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: 2045 => Number of comment lines: 0 => Fasta included: No => Number of features lines: 2045 => Number of feature type (3rd column): 2 * Level1: 0 => * level2: 0 => * level3: 2 => exon CDS * unknown: 0 => =>Check because only level3 features: * Number of feature with Parent attribute:0 * Number of feature with a common attribute:2045 => 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: AC092807.3--DDAH1 HAVANA gene 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding AC092807.3--DDAH1 HAVANA mRNA 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^ENST00000284031.13" ; Parent "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: ACTBP6--ACTB HAVANA gene 6203 10583 . + . FI_gene_label "ACTB^ENSG00000075624.17" ; ID "ACTBP6--ACTB^ACTB^ENSG00000075624.17" ; exon_id "ENSE00003542066.1" ; exon_number 3 ; gene_id "ACTBP6--ACTB^ACTB^ENSG00000075624.17" ; gene_name ACTB ; gene_type protein_coding ; havana_gene "OTTHUMG00000023268.12" ; havana_transcript "OTTHUMT00000324028.2" ; hgnc_id "HGNC:132" ; level 2 ; orig_coord_info "chr7,5529535,5529657,-" ; protein_id "ENSP00000401032.1" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF dotter_confirmed ; transcript_id "ACTBP6--ACTB^ENST00000414620.1" ; transcript_name "ACTB-201" ; transcript_support_level 4 ; transcript_type protein_coding ACTBP6--ACTB HAVANA mRNA 6203 10583 . + . FI_gene_label "ACTB^ENSG00000075624.17" ; ID "ACTBP6--ACTB^ENST00000414620.1" ; Parent "ACTBP6--ACTB^ACTB^ENSG00000075624.17" ; exon_id "ENSE00003542066.1" ; exon_number 3 ; gene_id "ACTBP6--ACTB^ACTB^ENSG00000075624.17" ; gene_name ACTB ; gene_type protein_coding ; havana_gene "OTTHUMG00000023268.12" ; havana_transcript "OTTHUMT00000324028.2" ; hgnc_id "HGNC:132" ; level 2 ; orig_coord_info "chr7,5529535,5529657,-" ; protein_id "ENSP00000401032.1" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF dotter_confirmed ; transcript_id "ACTBP6--ACTB^ENST00000414620.1" ; transcript_name "ACTB-201" ; transcript_support_level 4 ; transcript_type protein_coding L1 and L2 created: AKAP12--PHBP1 HAVANA gene 1408 13303 . + . FI_gene_label "AKAP12^ENSG00000131016.17" ; ID "AKAP12--PHBP1^AKAP12^ENSG00000131016.17" ; ccdsid "CCDS5229.1" ; exon_id "ENSE00001128616.1" ; exon_number 1 ; gene_id "AKAP12--PHBP1^AKAP12^ENSG00000131016.17" ; gene_name AKAP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015833.3" ; havana_transcript "OTTHUMT00000042712.1" ; hgnc_id "HGNC:370" ; level 2 ; orig_coord_info "chr6,151240563,151240724,+" ; protein_id "ENSP00000253332.1" ; tag basic appris_principal_3 CCDS ; transcript_id "AKAP12--PHBP1^ENST00000253332.5" ; transcript_name "AKAP12-201" ; transcript_support_level 1 ; transcript_type protein_coding AKAP12--PHBP1 HAVANA mRNA 1408 13303 . + . FI_gene_label "AKAP12^ENSG00000131016.17" ; ID "AKAP12--PHBP1^ENST00000253332.5" ; Parent "AKAP12--PHBP1^AKAP12^ENSG00000131016.17" ; ccdsid "CCDS5229.1" ; exon_id "ENSE00001128616.1" ; exon_number 1 ; gene_id "AKAP12--PHBP1^AKAP12^ENSG00000131016.17" ; gene_name AKAP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015833.3" ; havana_transcript "OTTHUMT00000042712.1" ; hgnc_id "HGNC:370" ; level 2 ; orig_coord_info "chr6,151240563,151240724,+" ; protein_id "ENSP00000253332.1" ; tag basic appris_principal_3 CCDS ; transcript_id "AKAP12--PHBP1^ENST00000253332.5" ; transcript_name "AKAP12-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: AKAP12--ULBP3 HAVANA gene 1408 13303 . + . FI_gene_label "AKAP12^ENSG00000131016.17" ; ID "AKAP12--ULBP3^AKAP12^ENSG00000131016.17" ; ccdsid "CCDS5229.1" ; exon_id "ENSE00001128616.1" ; exon_number 1 ; gene_id "AKAP12--ULBP3^AKAP12^ENSG00000131016.17" ; gene_name AKAP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015833.3" ; havana_transcript "OTTHUMT00000042712.1" ; hgnc_id "HGNC:370" ; level 2 ; orig_coord_info "chr6,151240563,151240724,+" ; protein_id "ENSP00000253332.1" ; tag basic appris_principal_3 CCDS ; transcript_id "AKAP12--ULBP3^ENST00000253332.5" ; transcript_name "AKAP12-201" ; transcript_support_level 1 ; transcript_type protein_coding AKAP12--ULBP3 HAVANA mRNA 1408 13303 . + . FI_gene_label "AKAP12^ENSG00000131016.17" ; ID "AKAP12--ULBP3^ENST00000253332.5" ; Parent "AKAP12--ULBP3^AKAP12^ENSG00000131016.17" ; ccdsid "CCDS5229.1" ; exon_id "ENSE00001128616.1" ; exon_number 1 ; gene_id "AKAP12--ULBP3^AKAP12^ENSG00000131016.17" ; gene_name AKAP12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015833.3" ; havana_transcript "OTTHUMT00000042712.1" ; hgnc_id "HGNC:370" ; level 2 ; orig_coord_info "chr6,151240563,151240724,+" ; protein_id "ENSP00000253332.1" ; tag basic appris_principal_3 CCDS ; transcript_id "AKAP12--ULBP3^ENST00000253332.5" ; transcript_name "AKAP12-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: AKAP12--ULBP3 HAVANA gene 18090 24109 . + . FI_gene_label "ULBP3^ENSG00000131019.11" ; ID "AKAP12--ULBP3^ULBP3^ENSG00000131019.11" ; ccdsid "CCDS5225.1" ; exon_id "ENSE00001444257.2" ; exon_number 1 ; gene_id "AKAP12--ULBP3^ULBP3^ENSG00000131019.11" ; gene_name ULBP3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015811.3" ; havana_transcript "OTTHUMT00000042678.3" ; hgnc_id "HGNC:14895" ; level 2 ; orig_coord_info "chr6,150068979,150069066,-" ; protein_id "ENSP00000356308.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AKAP12--ULBP3^ENST00000367339.7" ; transcript_name "ULBP3-201" ; transcript_support_level 5 ; transcript_type protein_coding AKAP12--ULBP3 HAVANA mRNA 18090 24109 . + . FI_gene_label "ULBP3^ENSG00000131019.11" ; ID "AKAP12--ULBP3^ENST00000367339.7" ; Parent "AKAP12--ULBP3^ULBP3^ENSG00000131019.11" ; ccdsid "CCDS5225.1" ; exon_id "ENSE00001444257.2" ; exon_number 1 ; gene_id "AKAP12--ULBP3^ULBP3^ENSG00000131019.11" ; gene_name ULBP3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015811.3" ; havana_transcript "OTTHUMT00000042678.3" ; hgnc_id "HGNC:14895" ; level 2 ; orig_coord_info "chr6,150068979,150069066,-" ; protein_id "ENSP00000356308.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AKAP12--ULBP3^ENST00000367339.7" ; transcript_name "ULBP3-201" ; transcript_support_level 5 ; transcript_type protein_coding L1 and L2 created: ANKRD46--STK3 HAVANA gene 1026 13680 . + . FI_gene_label "ANKRD46^ENSG00000186106.11" ; ID "ANKRD46--STK3^ANKRD46^ENSG00000186106.11" ; ccdsid "CCDS6287.1" ; exon_id "ENSE00001339682.1" ; exon_number 3 ; gene_id "ANKRD46--STK3^ANKRD46^ENSG00000186106.11" ; gene_name ANKRD46 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164724.3" ; havana_transcript "OTTHUMT00000379900.1" ; hgnc_id "HGNC:27229" ; level 2 ; orig_coord_info "chr8,100529523,100529833,-" ; protein_id "ENSP00000335287.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ANKRD46--STK3^ENST00000335659.7" ; transcript_name "ANKRD46-201" ; transcript_support_level 1 ; transcript_type protein_coding ANKRD46--STK3 HAVANA mRNA 1026 13680 . + . FI_gene_label "ANKRD46^ENSG00000186106.11" ; ID "ANKRD46--STK3^ENST00000335659.7" ; Parent "ANKRD46--STK3^ANKRD46^ENSG00000186106.11" ; ccdsid "CCDS6287.1" ; exon_id "ENSE00001339682.1" ; exon_number 3 ; gene_id "ANKRD46--STK3^ANKRD46^ENSG00000186106.11" ; gene_name ANKRD46 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164724.3" ; havana_transcript "OTTHUMT00000379900.1" ; hgnc_id "HGNC:27229" ; level 2 ; orig_coord_info "chr8,100529523,100529833,-" ; protein_id "ENSP00000335287.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ANKRD46--STK3^ENST00000335659.7" ; transcript_name "ANKRD46-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: ANKRD46--STK3 HAVANA gene 28522 50099 . + . FI_gene_label "STK3^ENSG00000104375.17" ; ID "ANKRD46--STK3^STK3^ENSG00000104375.17" ; ccdsid "CCDS47900.1" ; exon_id "ENSE00001478384.5" ; exon_number 1 ; gene_id "ANKRD46--STK3^STK3^ENSG00000104375.17" ; gene_name STK3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164651.10" ; havana_transcript "OTTHUMT00000379635.3" ; hgnc_id "HGNC:11406" ; level 2 ; orig_coord_info "chr8,98825515,98825540,-" ; protein_id "ENSP00000390500.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ANKRD46--STK3^ENST00000419617.7" ; transcript_name "STK3-201" ; transcript_support_level 1 ; transcript_type protein_coding ANKRD46--STK3 HAVANA mRNA 28522 50099 . + . FI_gene_label "STK3^ENSG00000104375.17" ; ID "ANKRD46--STK3^ENST00000419617.7" ; Parent "ANKRD46--STK3^STK3^ENSG00000104375.17" ; ccdsid "CCDS47900.1" ; exon_id "ENSE00001478384.5" ; exon_number 1 ; gene_id "ANKRD46--STK3^STK3^ENSG00000104375.17" ; gene_name STK3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164651.10" ; havana_transcript "OTTHUMT00000379635.3" ; hgnc_id "HGNC:11406" ; level 2 ; orig_coord_info "chr8,98825515,98825540,-" ; protein_id "ENSP00000390500.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ANKRD46--STK3^ENST00000419617.7" ; transcript_name "STK3-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: ARPC3--LINC02827 HAVANA gene 1086 8970 . + . FI_gene_label "ARPC3^ENSG00000111229.16" ; ID "ARPC3--LINC02827^ARPC3^ENSG00000111229.16" ; ccdsid "CCDS9146.1" ; exon_id "ENSE00001867869.2" ; exon_number 1 ; gene_id "ARPC3--LINC02827^ARPC3^ENSG00000111229.16" ; gene_name ARPC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000134333.5" ; havana_transcript "OTTHUMT00000259487.3" ; hgnc_id "HGNC:706" ; level 2 ; orig_coord_info "chr12,110450255,110450260,-" ; protein_id "ENSP00000228825.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARPC3--LINC02827^ENST00000228825.12" ; transcript_name "ARPC3-201" ; transcript_support_level 1 ; transcript_type protein_coding ARPC3--LINC02827 HAVANA mRNA 1086 8970 . + . FI_gene_label "ARPC3^ENSG00000111229.16" ; ID "ARPC3--LINC02827^ENST00000228825.12" ; Parent "ARPC3--LINC02827^ARPC3^ENSG00000111229.16" ; ccdsid "CCDS9146.1" ; exon_id "ENSE00001867869.2" ; exon_number 1 ; gene_id "ARPC3--LINC02827^ARPC3^ENSG00000111229.16" ; gene_name ARPC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000134333.5" ; havana_transcript "OTTHUMT00000259487.3" ; hgnc_id "HGNC:706" ; level 2 ; orig_coord_info "chr12,110450255,110450260,-" ; protein_id "ENSP00000228825.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARPC3--LINC02827^ENST00000228825.12" ; transcript_name "ARPC3-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: ETV6--RASA3 HAVANA gene 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--RASA3^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--RASA3^ETV6^ENSG00000139083.11" ; gene_name ETV6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168538.3" ; havana_transcript "OTTHUMT00000400134.1" ; hgnc_id "HGNC:3495" ; level 2 ; orig_coord_info "chr12,11885937,11886026,+" ; protein_id "ENSP00000266427.3" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ETV6--RASA3^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding ETV6--RASA3 HAVANA mRNA 13392 15151 . + . FI_gene_label "ETV6^ENSG00000139083.11" ; ID "ETV6--RASA3^ENST00000266427.3" ; Parent "ETV6--RASA3^ETV6^ENSG00000139083.11" ; exon_id "ENSE00002245284.1" ; exon_number 1 ; gene_id "ETV6--RASA3^ETV6^ENSG00000139083.11" ; gene_name ETV6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168538.3" ; havana_transcript "OTTHUMT00000400134.1" ; hgnc_id "HGNC:3495" ; level 2 ; orig_coord_info "chr12,11885937,11886026,+" ; protein_id "ENSP00000266427.3" ; tag mRNA_start_NF cds_start_NF ; transcript_id "ETV6--RASA3^ENST00000266427.3" ; transcript_name "ETV6-201" ; transcript_support_level 3 ; transcript_type protein_coding L1 and L2 created: ETV6--RASA3 HAVANA gene 21919 49165 . + . FI_gene_label "RASA3^ENSG00000185989.11" ; ID "ETV6--RASA3^RASA3^ENSG00000185989.11" ; ccdsid "CCDS32016.1" ; exon_id "ENSE00001912227.2" ; exon_number 1 ; gene_id "ETV6--RASA3^RASA3^ENSG00000185989.11" ; gene_name RASA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017399.4" ; havana_transcript "OTTHUMT00000045957.3" ; hgnc_id "HGNC:20331" ; level 2 ; orig_coord_info "chr13,114132435,114132489,-" ; protein_id "ENSP00000335029.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ETV6--RASA3^ENST00000334062.8" ; transcript_name "RASA3-201" ; transcript_support_level 1 ; transcript_type protein_coding ETV6--RASA3 HAVANA mRNA 21919 49165 . + . FI_gene_label "RASA3^ENSG00000185989.11" ; ID "ETV6--RASA3^ENST00000334062.8" ; Parent "ETV6--RASA3^RASA3^ENSG00000185989.11" ; ccdsid "CCDS32016.1" ; exon_id "ENSE00001912227.2" ; exon_number 1 ; gene_id "ETV6--RASA3^RASA3^ENSG00000185989.11" ; gene_name RASA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017399.4" ; havana_transcript "OTTHUMT00000045957.3" ; hgnc_id "HGNC:20331" ; level 2 ; orig_coord_info "chr13,114132435,114132489,-" ; protein_id "ENSP00000335029.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ETV6--RASA3^ENST00000334062.8" ; transcript_name "RASA3-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: FHOD3--KIAA1328 HAVANA gene 1001 37377 . + . FI_gene_label "FHOD3^ENSG00000134775.15" ; ID "FHOD3--KIAA1328^FHOD3^ENSG00000134775.15" ; ccdsid "CCDS32816.1" ; exon_id "ENSE00003647252.1" ; exon_number 1 ; gene_id "FHOD3--KIAA1328^FHOD3^ENSG00000134775.15" ; gene_name FHOD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182381.5" ; havana_transcript "OTTHUMT00000460885.3" ; hgnc_id "HGNC:26178" ; level 2 ; orig_coord_info "chr18,36297836,36298000,+" ; protein_id "ENSP00000257209.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "FHOD3--KIAA1328^ENST00000257209.8" ; transcript_name "FHOD3-201" ; transcript_support_level 1 ; transcript_type protein_coding FHOD3--KIAA1328 HAVANA mRNA 1001 37377 . + . FI_gene_label "FHOD3^ENSG00000134775.15" ; ID "FHOD3--KIAA1328^ENST00000257209.8" ; Parent "FHOD3--KIAA1328^FHOD3^ENSG00000134775.15" ; ccdsid "CCDS32816.1" ; exon_id "ENSE00003647252.1" ; exon_number 1 ; gene_id "FHOD3--KIAA1328^FHOD3^ENSG00000134775.15" ; gene_name FHOD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182381.5" ; havana_transcript "OTTHUMT00000460885.3" ; hgnc_id "HGNC:26178" ; level 2 ; orig_coord_info "chr18,36297836,36298000,+" ; protein_id "ENSP00000257209.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "FHOD3--KIAA1328^ENST00000257209.8" ; transcript_name "FHOD3-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: FHOD3--KIAA1328 HAVANA gene 40399 66595 . + . FI_gene_label "KIAA1328^ENSG00000150477.15" ; ID "FHOD3--KIAA1328^KIAA1328^ENSG00000150477.15" ; ccdsid "CCDS45855.1" ; exon_id "ENSE00003458646.2" ; exon_number 1 ; gene_id "FHOD3--KIAA1328^KIAA1328^ENSG00000150477.15" ; gene_name KIAA1328 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178087.9" ; havana_transcript "OTTHUMT00000440455.2" ; hgnc_id "HGNC:29248" ; level 2 ; orig_coord_info "chr18,36829139,36829196,+" ; protein_id "ENSP00000280020.5" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "FHOD3--KIAA1328^ENST00000280020.10" ; transcript_name "KIAA1328-201" ; transcript_support_level 1 ; transcript_type protein_coding FHOD3--KIAA1328 HAVANA mRNA 40399 66595 . + . FI_gene_label "KIAA1328^ENSG00000150477.15" ; ID "FHOD3--KIAA1328^ENST00000280020.10" ; Parent "FHOD3--KIAA1328^KIAA1328^ENSG00000150477.15" ; ccdsid "CCDS45855.1" ; exon_id "ENSE00003458646.2" ; exon_number 1 ; gene_id "FHOD3--KIAA1328^KIAA1328^ENSG00000150477.15" ; gene_name KIAA1328 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178087.9" ; havana_transcript "OTTHUMT00000440455.2" ; hgnc_id "HGNC:29248" ; level 2 ; orig_coord_info "chr18,36829139,36829196,+" ; protein_id "ENSP00000280020.5" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "FHOD3--KIAA1328^ENST00000280020.10" ; transcript_name "KIAA1328-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: NR2F6--CILP2 HAVANA gene 1001 7093 . + . FI_gene_label "NR2F6^ENSG00000160113.6" ; ID "NR2F6--CILP2^NR2F6^ENSG00000160113.6" ; ccdsid "CCDS12352.1" ; exon_id "ENSE00001049891.5" ; exon_number 1 ; gene_id "NR2F6--CILP2^NR2F6^ENSG00000160113.6" ; gene_name NR2F6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182728.2" ; havana_transcript "OTTHUMT00000463325.1" ; hgnc_id "HGNC:7977" ; level 2 ; orig_coord_info "chr19,17244943,17245220,-" ; protein_id "ENSP00000291442.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NR2F6--CILP2^ENST00000291442.4" ; transcript_name "NR2F6-201" ; transcript_support_level 1 ; transcript_type protein_coding NR2F6--CILP2 HAVANA mRNA 1001 7093 . + . FI_gene_label "NR2F6^ENSG00000160113.6" ; ID "NR2F6--CILP2^ENST00000291442.4" ; Parent "NR2F6--CILP2^NR2F6^ENSG00000160113.6" ; ccdsid "CCDS12352.1" ; exon_id "ENSE00001049891.5" ; exon_number 1 ; gene_id "NR2F6--CILP2^NR2F6^ENSG00000160113.6" ; gene_name NR2F6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182728.2" ; havana_transcript "OTTHUMT00000463325.1" ; hgnc_id "HGNC:7977" ; level 2 ; orig_coord_info "chr19,17244943,17245220,-" ; protein_id "ENSP00000291442.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NR2F6--CILP2^ENST00000291442.4" ; transcript_name "NR2F6-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: NR2F6--CILP2 HAVANA gene 10111 18112 . + . FI_gene_label "CILP2^ENSG00000160161.9" ; ID "NR2F6--CILP2^CILP2^ENSG00000160161.9" ; ccdsid "CCDS12405.1" ; exon_id "ENSE00003702834.1" ; exon_number 1 ; gene_id "NR2F6--CILP2^CILP2^ENSG00000160161.9" ; gene_name CILP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182148.4" ; havana_transcript "OTTHUMT00000459738.3" ; hgnc_id "HGNC:24213" ; level 2 ; orig_coord_info "chr19,19538350,19538413,+" ; protein_id "ENSP00000291495.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "NR2F6--CILP2^ENST00000291495.5" ; transcript_name "CILP2-201" ; transcript_support_level 1 ; transcript_type protein_coding NR2F6--CILP2 HAVANA mRNA 10111 18112 . + . FI_gene_label "CILP2^ENSG00000160161.9" ; ID "NR2F6--CILP2^ENST00000291495.5" ; Parent "NR2F6--CILP2^CILP2^ENSG00000160161.9" ; ccdsid "CCDS12405.1" ; exon_id "ENSE00003702834.1" ; exon_number 1 ; gene_id "NR2F6--CILP2^CILP2^ENSG00000160161.9" ; gene_name CILP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182148.4" ; havana_transcript "OTTHUMT00000459738.3" ; hgnc_id "HGNC:24213" ; level 2 ; orig_coord_info "chr19,19538350,19538413,+" ; protein_id "ENSP00000291495.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "NR2F6--CILP2^ENST00000291495.5" ; transcript_name "CILP2-201" ; 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: RIOK3--LINC01894 HAVANA gene 1001 14212 . + . FI_gene_label "RIOK3^ENSG00000101782.15" ; ID "RIOK3--LINC01894^RIOK3^ENSG00000101782.15" ; ccdsid "CCDS11877.1" ; exon_id "ENSE00003621281.1" ; exon_number 1 ; gene_id "RIOK3--LINC01894^RIOK3^ENSG00000101782.15" ; gene_name RIOK3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131813.6" ; havana_transcript "OTTHUMT00000254756.2" ; hgnc_id "HGNC:11451" ; level 2 ; orig_coord_info "chr18,23453440,23453502,+" ; protein_id "ENSP00000341874.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "RIOK3--LINC01894^ENST00000339486.8" ; transcript_name "RIOK3-201" ; transcript_support_level 1 ; transcript_type protein_coding RIOK3--LINC01894 HAVANA mRNA 1001 14212 . + . FI_gene_label "RIOK3^ENSG00000101782.15" ; ID "RIOK3--LINC01894^ENST00000339486.8" ; Parent "RIOK3--LINC01894^RIOK3^ENSG00000101782.15" ; ccdsid "CCDS11877.1" ; exon_id "ENSE00003621281.1" ; exon_number 1 ; gene_id "RIOK3--LINC01894^RIOK3^ENSG00000101782.15" ; gene_name RIOK3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131813.6" ; havana_transcript "OTTHUMT00000254756.2" ; hgnc_id "HGNC:11451" ; level 2 ; orig_coord_info "chr18,23453440,23453502,+" ; protein_id "ENSP00000341874.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "RIOK3--LINC01894^ENST00000339486.8" ; transcript_name "RIOK3-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: TAF4B--B4GALT6 HAVANA gene 24252 34007 . + . FI_gene_label "B4GALT6^ENSG00000118276.11" ; ID "TAF4B--B4GALT6^B4GALT6^ENSG00000118276.11" ; ccdsid "CCDS82245.1" ; exon_id "ENSE00001683600.2" ; exon_number 1 ; gene_id "TAF4B--B4GALT6^B4GALT6^ENSG00000118276.11" ; gene_name B4GALT6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131980.4" ; havana_transcript "OTTHUMT00000447517.1" ; hgnc_id "HGNC:929" ; level 1 ; orig_coord_info "chr18,31684312,31684426,-" ; protein_id "ENSP00000237019.7" ; tag basic exp_conf CCDS ; transcript_id "TAF4B--B4GALT6^ENST00000237019.11" ; transcript_name "B4GALT6-201" ; transcript_support_level 1 ; transcript_type protein_coding TAF4B--B4GALT6 HAVANA mRNA 24252 34007 . + . FI_gene_label "B4GALT6^ENSG00000118276.11" ; ID "TAF4B--B4GALT6^ENST00000237019.11" ; Parent "TAF4B--B4GALT6^B4GALT6^ENSG00000118276.11" ; ccdsid "CCDS82245.1" ; exon_id "ENSE00001683600.2" ; exon_number 1 ; gene_id "TAF4B--B4GALT6^B4GALT6^ENSG00000118276.11" ; gene_name B4GALT6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131980.4" ; havana_transcript "OTTHUMT00000447517.1" ; hgnc_id "HGNC:929" ; level 1 ; orig_coord_info "chr18,31684312,31684426,-" ; protein_id "ENSP00000237019.7" ; tag basic exp_conf CCDS ; transcript_id "TAF4B--B4GALT6^ENST00000237019.11" ; transcript_name "B4GALT6-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: TAF4B--B4GALT6 HAVANA gene 1001 19992 . + . FI_gene_label "TAF4B^ENSG00000141384.13" ; ID "TAF4B--B4GALT6^TAF4B^ENSG00000141384.13" ; ccdsid "CCDS42421.1" ; exon_id "ENSE00002711117.2" ; exon_number 1 ; gene_id "TAF4B--B4GALT6^TAF4B^ENSG00000141384.13" ; gene_name TAF4B ; gene_type protein_coding ; havana_gene "OTTHUMG00000179429.3" ; havana_transcript "OTTHUMT00000446260.3" ; hgnc_id "HGNC:11538" ; level 2 ; orig_coord_info "chr18,26226934,26227276,+" ; protein_id "ENSP00000269142.6" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "TAF4B--B4GALT6^ENST00000269142.10" ; transcript_name "TAF4B-201" ; transcript_support_level 1 ; transcript_type protein_coding TAF4B--B4GALT6 HAVANA mRNA 1001 19992 . + . FI_gene_label "TAF4B^ENSG00000141384.13" ; ID "TAF4B--B4GALT6^ENST00000269142.10" ; Parent "TAF4B--B4GALT6^TAF4B^ENSG00000141384.13" ; ccdsid "CCDS42421.1" ; exon_id "ENSE00002711117.2" ; exon_number 1 ; gene_id "TAF4B--B4GALT6^TAF4B^ENSG00000141384.13" ; gene_name TAF4B ; gene_type protein_coding ; havana_gene "OTTHUMG00000179429.3" ; havana_transcript "OTTHUMT00000446260.3" ; hgnc_id "HGNC:11538" ; level 2 ; orig_coord_info "chr18,26226934,26227276,+" ; protein_id "ENSP00000269142.6" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "TAF4B--B4GALT6^ENST00000269142.10" ; transcript_name "TAF4B-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: TLK2--AC240565.1 HAVANA gene 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding TLK2--AC240565.1 HAVANA mRNA 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^ENST00000326270.13" ; Parent "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: UBE2O--AANAT HAVANA gene 17796 25377 . + . FI_gene_label "AANAT^ENSG00000129673.10" ; ID "UBE2O--AANAT^AANAT^ENSG00000129673.10" ; ccdsid "CCDS54169.1" ; exon_id "ENSE00001465636.1" ; exon_number 4 ; gene_id "UBE2O--AANAT^AANAT^ENSG00000129673.10" ; gene_name AANAT ; gene_type protein_coding ; havana_gene "OTTHUMG00000180179.2" ; havana_transcript "OTTHUMT00000450129.1" ; hgnc_id "HGNC:19" ; level 2 ; orig_coord_info "chr17,76466173,76466232,+" ; protein_id "ENSP00000250615.2" ; tag basic appris_alternative_2 CCDS ; transcript_id "UBE2O--AANAT^ENST00000250615.7" ; transcript_name "AANAT-201" ; transcript_support_level 1 ; transcript_type protein_coding UBE2O--AANAT HAVANA mRNA 17796 25377 . + . FI_gene_label "AANAT^ENSG00000129673.10" ; ID "UBE2O--AANAT^ENST00000250615.7" ; Parent "UBE2O--AANAT^AANAT^ENSG00000129673.10" ; ccdsid "CCDS54169.1" ; exon_id "ENSE00001465636.1" ; exon_number 4 ; gene_id "UBE2O--AANAT^AANAT^ENSG00000129673.10" ; gene_name AANAT ; gene_type protein_coding ; havana_gene "OTTHUMG00000180179.2" ; havana_transcript "OTTHUMT00000450129.1" ; hgnc_id "HGNC:19" ; level 2 ; orig_coord_info "chr17,76466173,76466232,+" ; protein_id "ENSP00000250615.2" ; tag basic appris_alternative_2 CCDS ; transcript_id "UBE2O--AANAT^ENST00000250615.7" ; transcript_name "AANAT-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: UBE2O--AANAT HAVANA gene 1001 14795 . + . FI_gene_label "UBE2O^ENSG00000175931.13" ; ID "UBE2O--AANAT^UBE2O^ENSG00000175931.13" ; ccdsid "CCDS32742.1" ; exon_id "ENSE00001259738.6" ; exon_number 1 ; gene_id "UBE2O--AANAT^UBE2O^ENSG00000175931.13" ; gene_name UBE2O ; gene_type protein_coding ; havana_gene "OTTHUMG00000180178.3" ; havana_transcript "OTTHUMT00000450123.2" ; hgnc_id "HGNC:29554" ; level 2 ; orig_coord_info "chr17,76452725,76453141,-" ; protein_id "ENSP00000323687.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBE2O--AANAT^ENST00000319380.12" ; transcript_name "UBE2O-201" ; transcript_support_level 1 ; transcript_type protein_coding UBE2O--AANAT HAVANA mRNA 1001 14795 . + . FI_gene_label "UBE2O^ENSG00000175931.13" ; ID "UBE2O--AANAT^ENST00000319380.12" ; Parent "UBE2O--AANAT^UBE2O^ENSG00000175931.13" ; ccdsid "CCDS32742.1" ; exon_id "ENSE00001259738.6" ; exon_number 1 ; gene_id "UBE2O--AANAT^UBE2O^ENSG00000175931.13" ; gene_name UBE2O ; gene_type protein_coding ; havana_gene "OTTHUMG00000180178.3" ; havana_transcript "OTTHUMT00000450123.2" ; hgnc_id "HGNC:29554" ; level 2 ; orig_coord_info "chr17,76452725,76453141,-" ; protein_id "ENSP00000323687.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBE2O--AANAT^ENST00000319380.12" ; transcript_name "UBE2O-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: UST--TMTC2 HAVANA gene 17888 38089 . + . FI_gene_label "TMTC2^ENSG00000179104.9" ; ID "UST--TMTC2^TMTC2^ENSG00000179104.9" ; ccdsid "CCDS9025.1" ; exon_id "ENSE00003466705.2" ; exon_number 1 ; gene_id "UST--TMTC2^TMTC2^ENSG00000179104.9" ; gene_name TMTC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169736.4" ; havana_transcript "OTTHUMT00000405663.2" ; hgnc_id "HGNC:25440" ; level 2 ; orig_coord_info "chr12,82687587,82687669,+" ; protein_id "ENSP00000322300.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UST--TMTC2^ENST00000321196.8" ; transcript_name "TMTC2-201" ; transcript_support_level 1 ; transcript_type protein_coding UST--TMTC2 HAVANA mRNA 17888 38089 . + . FI_gene_label "TMTC2^ENSG00000179104.9" ; ID "UST--TMTC2^ENST00000321196.8" ; Parent "UST--TMTC2^TMTC2^ENSG00000179104.9" ; ccdsid "CCDS9025.1" ; exon_id "ENSE00003466705.2" ; exon_number 1 ; gene_id "UST--TMTC2^TMTC2^ENSG00000179104.9" ; gene_name TMTC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169736.4" ; havana_transcript "OTTHUMT00000405663.2" ; hgnc_id "HGNC:25440" ; level 2 ; orig_coord_info "chr12,82687587,82687669,+" ; protein_id "ENSP00000322300.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UST--TMTC2^ENST00000321196.8" ; transcript_name "TMTC2-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: UST--TMTC2 HAVANA gene 1001 14861 . + . FI_gene_label "UST^ENSG00000111962.8" ; ID "UST--TMTC2^UST^ENSG00000111962.8" ; ccdsid "CCDS5213.1" ; exon_id "ENSE00001444569.5" ; exon_number 1 ; gene_id "UST--TMTC2^UST^ENSG00000111962.8" ; gene_name UST ; gene_type protein_coding ; havana_gene "OTTHUMG00000016135.2" ; havana_transcript "OTTHUMT00000043363.2" ; hgnc_id "HGNC:17223" ; level 2 ; orig_coord_info "chr6,148747431,148747677,+" ; protein_id "ENSP00000356433.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UST--TMTC2^ENST00000367463.5" ; transcript_name "UST-201" ; transcript_support_level 1 ; transcript_type protein_coding UST--TMTC2 HAVANA mRNA 1001 14861 . + . FI_gene_label "UST^ENSG00000111962.8" ; ID "UST--TMTC2^ENST00000367463.5" ; Parent "UST--TMTC2^UST^ENSG00000111962.8" ; ccdsid "CCDS5213.1" ; exon_id "ENSE00001444569.5" ; exon_number 1 ; gene_id "UST--TMTC2^UST^ENSG00000111962.8" ; gene_name UST ; gene_type protein_coding ; havana_gene "OTTHUMG00000016135.2" ; havana_transcript "OTTHUMT00000043363.2" ; hgnc_id "HGNC:17223" ; level 2 ; orig_coord_info "chr6,148747431,148747677,+" ; protein_id "ENSP00000356433.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UST--TMTC2^ENST00000367463.5" ; transcript_name "UST-201" ; transcript_support_level 1 ; transcript_type protein_coding L1 and L2 created: AC092807.3--DDAH1 HAVANA gene 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA AC092807.3--DDAH1 HAVANA RNA 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^ENST00000467530.5" ; Parent "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA L1 and L2 created: ACTBP6--ACTB HAVANA gene 1001 2090 . + . FI_gene_label "ACTBP6^ENSG00000203413.3" ; ID "ACTBP6--ACTB^ACTBP6^ENSG00000203413.3" ; exon_id "ENSE00002116857.1" ; exon_number 1 ; gene_id "ACTBP6--ACTB^ACTBP6^ENSG00000203413.3" ; gene_name ACTBP6 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164632.2" ; havana_transcript "OTTHUMT00000379462.2" ; hgnc_id "HGNC:139" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,84948585,84949674,+" ; tag pseudo_consens basic ; transcript_id "ACTBP6--ACTB^ENST00000520036.1" ; transcript_name "ACTBP6-201" ; transcript_support_level NA ; transcript_type processed_pseudogene ACTBP6--ACTB HAVANA RNA 1001 2090 . + . FI_gene_label "ACTBP6^ENSG00000203413.3" ; ID "ACTBP6--ACTB^ENST00000520036.1" ; Parent "ACTBP6--ACTB^ACTBP6^ENSG00000203413.3" ; exon_id "ENSE00002116857.1" ; exon_number 1 ; gene_id "ACTBP6--ACTB^ACTBP6^ENSG00000203413.3" ; gene_name ACTBP6 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000164632.2" ; havana_transcript "OTTHUMT00000379462.2" ; hgnc_id "HGNC:139" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr8,84948585,84949674,+" ; tag pseudo_consens basic ; transcript_id "ACTBP6--ACTB^ENST00000520036.1" ; transcript_name "ACTBP6-201" ; transcript_support_level NA ; transcript_type processed_pseudogene L1 and L2 created: AKAP12--PHBP1 HAVANA gene 18090 18897 . + . FI_gene_label "PHBP1^ENSG00000213091.2" ; ID "AKAP12--PHBP1^PHBP1^ENSG00000213091.2" ; exon_id "ENSE00001789791.1" ; exon_number 1 ; gene_id "AKAP12--PHBP1^PHBP1^ENSG00000213091.2" ; gene_name PHBP1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000015817.3" ; havana_transcript "OTTHUMT00000042684.1" ; hgnc_id "HGNC:8913" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr6,150042546,150043353,+" ; tag pseudo_consens basic ; transcript_id "AKAP12--PHBP1^ENST00000392260.2" ; transcript_name "PHBP1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene AKAP12--PHBP1 HAVANA RNA 18090 18897 . + . FI_gene_label "PHBP1^ENSG00000213091.2" ; ID "AKAP12--PHBP1^ENST00000392260.2" ; Parent "AKAP12--PHBP1^PHBP1^ENSG00000213091.2" ; exon_id "ENSE00001789791.1" ; exon_number 1 ; gene_id "AKAP12--PHBP1^PHBP1^ENSG00000213091.2" ; gene_name PHBP1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000015817.3" ; havana_transcript "OTTHUMT00000042684.1" ; hgnc_id "HGNC:8913" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr6,150042546,150043353,+" ; tag pseudo_consens basic ; transcript_id "AKAP12--PHBP1^ENST00000392260.2" ; transcript_name "PHBP1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene L1 and L2 created: ARPC3--LINC02827 HAVANA gene 11971 15974 . + . FI_gene_label "LINC02827^ENSG00000236908.2" ; ID "ARPC3--LINC02827^LINC02827^ENSG00000236908.2" ; exon_id "ENSE00002267328.1" ; exon_number 1 ; gene_id "ARPC3--LINC02827^LINC02827^ENSG00000236908.2" ; gene_name LINC02827 ; gene_type lncRNA ; havana_gene "OTTHUMG00000168182.1" ; havana_transcript "OTTHUMT00000398633.1" ; hgnc_id "HGNC:54358" ; level 2 ; orig_coord_info "chr12,3318718,3319726,+" ; tag basic ; transcript_id "ARPC3--LINC02827^ENST00000432994.2" ; transcript_name "LINC02827-201" ; transcript_support_level 2 ; transcript_type lncRNA ARPC3--LINC02827 HAVANA RNA 11971 15974 . + . FI_gene_label "LINC02827^ENSG00000236908.2" ; ID "ARPC3--LINC02827^ENST00000432994.2" ; Parent "ARPC3--LINC02827^LINC02827^ENSG00000236908.2" ; exon_id "ENSE00002267328.1" ; exon_number 1 ; gene_id "ARPC3--LINC02827^LINC02827^ENSG00000236908.2" ; gene_name LINC02827 ; gene_type lncRNA ; havana_gene "OTTHUMG00000168182.1" ; havana_transcript "OTTHUMT00000398633.1" ; hgnc_id "HGNC:54358" ; level 2 ; orig_coord_info "chr12,3318718,3319726,+" ; tag basic ; transcript_id "ARPC3--LINC02827^ENST00000432994.2" ; transcript_name "LINC02827-201" ; transcript_support_level 2 ; transcript_type lncRNA L1 and L2 created: RIOK3--LINC01894 HAVANA gene 18946 23723 . + . FI_gene_label "LINC01894^ENSG00000264345.2" ; ID "RIOK3--LINC01894^LINC01894^ENSG00000264345.2" ; exon_id "ENSE00002717367.1" ; exon_number 1 ; gene_id "RIOK3--LINC01894^LINC01894^ENSG00000264345.2" ; gene_name LINC01894 ; gene_type lncRNA ; havana_gene "OTTHUMG00000179507.4" ; havana_transcript "OTTHUMT00000446767.1" ; hgnc_id "HGNC:52713" ; level 2 ; orig_coord_info "chr18,24987357,24987682,-" ; transcript_id "RIOK3--LINC01894^ENST00000580984.1" ; transcript_name "LINC01894-201" ; transcript_support_level 2 ; transcript_type lncRNA RIOK3--LINC01894 HAVANA RNA 18946 23723 . + . FI_gene_label "LINC01894^ENSG00000264345.2" ; ID "RIOK3--LINC01894^ENST00000580984.1" ; Parent "RIOK3--LINC01894^LINC01894^ENSG00000264345.2" ; exon_id "ENSE00002717367.1" ; exon_number 1 ; gene_id "RIOK3--LINC01894^LINC01894^ENSG00000264345.2" ; gene_name LINC01894 ; gene_type lncRNA ; havana_gene "OTTHUMG00000179507.4" ; havana_transcript "OTTHUMT00000446767.1" ; hgnc_id "HGNC:52713" ; level 2 ; orig_coord_info "chr18,24987357,24987682,-" ; transcript_id "RIOK3--LINC01894^ENST00000580984.1" ; transcript_name "LINC01894-201" ; transcript_support_level 2 ; transcript_type lncRNA L1 and L2 created: TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA 219 cases fixed where L3 features have parent feature(s) missing ------------------------------ done in 0 seconds ------------------------------- --------------------------- Check5: l1 linked to l2 ---------------------------- No problem found ------------------------------ done in 0 seconds ------------------------------- --------------------------- Check6: remove orphan l1 --------------------------- We remove only those not supposed to be orphan None found ------------------------------ done in 0 seconds ------------------------------- ------------------------- Check7: all level3 locations ------------------------- ------------------------------ done in 0 seconds ------------------------------- ------------------------------ Check8: check cds ------------------------------- No problem found ------------------------------ done in 0 seconds ------------------------------- ----------------------------- Check9: check exons ------------------------------ No exons created No exons locations modified No supernumerary exons removed No level2 locations modified ------------------------------ done in 0 seconds ------------------------------- ----------------------------- Check10: check utrs ------------------------------ 377 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 23 wrong level1 location cases ------------------------------ done in 0 seconds ------------------------------- ---------------------- Check13: remove identical isoforms ---------------------- None found ------------------------------ done in 0 seconds ------------------------------- ------ End checks (done in 0 second) ------ GFF3 file parsed