028.1" ; exon_id "ENSE00003461130.2" ; exon_number 1 ; gene_id "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8" ; gene_name CCDC169 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016731.4" ; havana_transcript "OTTHUMT00000368255.2" ; hgnc_id "HGNC:34361" ; level 2 ; orig_coord_info "chr13,36297637,36297719,-" ; protein_id "ENSP00000239859.7" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000239859.8" ; transcript_name "CCDC169-201" ; transcript_support_level 5 ; transcript_type protein_coding L1 and L2 created: CCDC169--SOHLH2 HAVANA gene 23170 30158 . + . FI_gene_label "SOHLH2^ENSG00000120669.16" ; ID "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16" ; ccdsid "CCDS61309.1" ; exon_id "ENSE00001482819.2" ; exon_number 1 ; gene_id "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16" ; gene_name SOHLH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016728.4" ; havana_transcript "OTTHUMT00000368257.1" ; hgnc_id "HGNC:26026" ; level 1 ; orig_coord_info "chr13,36214479,36214526,-" ; protein_id "ENSP00000326838.6" ; tag basic exp_conf CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000317764.6" ; transcript_name "SOHLH2-201" ; transcript_support_level 1 ; transcript_type protein_coding CCDC169--SOHLH2 HAVANA mRNA 23170 30158 . + . FI_gene_label "SOHLH2^ENSG00000120669.16" ; ID "CCDC169--SOHLH2^ENST00000317764.6" ; Parent "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16" ; ccdsid "CCDS61309.1" ; exon_id "ENSE00001482819.2" ; exon_number 1 ; gene_id "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16" ; gene_name SOHLH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016728.4" ; havana_transcript "OTTHUMT00000368257.1" ; hgnc_id "HGNC:26026" ; level 1 ; orig_coord_info "chr13,36214479,36214526,-" ; protein_id "ENSP00000326838.6" ; tag basic exp_conf CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000317764.6" ; transcript_name "SOHLH2-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: CEP20--RPL15P20 HAVANA gene 1023 8351 . + . FI_gene_label "CEP20^ENSG00000133393.13" ; ID "CEP20--RPL15P20^CEP20^ENSG00000133393.13" ; ccdsid "CCDS10567.1" ; exon_id "ENSE00002673342.1" ; exon_number 1 ; gene_id "CEP20--RPL15P20^CEP20^ENSG00000133393.13" ; gene_name CEP20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129923.5" ; havana_transcript "OTTHUMT00000252177.3" ; hgnc_id "HGNC:26435" ; level 2 ; orig_coord_info "chr16,15888558,15888585,-" ; protein_id "ENSP00000255759.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CEP20--RPL15P20^ENST00000255759.11" ; transcript_name "CEP20-201" ; transcript_support_level 1 ; transcript_type protein_coding CEP20--RPL15P20 HAVANA mRNA 1023 8351 . + . FI_gene_label "CEP20^ENSG00000133393.13" ; ID "CEP20--RPL15P20^ENST00000255759.11" ; Parent "CEP20--RPL15P20^CEP20^ENSG00000133393.13" ; ccdsid "CCDS10567.1" ; exon_id "ENSE00002673342.1" ; exon_number 1 ; gene_id "CEP20--RPL15P20^CEP20^ENSG00000133393.13" ; gene_name CEP20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129923.5" ; havana_transcript "OTTHUMT00000252177.3" ; hgnc_id "HGNC:26435" ; level 2 ; orig_coord_info "chr16,15888558,15888585,-" ; protein_id "ENSP00000255759.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CEP20--RPL15P20^ENST00000255759.11" ; transcript_name "CEP20-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: FGFR1OP2--FGFR1 HAVANA gene 1001 12409 . + . FI_gene_label "FGFR1OP2^ENSG00000111790.14" ; ID "FGFR1OP2--FGFR1^FGFR1OP2^ENSG00000111790.14" ; ccdsid "CCDS8709.1" ; exon_id "ENSE00003510128.1" ; exon_number 2 ; gene_id "FGFR1OP2--FGFR1^FGFR1OP2^ENSG00000111790.14" ; gene_name FGFR1OP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169231.3" ; havana_transcript "OTTHUMT00000402961.2" ; hgnc_id "HGNC:23098" ; level 2 ; orig_coord_info "chr12,26954159,26954293,+" ; protein_id "ENSP00000229395.3" ; tag basic MANE_Select CCDS ; transcript_id "FGFR1OP2--FGFR1^ENST00000229395.8" ; transcript_name "FGFR1OP2-201" ; transcript_support_level 2 ; transcript_type protein_coding FGFR1OP2--FGFR1 HAVANA mRNA 1001 12409 . + . FI_gene_label "FGFR1OP2^ENSG00000111790.14" ; ID "FGFR1OP2--FGFR1^ENST00000229395.8" ; Parent "FGFR1OP2--FGFR1^FGFR1OP2^ENSG00000111790.14" ; ccdsid "CCDS8709.1" ; exon_id "ENSE00003510128.1" ; exon_number 2 ; gene_id "FGFR1OP2--FGFR1^FGFR1OP2^ENSG00000111790.14" ; gene_name FGFR1OP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169231.3" ; havana_transcript "OTTHUMT00000402961.2" ; hgnc_id "HGNC:23098" ; level 2 ; orig_coord_info "chr12,26954159,26954293,+" ; protein_id "ENSP00000229395.3" ; tag basic MANE_Select CCDS ; transcript_id "FGFR1OP2--FGFR1^ENST00000229395.8" ; transcript_name "FGFR1OP2-201" ; transcript_support_level 2 ; transcript_type protein_coding L1 and L2 created: FGFR1OP2--FGFR1 HAVANA gene 15630 43160 . + . FI_gene_label "FGFR1^ENSG00000077782.21" ; ID "FGFR1OP2--FGFR1^FGFR1^ENSG00000077782.21" ; ccdsid "CCDS43731.1" ; exon_id "ENSE00003610788.1" ; exon_number 2 ; gene_id "FGFR1OP2--FGFR1^FGFR1^ENSG00000077782.21" ; gene_name FGFR1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000147366.18" ; havana_transcript "OTTHUMT00000304017.2" ; hgnc_id "HGNC:3688" ; level 2 ; orig_coord_info "chr8,38457356,38457446,-" ; protein_id "ENSP00000327229.6" ; tag non_canonical_conserved basic CCDS ; transcript_id "FGFR1OP2--FGFR1^ENST00000326324.10" ; transcript_name "FGFR1-201" ; transcript_support_level 1 ; transcript_type protein_coding FGFR1OP2--FGFR1 HAVANA mRNA 15630 43160 . + . FI_gene_label "FGFR1^ENSG00000077782.21" ; ID "FGFR1OP2--FGFR1^ENST00000326324.10" ; Parent "FGFR1OP2--FGFR1^FGFR1^ENSG00000077782.21" ; ccdsid "CCDS43731.1" ; exon_id "ENSE00003610788.1" ; exon_number 2 ; gene_id "FGFR1OP2--FGFR1^FGFR1^ENSG00000077782.21" ; gene_name FGFR1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000147366.18" ; havana_transcript "OTTHUMT00000304017.2" ; hgnc_id "HGNC:3688" ; level 2 ; orig_coord_info "chr8,38457356,38457446,-" ; protein_id "ENSP00000327229.6" ; tag non_canonical_conserved basic CCDS ; transcript_id "FGFR1OP2--FGFR1^ENST00000326324.10" ; transcript_name "FGFR1-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: GRIA3--STAG2 HAVANA gene 29774 68172 . + . FI_gene_label "STAG2^ENSG00000101972.19" ; ID "GRIA3--STAG2^STAG2^ENSG00000101972.19" ; ccdsid "CCDS43990.1" ; exon_id "ENSE00003645286.1" ; exon_number 3 ; gene_id "GRIA3--STAG2^STAG2^ENSG00000101972.19" ; gene_name STAG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022725.13" ; havana_transcript "OTTHUMT00000106726.2" ; hgnc_id "HGNC:11355" ; level 2 ; orig_coord_info "chrX,124022628,124022671,+" ; protein_id "ENSP00000218089.9" ; tag basic appris_alternative_1 CCDS ; transcript_id "GRIA3--STAG2^ENST00000218089.13" ; transcript_name "STAG2-201" ; transcript_support_level 1 ; transcript_type protein_coding GRIA3--STAG2 HAVANA mRNA 29774 68172 . + . FI_gene_label "STAG2^ENSG00000101972.19" ; ID "GRIA3--STAG2^ENST00000218089.13" ; Parent "GRIA3--STAG2^STAG2^ENSG00000101972.19" ; ccdsid "CCDS43990.1" ; exon_id "ENSE00003645286.1" ; exon_number 3 ; gene_id "GRIA3--STAG2^STAG2^ENSG00000101972.19" ; gene_name STAG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022725.13" ; havana_transcript "OTTHUMT00000106726.2" ; hgnc_id "HGNC:11355" ; level 2 ; orig_coord_info "chrX,124022628,124022671,+" ; protein_id "ENSP00000218089.9" ; tag basic appris_alternative_1 CCDS ; transcript_id "GRIA3--STAG2^ENST00000218089.13" ; transcript_name "STAG2-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: GRIA3--STAG2 HAVANA gene 1331 23263 . + . FI_gene_label "GRIA3^ENSG00000125675.19" ; ID "GRIA3--STAG2^GRIA3^ENSG00000125675.19" ; ccdsid "CCDS14604.1" ; exon_id "ENSE00003715111.1" ; exon_number 1 ; gene_id "GRIA3--STAG2^GRIA3^ENSG00000125675.19" ; gene_name GRIA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022685.4" ; havana_transcript "OTTHUMT00000058854.3" ; hgnc_id "HGNC:4573" ; level 2 ; orig_coord_info "chrX,123184536,123184644,+" ; protein_id "ENSP00000446440.2" ; tag basic appris_alternative_1 CCDS ; transcript_id "GRIA3--STAG2^ENST00000541091.5" ; transcript_name "GRIA3-204" ; transcript_support_level 1 ; transcript_type protein_coding GRIA3--STAG2 HAVANA mRNA 1331 23263 . + . FI_gene_label "GRIA3^ENSG00000125675.19" ; ID "GRIA3--STAG2^ENST00000541091.5" ; Parent "GRIA3--STAG2^GRIA3^ENSG00000125675.19" ; ccdsid "CCDS14604.1" ; exon_id "ENSE00003715111.1" ; exon_number 1 ; gene_id "GRIA3--STAG2^GRIA3^ENSG00000125675.19" ; gene_name GRIA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022685.4" ; havana_transcript "OTTHUMT00000058854.3" ; hgnc_id "HGNC:4573" ; level 2 ; orig_coord_info "chrX,123184536,123184644,+" ; protein_id "ENSP00000446440.2" ; tag basic appris_alternative_1 CCDS ; transcript_id "GRIA3--STAG2^ENST00000541091.5" ; transcript_name "GRIA3-204" ; transcript_support_level 1 ; transcript_type protein_coding 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: PPP1R9A--XRCC2 HAVANA gene 3579 24300 . + . FI_gene_label "PPP1R9A^ENSG00000158528.12" ; ID "PPP1R9A--XRCC2^PPP1R9A^ENSG00000158528.12" ; ccdsid "CCDS55129.1" ; exon_id "ENSE00003773299.1" ; exon_number 1 ; gene_id "PPP1R9A--XRCC2^PPP1R9A^ENSG00000158528.12" ; gene_name PPP1R9A ; gene_type protein_coding ; havana_gene "OTTHUMG00000155566.4" ; havana_transcript "OTTHUMT00000484450.1" ; hgnc_id "HGNC:14946" ; level 2 ; orig_coord_info "chr7,94910114,94911508,+" ; protein_id "ENSP00000289495.7" ; tag basic appris_principal_4 CCDS ; transcript_id "PPP1R9A--XRCC2^ENST00000289495.7" ; transcript_name "PPP1R9A-201" ; transcript_support_level 1 ; transcript_type protein_coding PPP1R9A--XRCC2 HAVANA mRNA 3579 24300 . + . FI_gene_label "PPP1R9A^ENSG00000158528.12" ; ID "PPP1R9A--XRCC2^ENST00000289495.7" ; Parent "PPP1R9A--XRCC2^PPP1R9A^ENSG00000158528.12" ; ccdsid "CCDS55129.1" ; exon_id "ENSE00003773299.1" ; exon_number 1 ; gene_id "PPP1R9A--XRCC2^PPP1R9A^ENSG00000158528.12" ; gene_name PPP1R9A ; gene_type protein_coding ; havana_gene "OTTHUMG00000155566.4" ; havana_transcript "OTTHUMT00000484450.1" ; hgnc_id "HGNC:14946" ; level 2 ; orig_coord_info "chr7,94910114,94911508,+" ; protein_id "ENSP00000289495.7" ; tag basic appris_principal_4 CCDS ; transcript_id "PPP1R9A--XRCC2^ENST00000289495.7" ; transcript_name "PPP1R9A-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: PPP1R9A--XRCC2 HAVANA gene 33352 41183 . + . FI_gene_label "XRCC2^ENSG00000196584.3" ; ID "PPP1R9A--XRCC2^XRCC2^ENSG00000196584.3" ; ccdsid "CCDS5933.1" ; exon_id "ENSE00001199032.3" ; exon_number 1 ; gene_id "PPP1R9A--XRCC2^XRCC2^ENSG00000196584.3" ; gene_name XRCC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151470.2" ; havana_transcript "OTTHUMT00000322783.2" ; hgnc_id "HGNC:12829" ; level 2 ; orig_coord_info "chr7,152676041,152676079,-" ; protein_id "ENSP00000352271.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPP1R9A--XRCC2^ENST00000359321.2" ; transcript_name "XRCC2-201" ; transcript_support_level 1 ; transcript_type protein_coding PPP1R9A--XRCC2 HAVANA mRNA 33352 41183 . + . FI_gene_label "XRCC2^ENSG00000196584.3" ; ID "PPP1R9A--XRCC2^ENST00000359321.2" ; Parent "PPP1R9A--XRCC2^XRCC2^ENSG00000196584.3" ; ccdsid "CCDS5933.1" ; exon_id "ENSE00001199032.3" ; exon_number 1 ; gene_id "PPP1R9A--XRCC2^XRCC2^ENSG00000196584.3" ; gene_name XRCC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151470.2" ; havana_transcript "OTTHUMT00000322783.2" ; hgnc_id "HGNC:12829" ; level 2 ; orig_coord_info "chr7,152676041,152676079,-" ; protein_id "ENSP00000352271.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPP1R9A--XRCC2^ENST00000359321.2" ; transcript_name "XRCC2-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: PRRT3-AS1--CRELD1 HAVANA gene 6291 14116 . + . FI_gene_label "CRELD1^ENSG00000163703.19" ; ID "PRRT3-AS1--CRELD1^CRELD1^ENSG00000163703.19" ; ccdsid "CCDS33693.1" ; exon_id "ENSE00003312700.1" ; exon_number 2 ; gene_id "PRRT3-AS1--CRELD1^CRELD1^ENSG00000163703.19" ; gene_name CRELD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000195945.3" ; havana_transcript "OTTHUMT00000339239.2" ; hgnc_id "HGNC:14630" ; level 2 ; orig_coord_info "chr3,9934439,9934612,+" ; protein_id "ENSP00000321856.5" ; tag basic CCDS ; transcript_id "PRRT3-AS1--CRELD1^ENST00000326434.9" ; transcript_name "CRELD1-201" ; transcript_support_level 1 ; transcript_type protein_coding PRRT3-AS1--CRELD1 HAVANA mRNA 6291 14116 . + . FI_gene_label "CRELD1^ENSG00000163703.19" ; ID "PRRT3-AS1--CRELD1^ENST00000326434.9" ; Parent "PRRT3-AS1--CRELD1^CRELD1^ENSG00000163703.19" ; ccdsid "CCDS33693.1" ; exon_id "ENSE00003312700.1" ; exon_number 2 ; gene_id "PRRT3-AS1--CRELD1^CRELD1^ENSG00000163703.19" ; gene_name CRELD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000195945.3" ; havana_transcript "OTTHUMT00000339239.2" ; hgnc_id "HGNC:14630" ; level 2 ; orig_coord_info "chr3,9934439,9934612,+" ; protein_id "ENSP00000321856.5" ; tag basic CCDS ; transcript_id "PRRT3-AS1--CRELD1^ENST00000326434.9" ; transcript_name "CRELD1-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: PSME4--PSG8 HAVANA gene 52156 58738 . + . FI_gene_label "PSG8^ENSG00000124467.19" ; ID "PSME4--PSG8^PSG8^ENSG00000124467.19" ; ccdsid "CCDS33037.1" ; exon_id "ENSE00003163264.1" ; exon_number 1 ; gene_id "PSME4--PSG8^PSG8^ENSG00000124467.19" ; gene_name PSG8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151118.3" ; havana_transcript "OTTHUMT00000464526.1" ; hgnc_id "HGNC:9525" ; level 2 ; orig_coord_info "chr19,42765518,42765581,-" ; protein_id "ENSP00000305005.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "PSME4--PSG8^ENST00000306511.5" ; transcript_name "PSG8-201" ; transcript_support_level 1 ; transcript_type protein_coding PSME4--PSG8 HAVANA mRNA 52156 58738 . + . FI_gene_label "PSG8^ENSG00000124467.19" ; ID "PSME4--PSG8^ENST00000306511.5" ; Parent "PSME4--PSG8^PSG8^ENSG00000124467.19" ; ccdsid "CCDS33037.1" ; exon_id "ENSE00003163264.1" ; exon_number 1 ; gene_id "PSME4--PSG8^PSG8^ENSG00000124467.19" ; gene_name PSG8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151118.3" ; havana_transcript "OTTHUMT00000464526.1" ; hgnc_id "HGNC:9525" ; level 2 ; orig_coord_info "chr19,42765518,42765581,-" ; protein_id "ENSP00000305005.4" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "PSME4--PSG8^ENST00000306511.5" ; transcript_name "PSG8-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: PSME4--PSG8 HAVANA gene 1154 47654 . + . FI_gene_label "PSME4^ENSG00000068878.15" ; ID "PSME4--PSG8^PSME4^ENSG00000068878.15" ; exon_id "ENSE00002203154.1" ; exon_number 1 ; gene_id "PSME4--PSG8^PSME4^ENSG00000068878.15" ; gene_name PSME4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151852.6" ; havana_transcript "OTTHUMT00000324164.1" ; hgnc_id "HGNC:20635" ; level 2 ; orig_coord_info "chr2,53970543,53970784,-" ; protein_id "ENSP00000374643.3" ; transcript_id "PSME4--PSG8^ENST00000389993.7" ; transcript_name "PSME4-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay PSME4--PSG8 HAVANA mRNA 1154 47654 . + . FI_gene_label "PSME4^ENSG00000068878.15" ; ID "PSME4--PSG8^ENST00000389993.7" ; Parent "PSME4--PSG8^PSME4^ENSG00000068878.15" ; exon_id "ENSE00002203154.1" ; exon_number 1 ; gene_id "PSME4--PSG8^PSME4^ENSG00000068878.15" ; gene_name PSME4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151852.6" ; havana_transcript "OTTHUMT00000324164.1" ; hgnc_id "HGNC:20635" ; level 2 ; orig_coord_info "chr2,53970543,53970784,-" ; protein_id "ENSP00000374643.3" ; transcript_id "PSME4--PSG8^ENST00000389993.7" ; transcript_name "PSME4-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay L1 and L2 created: SMURF2P1--LRRC37B HAVANA gene 12005 29164 . + . FI_gene_label "LRRC37B^ENSG00000185158.12" ; ID "SMURF2P1--LRRC37B^LRRC37B^ENSG00000185158.12" ; exon_id "ENSE00001894889.2" ; exon_number 1 ; gene_id "SMURF2P1--LRRC37B^LRRC37B^ENSG00000185158.12" ; gene_name LRRC37B ; gene_type protein_coding ; havana_gene "OTTHUMG00000132785.3" ; havana_transcript "OTTHUMT00000256193.2" ; hgnc_id "HGNC:29070" ; level 2 ; orig_coord_info "chr17,32021066,32022825,+" ; protein_id "ENSP00000332536.7" ; tag basic appris_alternative_2 ; transcript_id "SMURF2P1--LRRC37B^ENST00000327564.11" ; transcript_name "LRRC37B-201" ; transcript_support_level 1 ; transcript_type protein_coding SMURF2P1--LRRC37B HAVANA mRNA 12005 29164 . + . FI_gene_label "LRRC37B^ENSG00000185158.12" ; ID "SMURF2P1--LRRC37B^ENST00000327564.11" ; Parent "SMURF2P1--LRRC37B^LRRC37B^ENSG00000185158.12" ; exon_id "ENSE00001894889.2" ; exon_number 1 ; gene_id "SMURF2P1--LRRC37B^LRRC37B^ENSG00000185158.12" ; gene_name LRRC37B ; gene_type protein_coding ; havana_gene "OTTHUMG00000132785.3" ; havana_transcript "OTTHUMT00000256193.2" ; hgnc_id "HGNC:29070" ; level 2 ; orig_coord_info "chr17,32021066,32022825,+" ; protein_id "ENSP00000332536.7" ; tag basic appris_alternative_2 ; transcript_id "SMURF2P1--LRRC37B^ENST00000327564.11" ; transcript_name "LRRC37B-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: ST7--TFEC HAVANA gene 1090 33031 . + . FI_gene_label "ST7^ENSG00000004866.22" ; ID "ST7--TFEC^ST7^ENSG00000004866.22" ; ccdsid "CCDS5770.1" ; exon_id "ENSE00001226748.3" ; exon_number 1 ; gene_id "ST7--TFEC^ST7^ENSG00000004866.22" ; gene_name ST7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023888.24" ; havana_transcript "OTTHUMT00000141622.1" ; hgnc_id "HGNC:11351" ; level 2 ; orig_coord_info "chr7,116953541,116953691,+" ; protein_id "ENSP00000265437.5" ; tag basic CCDS ; transcript_id "ST7--TFEC^ENST00000265437.9" ; transcript_name "ST7-201" ; transcript_support_level 1 ; transcript_type protein_coding ST7--TFEC HAVANA mRNA 1090 33031 . + . FI_gene_label "ST7^ENSG00000004866.22" ; ID "ST7--TFEC^ENST00000265437.9" ; Parent "ST7--TFEC^ST7^ENSG00000004866.22" ; ccdsid "CCDS5770.1" ; exon_id "ENSE00001226748.3" ; exon_number 1 ; gene_id "ST7--TFEC^ST7^ENSG00000004866.22" ; gene_name ST7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023888.24" ; havana_transcript "OTTHUMT00000141622.1" ; hgnc_id "HGNC:11351" ; level 2 ; orig_coord_info "chr7,116953541,116953691,+" ; protein_id "ENSP00000265437.5" ; tag basic CCDS ; transcript_id "ST7--TFEC^ENST00000265437.9" ; transcript_name "ST7-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: ST7--TFEC HAVANA gene 45346 60081 . + . FI_gene_label "TFEC^ENSG00000105967.16" ; ID "ST7--TFEC^TFEC^ENSG00000105967.16" ; ccdsid "CCDS5762.1" ; exon_id "ENSE00003564412.1" ; exon_number 2 ; gene_id "ST7--TFEC^TFEC^ENSG00000105967.16" ; gene_name TFEC ; gene_type protein_coding ; havana_gene "OTTHUMG00000023518.7" ; havana_transcript "OTTHUMT00000059839.5" ; hgnc_id "HGNC:11754" ; level 2 ; orig_coord_info "chr7,115984262,115984441,-" ; protein_id "ENSP00000265440.7" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ST7--TFEC^ENST00000265440.12" ; transcript_name "TFEC-201" ; transcript_support_level 1 ; transcript_type protein_coding ST7--TFEC HAVANA mRNA 45346 60081 . + . FI_gene_label "TFEC^ENSG00000105967.16" ; ID "ST7--TFEC^ENST00000265440.12" ; Parent "ST7--TFEC^TFEC^ENSG00000105967.16" ; ccdsid "CCDS5762.1" ; exon_id "ENSE00003564412.1" ; exon_number 2 ; gene_id "ST7--TFEC^TFEC^ENSG00000105967.16" ; gene_name TFEC ; gene_type protein_coding ; havana_gene "OTTHUMG00000023518.7" ; havana_transcript "OTTHUMT00000059839.5" ; hgnc_id "HGNC:11754" ; level 2 ; orig_coord_info "chr7,115984262,115984441,-" ; protein_id "ENSP00000265440.7" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ST7--TFEC^ENST00000265440.12" ; transcript_name "TFEC-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: STAG2--GRIA3 HAVANA gene 1308 39706 . + . FI_gene_label "STAG2^ENSG00000101972.19" ; ID "STAG2--GRIA3^STAG2^ENSG00000101972.19" ; ccdsid "CCDS43990.1" ; exon_id "ENSE00003645286.1" ; exon_number 3 ; gene_id "STAG2--GRIA3^STAG2^ENSG00000101972.19" ; gene_name STAG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022725.13" ; havana_transcript "OTTHUMT00000106726.2" ; hgnc_id "HGNC:11355" ; level 2 ; orig_coord_info "chrX,124022628,124022671,+" ; protein_id "ENSP00000218089.9" ; tag basic appris_alternative_1 CCDS ; transcript_id "STAG2--GRIA3^ENST00000218089.13" ; transcript_name "STAG2-201" ; transcript_support_level 1 ; transcript_type protein_coding STAG2--GRIA3 HAVANA mRNA 1308 39706 . + . FI_gene_label "STAG2^ENSG00000101972.19" ; ID "STAG2--GRIA3^ENST00000218089.13" ; Parent "STAG2--GRIA3^STAG2^ENSG00000101972.19" ; ccdsid "CCDS43990.1" ; exon_id "ENSE00003645286.1" ; exon_number 3 ; gene_id "STAG2--GRIA3^STAG2^ENSG00000101972.19" ; gene_name STAG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022725.13" ; havana_transcript "OTTHUMT00000106726.2" ; hgnc_id "HGNC:11355" ; level 2 ; orig_coord_info "chrX,124022628,124022671,+" ; protein_id "ENSP00000218089.9" ; tag basic appris_alternative_1 CCDS ; transcript_id "STAG2--GRIA3^ENST00000218089.13" ; transcript_name "STAG2-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: STAG2--GRIA3 HAVANA gene 46731 68663 . + . FI_gene_label "GRIA3^ENSG00000125675.19" ; ID "STAG2--GRIA3^GRIA3^ENSG00000125675.19" ; ccdsid "CCDS14604.1" ; exon_id "ENSE00003715111.1" ; exon_number 1 ; gene_id "STAG2--GRIA3^GRIA3^ENSG00000125675.19" ; gene_name GRIA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022685.4" ; havana_transcript "OTTHUMT00000058854.3" ; hgnc_id "HGNC:4573" ; level 2 ; orig_coord_info "chrX,123184536,123184644,+" ; protein_id "ENSP00000446440.2" ; tag basic appris_alternative_1 CCDS ; transcript_id "STAG2--GRIA3^ENST00000541091.5" ; transcript_name "GRIA3-204" ; transcript_support_level 1 ; transcript_type protein_coding STAG2--GRIA3 HAVANA mRNA 46731 68663 . + . FI_gene_label "GRIA3^ENSG00000125675.19" ; ID "STAG2--GRIA3^ENST00000541091.5" ; Parent "STAG2--GRIA3^GRIA3^ENSG00000125675.19" ; ccdsid "CCDS14604.1" ; exon_id "ENSE00003715111.1" ; exon_number 1 ; gene_id "STAG2--GRIA3^GRIA3^ENSG00000125675.19" ; gene_name GRIA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022685.4" ; havana_transcript "OTTHUMT00000058854.3" ; hgnc_id "HGNC:4573" ; level 2 ; orig_coord_info "chrX,123184536,123184644,+" ; protein_id "ENSP00000446440.2" ; tag basic appris_alternative_1 CCDS ; transcript_id "STAG2--GRIA3^ENST00000541091.5" ; transcript_name "GRIA3-204" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: TLK2--AC240565.1 HAVANA gene 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding TLK2--AC240565.1 HAVANA mRNA 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^ENST00000326270.13" ; Parent "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: TVP23C--CDRT4 HAVANA gene 1052 15760 . + . FI_gene_label "TVP23C^ENSG00000175106.17" ; ID "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; ccdsid "CCDS11170.1" ; exon_id "ENSE00001105678.2" ; exon_number 1 ; gene_id "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; gene_name TVP23C ; gene_type protein_coding ; havana_gene "OTTHUMG00000171461.10" ; havana_transcript "OTTHUMT00000130705.3" ; hgnc_id "HGNC:30453" ; level 2 ; orig_coord_info "chr17,15563437,15563448,-" ; protein_id "ENSP00000225576.3" ; tag basic CCDS ; transcript_id "TVP23C--CDRT4^ENST00000225576.7" ; transcript_name "TVP23C-201" ; transcript_support_level 1 ; transcript_type protein_coding TVP23C--CDRT4 HAVANA mRNA 1052 15760 . + . FI_gene_label "TVP23C^ENSG00000175106.17" ; ID "TVP23C--CDRT4^ENST00000225576.7" ; Parent "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; ccdsid "CCDS11170.1" ; exon_id "ENSE00001105678.2" ; exon_number 1 ; gene_id "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; gene_name TVP23C ; gene_type protein_coding ; havana_gene "OTTHUMG00000171461.10" ; havana_transcript "OTTHUMT00000130705.3" ; hgnc_id "HGNC:30453" ; level 2 ; orig_coord_info "chr17,15563437,15563448,-" ; protein_id "ENSP00000225576.3" ; tag basic CCDS ; transcript_id "TVP23C--CDRT4^ENST00000225576.7" ; transcript_name "TVP23C-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: TVP23C--CDRT4 HAVANA gene 19889 25887 . + . FI_gene_label "CDRT4^ENSG00000239704.11" ; ID "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; ccdsid "CCDS73995.1" ; exon_id "ENSE00003735347.1" ; exon_number 3 ; gene_id "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; gene_name CDRT4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059070.14" ; havana_transcript "OTTHUMT00000130383.9" ; hgnc_id "HGNC:14383" ; level 2 ; orig_coord_info "chr17,15440208,15440238,-" ; protein_id "ENSP00000482523.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TVP23C--CDRT4^ENST00000619038.5" ; transcript_name "CDRT4-204" ; transcript_support_level 1 ; transcript_type protein_coding TVP23C--CDRT4 HAVANA mRNA 19889 25887 . + . FI_gene_label "CDRT4^ENSG00000239704.11" ; ID "TVP23C--CDRT4^ENST00000619038.5" ; Parent "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; ccdsid "CCDS73995.1" ; exon_id "ENSE00003735347.1" ; exon_number 3 ; gene_id "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; gene_name CDRT4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059070.14" ; havana_transcript "OTTHUMT00000130383.9" ; hgnc_id "HGNC:14383" ; level 2 ; orig_coord_info "chr17,15440208,15440238,-" ; protein_id "ENSP00000482523.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TVP23C--CDRT4^ENST00000619038.5" ; transcript_name "CDRT4-204" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: AL138900.2--AL732406.1 HAVANA gene 1001 5597 . + . FI_gene_label "AL138900.2^ENSG00000286073.1" ; ID "AL138900.2--AL732406.1^AL138900.2^ENSG00000286073.1" ; exon_id "ENSE00003842696.1" ; exon_number 1 ; gene_id "AL138900.2--AL732406.1^AL138900.2^ENSG00000286073.1" ; gene_name "AL138900.2" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000193492.1" ; havana_transcript "OTTHUMT00000502255.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,157310605,157310655,-" ; tag basic ; transcript_id "AL138900.2--AL732406.1^ENST00000650679.1" ; transcript_name "AL138900.2-201" ; transcript_type unprocessed_pseudogene AL138900.2--AL732406.1 HAVANA RNA 1001 5597 . + . FI_gene_label "AL138900.2^ENSG00000286073.1" ; ID "AL138900.2--AL732406.1^ENST00000650679.1" ; Parent "AL138900.2--AL732406.1^AL138900.2^ENSG00000286073.1" ; exon_id "ENSE00003842696.1" ; exon_number 1 ; gene_id "AL138900.2--AL732406.1^AL138900.2^ENSG00000286073.1" ; gene_name "AL138900.2" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000193492.1" ; havana_transcript "OTTHUMT00000502255.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,157310605,157310655,-" ; tag basic ; transcript_id "AL138900.2--AL732406.1^ENST00000650679.1" ; transcript_name "AL138900.2-201" ; transcript_type unprocessed_pseudogene L1 and L2 created: AL138900.2--AL732406.1 HAVANA gene 8598 13177 . + . FI_gene_label "AL732406.1^ENSG00000286151.1" ; ID "AL138900.2--AL732406.1^AL732406.1^ENSG00000286151.1" ; exon_id "ENSE00003848165.1" ; exon_number 1 ; gene_id "AL138900.2--AL732406.1^AL732406.1^ENSG00000286151.1" ; gene_name "AL732406.1" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000193493.1" ; havana_transcript "OTTHUMT00000502256.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,157400927,157400977,+" ; tag basic ; transcript_id "AL138900.2--AL732406.1^ENST00000652627.1" ; transcript_name "AL732406.1-201" ; transcript_type unprocessed_pseudogene AL138900.2--AL732406.1 HAVANA RNA 8598 13177 . + . FI_gene_label "AL732406.1^ENSG00000286151.1" ; ID "AL138900.2--AL732406.1^ENST00000652627.1" ; Parent "AL138900.2--AL732406.1^AL732406.1^ENSG00000286151.1" ; exon_id "ENSE00003848165.1" ; exon_number 1 ; gene_id "AL138900.2--AL732406.1^AL732406.1^ENSG00000286151.1" ; gene_name "AL732406.1" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000193493.1" ; havana_transcript "OTTHUMT00000502256.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr1,157400927,157400977,+" ; tag basic ; transcript_id "AL138900.2--AL732406.1^ENST00000652627.1" ; transcript_name "AL732406.1-201" ; transcript_type unprocessed_pseudogene L1 and L2 created: BCAT1--AC023796.2 HAVANA gene 28330 29780 . + . FI_gene_label "AC023796.2^ENSG00000256482.1" ; ID "BCAT1--AC023796.2^AC023796.2^ENSG00000256482.1" ; exon_id "ENSE00002206228.1" ; exon_number 1 ; gene_id "BCAT1--AC023796.2^AC023796.2^ENSG00000256482.1" ; gene_name "AC023796.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000169054.1" ; havana_transcript "OTTHUMT00000402089.1" ; level 2 ; orig_coord_info "chr12,24830421,24830789,+" ; tag basic ; transcript_id "BCAT1--AC023796.2^ENST00000545410.1" ; transcript_name "AC023796.2-201" ; transcript_support_level 3 ; transcript_type lncRNA BCAT1--AC023796.2 HAVANA RNA 28330 29780 . + . FI_gene_label "AC023796.2^ENSG00000256482.1" ; ID "BCAT1--AC023796.2^ENST00000545410.1" ; Parent "BCAT1--AC023796.2^AC023796.2^ENSG00000256482.1" ; exon_id "ENSE00002206228.1" ; exon_number 1 ; gene_id "BCAT1--AC023796.2^AC023796.2^ENSG00000256482.1" ; gene_name "AC023796.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000169054.1" ; havana_transcript "OTTHUMT00000402089.1" ; level 2 ; orig_coord_info "chr12,24830421,24830789,+" ; tag basic ; transcript_id "BCAT1--AC023796.2^ENST00000545410.1" ; transcript_name "AC023796.2-201" ; transcript_support_level 3 ; transcript_type lncRNA L1 and L2 created: CEP20--RPL15P20 HAVANA gene 11352 11949 . + . FI_gene_label "RPL15P20^ENSG00000215003.4" ; ID "CEP20--RPL15P20^RPL15P20^ENSG00000215003.4" ; exon_id "ENSE00001893274.2" ; exon_number 1 ; gene_id "CEP20--RPL15P20^RPL15P20^ENSG00000215003.4" ; gene_name RPL15P20 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158104.2" ; havana_transcript "OTTHUMT00000350198.2" ; hgnc_id "HGNC:36130" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr16,15931697,15932294,-" ; tag pseudo_consens basic ; transcript_id "CEP20--RPL15P20^ENST00000482912.2" ; transcript_name "RPL15P20-201" ; transcript_support_level NA ; transcript_type processed_pseudogene CEP20--RPL15P20 HAVANA RNA 11352 11949 . + . FI_gene_label "RPL15P20^ENSG00000215003.4" ; ID "CEP20--RPL15P20^ENST00000482912.2" ; Parent "CEP20--RPL15P20^RPL15P20^ENSG00000215003.4" ; exon_id "ENSE00001893274.2" ; exon_number 1 ; gene_id "CEP20--RPL15P20^RPL15P20^ENSG00000215003.4" ; gene_name RPL15P20 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000158104.2" ; havana_transcript "OTTHUMT00000350198.2" ; hgnc_id "HGNC:36130" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr16,15931697,15932294,-" ; tag pseudo_consens basic ; transcript_id "CEP20--RPL15P20^ENST00000482912.2" ; transcript_name "RPL15P20-201" ; transcript_support_level NA ; transcript_type processed_pseudogene L1 and L2 created: PRRT3-AS1--CRELD1 HAVANA gene 1001 3250 . + . FI_gene_label "PRRT3-AS1^ENSG00000230082.1" ; ID "PRRT3-AS1--CRELD1^PRRT3-AS1^ENSG00000230082.1" ; exon_id "ENSE00001795375.1" ; exon_number 1 ; gene_id "PRRT3-AS1--CRELD1^PRRT3-AS1^ENSG00000230082.1" ; gene_name "PRRT3-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000155293.2" ; havana_transcript "OTTHUMT00000339339.2" ; hgnc_id "HGNC:41151" ; level 2 ; orig_coord_info "chr3,9947404,9947604,+" ; tag basic ; transcript_id "PRRT3-AS1--CRELD1^ENST00000431558.1" ; transcript_name "PRRT3-AS1-201" ; transcript_support_level 2 ; transcript_type lncRNA PRRT3-AS1--CRELD1 HAVANA RNA 1001 3250 . + . FI_gene_label "PRRT3-AS1^ENSG00000230082.1" ; ID "PRRT3-AS1--CRELD1^ENST00000431558.1" ; Parent "PRRT3-AS1--CRELD1^PRRT3-AS1^ENSG00000230082.1" ; exon_id "ENSE00001795375.1" ; exon_number 1 ; gene_id "PRRT3-AS1--CRELD1^PRRT3-AS1^ENSG00000230082.1" ; gene_name "PRRT3-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000155293.2" ; havana_transcript "OTTHUMT00000339339.2" ; hgnc_id "HGNC:41151" ; level 2 ; orig_coord_info "chr3,9947404,9947604,+" ; tag basic ; transcript_id "PRRT3-AS1--CRELD1^ENST00000431558.1" ; transcript_name "PRRT3-AS1-201" ; transcript_support_level 2 ; transcript_type lncRNA L1 and L2 created: SMURF2P1--LRRC37B HAVANA gene 1070 5305 . + . FI_gene_label "SMURF2P1^ENSG00000248121.8" ; ID "SMURF2P1--LRRC37B^SMURF2P1^ENSG00000248121.8" ; exon_id "ENSE00002054081.1" ; exon_number 1 ; gene_id "SMURF2P1--LRRC37B^SMURF2P1^ENSG00000248121.8" ; gene_name SMURF2P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000132798.3" ; havana_transcript "OTTHUMT00000256215.2" ; hgnc_id "HGNC:44402" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr17,30600865,30600916,+" ; tag basic ; transcript_id "SMURF2P1--LRRC37B^ENST00000514992.2" ; transcript_name "SMURF2P1-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene SMURF2P1--LRRC37B HAVANA RNA 1070 5305 . + . FI_gene_label "SMURF2P1^ENSG00000248121.8" ; ID "SMURF2P1--LRRC37B^ENST00000514992.2" ; Parent "SMURF2P1--LRRC37B^SMURF2P1^ENSG00000248121.8" ; exon_id "ENSE00002054081.1" ; exon_number 1 ; gene_id "SMURF2P1--LRRC37B^SMURF2P1^ENSG00000248121.8" ; gene_name SMURF2P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000132798.3" ; havana_transcript "OTTHUMT00000256215.2" ; hgnc_id "HGNC:44402" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr17,30600865,30600916,+" ; tag basic ; transcript_id "SMURF2P1--LRRC37B^ENST00000514992.2" ; transcript_name "SMURF2P1-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_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 335 cases fixed where L3 features have parent feature(s) missing ------------------------------ done in 1 seconds ------------------------------- --------------------------- Check5: l1 linked to l2 ---------------------------- No problem found ------------------------------ done in 0 seconds ------------------------------- --------------------------- Check6: remove orphan l1 --------------------------- We remove only those not supposed to be orphan None found ------------------------------ done in 0 seconds ------------------------------- ------------------------- Check7: all level3 locations ------------------------- ------------------------------ done in 0 seconds ------------------------------- ------------------------------ Check8: check cds ------------------------------- No problem found ------------------------------ done in 0 seconds ------------------------------- ----------------------------- Check9: check exons ------------------------------ No exons created No exons locations modified No supernumerary exons removed No level2 locations modified ------------------------------ done in 0 seconds ------------------------------- ----------------------------- Check10: check utrs ------------------------------ 711 UTRs created that were missing No UTRs locations modified No supernumerary UTRs removed ------------------------------ done in 0 seconds ------------------------------- ------------------------ Check11: all level2 locations ------------------------- No problem found ------------------------------ done in 0 seconds ------------------------------- ------------------------ Check12: all level1 locations ------------------------- We fixed 29 wrong level1 location cases ------------------------------ done in 0 seconds ------------------------------- ---------------------- Check13: remove identical isoforms ---------------------- None found ------------------------------ done in 0 seconds ------------------------------- ------ End checks (done in 1 second) ------ GFF3 file parsed