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: 3207
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 3207
=> 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:3207
=> 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:
AC004951.2--COBL HAVANA gene 8288 39748 . + . FI_gene_label "COBL^ENSG00000106078.19" ; ID "AC004951.2--COBL^COBL^ENSG00000106078.19" ; ccdsid "CCDS34637.1" ; exon_id "ENSE00001957186.2" ; exon_number 1 ; gene_id "AC004951.2--COBL^COBL^ENSG00000106078.19" ; gene_name COBL ; gene_type protein_coding ; havana_gene "OTTHUMG00000155999.7" ; havana_transcript "OTTHUMT00000342682.2" ; hgnc_id "HGNC:22199" ; level 2 ; orig_coord_info "chr7,51316593,51316633,-" ; protein_id "ENSP00000265136.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC004951.2--COBL^ENST00000265136.12" ; transcript_name "COBL-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC004951.2--COBL HAVANA mRNA 8288 39748 . + . FI_gene_label "COBL^ENSG00000106078.19" ; ID "AC004951.2--COBL^ENST00000265136.12" ; Parent "AC004951.2--COBL^COBL^ENSG00000106078.19" ; ccdsid "CCDS34637.1" ; exon_id "ENSE00001957186.2" ; exon_number 1 ; gene_id "AC004951.2--COBL^COBL^ENSG00000106078.19" ; gene_name COBL ; gene_type protein_coding ; havana_gene "OTTHUMG00000155999.7" ; havana_transcript "OTTHUMT00000342682.2" ; hgnc_id "HGNC:22199" ; level 2 ; orig_coord_info "chr7,51316593,51316633,-" ; protein_id "ENSP00000265136.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC004951.2--COBL^ENST00000265136.12" ; transcript_name "COBL-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:
COBL--NPC1L1 HAVANA gene 1010 32470 . + . FI_gene_label "COBL^ENSG00000106078.19" ; ID "COBL--NPC1L1^COBL^ENSG00000106078.19" ; ccdsid "CCDS34637.1" ; exon_id "ENSE00001957186.2" ; exon_number 1 ; gene_id "COBL--NPC1L1^COBL^ENSG00000106078.19" ; gene_name COBL ; gene_type protein_coding ; havana_gene "OTTHUMG00000155999.7" ; havana_transcript "OTTHUMT00000342682.2" ; hgnc_id "HGNC:22199" ; level 2 ; orig_coord_info "chr7,51316593,51316633,-" ; protein_id "ENSP00000265136.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COBL--NPC1L1^ENST00000265136.12" ; transcript_name "COBL-201" ; transcript_support_level 1 ; transcript_type protein_coding
COBL--NPC1L1 HAVANA mRNA 1010 32470 . + . FI_gene_label "COBL^ENSG00000106078.19" ; ID "COBL--NPC1L1^ENST00000265136.12" ; Parent "COBL--NPC1L1^COBL^ENSG00000106078.19" ; ccdsid "CCDS34637.1" ; exon_id "ENSE00001957186.2" ; exon_number 1 ; gene_id "COBL--NPC1L1^COBL^ENSG00000106078.19" ; gene_name COBL ; gene_type protein_coding ; havana_gene "OTTHUMG00000155999.7" ; havana_transcript "OTTHUMT00000342682.2" ; hgnc_id "HGNC:22199" ; level 2 ; orig_coord_info "chr7,51316593,51316633,-" ; protein_id "ENSP00000265136.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "COBL--NPC1L1^ENST00000265136.12" ; transcript_name "COBL-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
COBL--NPC1L1 HAVANA gene 35486 52182 . + . FI_gene_label "NPC1L1^ENSG00000015520.15" ; ID "COBL--NPC1L1^NPC1L1^ENSG00000015520.15" ; ccdsid "CCDS5491.1" ; exon_id "ENSE00000832640.3" ; exon_number 1 ; gene_id "COBL--NPC1L1^NPC1L1^ENSG00000015520.15" ; gene_name NPC1L1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023691.3" ; havana_transcript "OTTHUMT00000251256.1" ; hgnc_id "HGNC:7898" ; level 2 ; orig_coord_info "chr7,44541206,44541259,-" ; protein_id "ENSP00000289547.4" ; tag dotter_confirmed basic appris_alternative_2 CCDS ; transcript_id "COBL--NPC1L1^ENST00000289547.8" ; transcript_name "NPC1L1-201" ; transcript_support_level 1 ; transcript_type protein_coding
COBL--NPC1L1 HAVANA mRNA 35486 52182 . + . FI_gene_label "NPC1L1^ENSG00000015520.15" ; ID "COBL--NPC1L1^ENST00000289547.8" ; Parent "COBL--NPC1L1^NPC1L1^ENSG00000015520.15" ; ccdsid "CCDS5491.1" ; exon_id "ENSE00000832640.3" ; exon_number 1 ; gene_id "COBL--NPC1L1^NPC1L1^ENSG00000015520.15" ; gene_name NPC1L1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023691.3" ; havana_transcript "OTTHUMT00000251256.1" ; hgnc_id "HGNC:7898" ; level 2 ; orig_coord_info "chr7,44541206,44541259,-" ; protein_id "ENSP00000289547.4" ; tag dotter_confirmed basic appris_alternative_2 CCDS ; transcript_id "COBL--NPC1L1^ENST00000289547.8" ; transcript_name "NPC1L1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ENDOV--RNF213 HAVANA gene 20411 41325 . + . FI_gene_label "RNF213^ENSG00000173821.19" ; ID "ENDOV--RNF213^RNF213^ENSG00000173821.19" ; ccdsid "CCDS11772.1" ; exon_id "ENSE00002677982.1" ; exon_number 2 ; gene_id "ENDOV--RNF213^RNF213^ENSG00000173821.19" ; gene_name RNF213 ; gene_type protein_coding ; havana_gene "OTTHUMG00000161415.8" ; havana_transcript "OTTHUMT00000415454.2" ; hgnc_id "HGNC:14539" ; level 2 ; orig_coord_info "chr17,80263682,80263778,+" ; protein_id "ENSP00000324392.4" ; tag basic CCDS ; transcript_id "ENDOV--RNF213^ENST00000319921.4" ; transcript_name "RNF213-201" ; transcript_support_level 1 ; transcript_type protein_coding
ENDOV--RNF213 HAVANA mRNA 20411 41325 . + . FI_gene_label "RNF213^ENSG00000173821.19" ; ID "ENDOV--RNF213^ENST00000319921.4" ; Parent "ENDOV--RNF213^RNF213^ENSG00000173821.19" ; ccdsid "CCDS11772.1" ; exon_id "ENSE00002677982.1" ; exon_number 2 ; gene_id "ENDOV--RNF213^RNF213^ENSG00000173821.19" ; gene_name RNF213 ; gene_type protein_coding ; havana_gene "OTTHUMG00000161415.8" ; havana_transcript "OTTHUMT00000415454.2" ; hgnc_id "HGNC:14539" ; level 2 ; orig_coord_info "chr17,80263682,80263778,+" ; protein_id "ENSP00000324392.4" ; tag basic CCDS ; transcript_id "ENDOV--RNF213^ENST00000319921.4" ; transcript_name "RNF213-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ENDOV--RNF213 HAVANA gene 1020 14452 . + . FI_gene_label "ENDOV^ENSG00000173818.17" ; ID "ENDOV--RNF213^ENDOV^ENSG00000173818.17" ; ccdsid "CCDS54174.1" ; exon_id "ENSE00002258971.1" ; exon_number 1 ; gene_id "ENDOV--RNF213^ENDOV^ENSG00000173818.17" ; gene_name ENDOV ; gene_type protein_coding ; havana_gene "OTTHUMG00000164638.11" ; havana_transcript "OTTHUMT00000379491.1" ; hgnc_id "HGNC:26640" ; level 2 ; orig_coord_info "chr17,80415195,80415250,+" ; protein_id "ENSP00000317810.5" ; tag basic CCDS ; transcript_id "ENDOV--RNF213^ENST00000323854.9" ; transcript_name "ENDOV-201" ; transcript_support_level 1 ; transcript_type protein_coding
ENDOV--RNF213 HAVANA mRNA 1020 14452 . + . FI_gene_label "ENDOV^ENSG00000173818.17" ; ID "ENDOV--RNF213^ENST00000323854.9" ; Parent "ENDOV--RNF213^ENDOV^ENSG00000173818.17" ; ccdsid "CCDS54174.1" ; exon_id "ENSE00002258971.1" ; exon_number 1 ; gene_id "ENDOV--RNF213^ENDOV^ENSG00000173818.17" ; gene_name ENDOV ; gene_type protein_coding ; havana_gene "OTTHUMG00000164638.11" ; havana_transcript "OTTHUMT00000379491.1" ; hgnc_id "HGNC:26640" ; level 2 ; orig_coord_info "chr17,80415195,80415250,+" ; protein_id "ENSP00000317810.5" ; tag basic CCDS ; transcript_id "ENDOV--RNF213^ENST00000323854.9" ; transcript_name "ENDOV-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LANCL2--AC011228.1 HAVANA gene 1001 17845 . + . FI_gene_label "LANCL2^ENSG00000132434.10" ; ID "LANCL2--AC011228.1^LANCL2^ENSG00000132434.10" ; ccdsid "CCDS5517.1" ; exon_id "ENSE00001243070.6" ; exon_number 1 ; gene_id "LANCL2--AC011228.1^LANCL2^ENSG00000132434.10" ; gene_name LANCL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023779.4" ; havana_transcript "OTTHUMT00000251459.1" ; hgnc_id "HGNC:6509" ; level 2 ; orig_coord_info "chr7,55366026,55366229,+" ; protein_id "ENSP00000254770.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LANCL2--AC011228.1^ENST00000254770.3" ; transcript_name "LANCL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
LANCL2--AC011228.1 HAVANA mRNA 1001 17845 . + . FI_gene_label "LANCL2^ENSG00000132434.10" ; ID "LANCL2--AC011228.1^ENST00000254770.3" ; Parent "LANCL2--AC011228.1^LANCL2^ENSG00000132434.10" ; ccdsid "CCDS5517.1" ; exon_id "ENSE00001243070.6" ; exon_number 1 ; gene_id "LANCL2--AC011228.1^LANCL2^ENSG00000132434.10" ; gene_name LANCL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023779.4" ; havana_transcript "OTTHUMT00000251459.1" ; hgnc_id "HGNC:6509" ; level 2 ; orig_coord_info "chr7,55366026,55366229,+" ; protein_id "ENSP00000254770.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LANCL2--AC011228.1^ENST00000254770.3" ; transcript_name "LANCL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LANCL2--RNU6-1125P HAVANA gene 1001 17845 . + . FI_gene_label "LANCL2^ENSG00000132434.10" ; ID "LANCL2--RNU6-1125P^LANCL2^ENSG00000132434.10" ; ccdsid "CCDS5517.1" ; exon_id "ENSE00001243070.6" ; exon_number 1 ; gene_id "LANCL2--RNU6-1125P^LANCL2^ENSG00000132434.10" ; gene_name LANCL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023779.4" ; havana_transcript "OTTHUMT00000251459.1" ; hgnc_id "HGNC:6509" ; level 2 ; orig_coord_info "chr7,55366026,55366229,+" ; protein_id "ENSP00000254770.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LANCL2--RNU6-1125P^ENST00000254770.3" ; transcript_name "LANCL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
LANCL2--RNU6-1125P HAVANA mRNA 1001 17845 . + . FI_gene_label "LANCL2^ENSG00000132434.10" ; ID "LANCL2--RNU6-1125P^ENST00000254770.3" ; Parent "LANCL2--RNU6-1125P^LANCL2^ENSG00000132434.10" ; ccdsid "CCDS5517.1" ; exon_id "ENSE00001243070.6" ; exon_number 1 ; gene_id "LANCL2--RNU6-1125P^LANCL2^ENSG00000132434.10" ; gene_name LANCL2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023779.4" ; havana_transcript "OTTHUMT00000251459.1" ; hgnc_id "HGNC:6509" ; level 2 ; orig_coord_info "chr7,55366026,55366229,+" ; protein_id "ENSP00000254770.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LANCL2--RNU6-1125P^ENST00000254770.3" ; transcript_name "LANCL2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MIR34AHG--QKI HAVANA gene 16346 34146 . + . FI_gene_label "QKI^ENSG00000112531.17" ; ID "MIR34AHG--QKI^QKI^ENSG00000112531.17" ; ccdsid "CCDS5287.1" ; exon_id "ENSE00002239670.1" ; exon_number 1 ; gene_id "MIR34AHG--QKI^QKI^ENSG00000112531.17" ; gene_name QKI ; gene_type protein_coding ; havana_gene "OTTHUMG00000015977.6" ; havana_transcript "OTTHUMT00000043018.2" ; hgnc_id "HGNC:21100" ; level 2 ; orig_coord_info "chr6,163415194,163415335,+" ; protein_id "ENSP00000275262.7" ; tag basic CCDS ; transcript_id "MIR34AHG--QKI^ENST00000275262.11" ; transcript_name "QKI-201" ; transcript_support_level 1 ; transcript_type protein_coding
MIR34AHG--QKI HAVANA mRNA 16346 34146 . + . FI_gene_label "QKI^ENSG00000112531.17" ; ID "MIR34AHG--QKI^ENST00000275262.11" ; Parent "MIR34AHG--QKI^QKI^ENSG00000112531.17" ; ccdsid "CCDS5287.1" ; exon_id "ENSE00002239670.1" ; exon_number 1 ; gene_id "MIR34AHG--QKI^QKI^ENSG00000112531.17" ; gene_name QKI ; gene_type protein_coding ; havana_gene "OTTHUMG00000015977.6" ; havana_transcript "OTTHUMT00000043018.2" ; hgnc_id "HGNC:21100" ; level 2 ; orig_coord_info "chr6,163415194,163415335,+" ; protein_id "ENSP00000275262.7" ; tag basic CCDS ; transcript_id "MIR34AHG--QKI^ENST00000275262.11" ; transcript_name "QKI-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHA13 HAVANA gene 8595 17035 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA3--PCDHA13 HAVANA mRNA 8595 17035 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA3--PCDHA13^ENST00000289272.3" ; Parent "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHA13 HAVANA gene 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHA13^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA3--PCDHA13 HAVANA mRNA 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHA13^ENST00000532566.3" ; Parent "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHA13^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC1 HAVANA gene 8595 18610 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA3--PCDHAC1 HAVANA mRNA 8595 18610 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA3--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC1 HAVANA gene 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC1^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA3--PCDHAC1 HAVANA mRNA 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC1^ENST00000532566.3" ; Parent "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC1^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC2 HAVANA gene 8601 19336 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA3--PCDHAC2 HAVANA mRNA 8601 19336 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA3--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC2 HAVANA gene 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC2^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA3--PCDHAC2 HAVANA mRNA 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC2^ENST00000532566.3" ; Parent "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC2^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHA13 HAVANA gene 14666 23106 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHA13 HAVANA mRNA 14666 23106 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA4--PCDHA13^ENST00000289272.3" ; Parent "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHA13 ENSEMBL gene 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHA13^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHA13 ENSEMBL mRNA 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHA13^ENST00000378125.4" ; Parent "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHA13^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC1 HAVANA gene 14666 24681 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHAC1 HAVANA mRNA 14666 24681 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA4--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC1 ENSEMBL gene 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC1^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHAC1 ENSEMBL mRNA 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC1^ENST00000378125.4" ; Parent "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC1^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC2 HAVANA gene 14672 25407 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHAC2 HAVANA mRNA 14672 25407 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA4--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA4--PCDHAC2 ENSEMBL gene 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC2^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHAC2 ENSEMBL mRNA 1001 3590 . + . FI_gene_label "PCDHA4^ENSG00000204967.12" ; ID "PCDHA4--PCDHAC2^ENST00000378125.4" ; Parent "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; exon_id "ENSE00003735925.1" ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12" ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5" ; hgnc_id "HGNC:8670" ; level 3 ; orig_coord_info "chr5,140806929,140806945,+" ; protein_id "ENSP00000367365.4" ; tag basic ; transcript_id "PCDHA4--PCDHAC2^ENST00000378125.4" ; transcript_name "PCDHA4-201" ; transcript_support_level 5 ; 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:
POLR2J4--UPK3BL1 HAVANA gene 7423 12249 . + . FI_gene_label "UPK3BL1^ENSG00000267368.1" ; ID "POLR2J4--UPK3BL1^UPK3BL1^ENSG00000267368.1" ; ccdsid "CCDS47675.1" ; exon_id "ENSE00001683829.2" ; exon_number 1 ; gene_id "POLR2J4--UPK3BL1^UPK3BL1^ENSG00000267368.1" ; gene_name UPK3BL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165036.2" ; havana_transcript "OTTHUMT00000381510.1" ; hgnc_id "HGNC:37278" ; level 2 ; orig_coord_info "chr7,102642630,102642741,-" ; protein_id "ENSP00000342938.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "POLR2J4--UPK3BL1^ENST00000340457.8" ; transcript_name "UPK3BL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
POLR2J4--UPK3BL1 HAVANA mRNA 7423 12249 . + . FI_gene_label "UPK3BL1^ENSG00000267368.1" ; ID "POLR2J4--UPK3BL1^ENST00000340457.8" ; Parent "POLR2J4--UPK3BL1^UPK3BL1^ENSG00000267368.1" ; ccdsid "CCDS47675.1" ; exon_id "ENSE00001683829.2" ; exon_number 1 ; gene_id "POLR2J4--UPK3BL1^UPK3BL1^ENSG00000267368.1" ; gene_name UPK3BL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165036.2" ; havana_transcript "OTTHUMT00000381510.1" ; hgnc_id "HGNC:37278" ; level 2 ; orig_coord_info "chr7,102642630,102642741,-" ; protein_id "ENSP00000342938.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "POLR2J4--UPK3BL1^ENST00000340457.8" ; transcript_name "UPK3BL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PPDPF--SDC3 HAVANA gene 9442 17752 . + . FI_gene_label "SDC3^ENSG00000162512.16" ; ID "PPDPF--SDC3^SDC3^ENSG00000162512.16" ; exon_id "ENSE00001909382.1" ; exon_number 1 ; gene_id "PPDPF--SDC3^SDC3^ENSG00000162512.16" ; gene_name SDC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000043646.2" ; havana_transcript "OTTHUMT00000102016.1" ; hgnc_id "HGNC:10660" ; level 2 ; orig_coord_info "chr1,30876552,30877247,-" ; protein_id "ENSP00000338346.7" ; tag basic appris_alternative_2 ; transcript_id "PPDPF--SDC3^ENST00000336798.11" ; transcript_name "SDC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PPDPF--SDC3 HAVANA mRNA 9442 17752 . + . FI_gene_label "SDC3^ENSG00000162512.16" ; ID "PPDPF--SDC3^ENST00000336798.11" ; Parent "PPDPF--SDC3^SDC3^ENSG00000162512.16" ; exon_id "ENSE00001909382.1" ; exon_number 1 ; gene_id "PPDPF--SDC3^SDC3^ENSG00000162512.16" ; gene_name SDC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000043646.2" ; havana_transcript "OTTHUMT00000102016.1" ; hgnc_id "HGNC:10660" ; level 2 ; orig_coord_info "chr1,30876552,30877247,-" ; protein_id "ENSP00000338346.7" ; tag basic appris_alternative_2 ; transcript_id "PPDPF--SDC3^ENST00000336798.11" ; transcript_name "SDC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PPDPF--SDC3 HAVANA gene 1011 2174 . + . FI_gene_label "PPDPF^ENSG00000125534.10" ; ID "PPDPF--SDC3^PPDPF^ENSG00000125534.10" ; exon_id "ENSE00001452015.1" ; exon_number 2 ; gene_id "PPDPF--SDC3^PPDPF^ENSG00000125534.10" ; gene_name PPDPF ; gene_type protein_coding ; havana_gene "OTTHUMG00000032978.2" ; havana_transcript "OTTHUMT00000080152.1" ; hgnc_id "HGNC:16142" ; level 2 ; orig_coord_info "chr20,63521309,63521363,+" ; protein_id "ENSP00000359196.1" ; tag basic ; transcript_id "PPDPF--SDC3^ENST00000370177.1" ; transcript_name "PPDPF-201" ; transcript_support_level 2 ; transcript_type protein_coding
PPDPF--SDC3 HAVANA mRNA 1011 2174 . + . FI_gene_label "PPDPF^ENSG00000125534.10" ; ID "PPDPF--SDC3^ENST00000370177.1" ; Parent "PPDPF--SDC3^PPDPF^ENSG00000125534.10" ; exon_id "ENSE00001452015.1" ; exon_number 2 ; gene_id "PPDPF--SDC3^PPDPF^ENSG00000125534.10" ; gene_name PPDPF ; gene_type protein_coding ; havana_gene "OTTHUMG00000032978.2" ; havana_transcript "OTTHUMT00000080152.1" ; hgnc_id "HGNC:16142" ; level 2 ; orig_coord_info "chr20,63521309,63521363,+" ; protein_id "ENSP00000359196.1" ; tag basic ; transcript_id "PPDPF--SDC3^ENST00000370177.1" ; transcript_name "PPDPF-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
RERE--CAMTA1 HAVANA gene 46536 83283 . + . FI_gene_label "CAMTA1^ENSG00000171735.19" ; ID "RERE--CAMTA1^CAMTA1^ENSG00000171735.19" ; ccdsid "CCDS30576.1" ; exon_id "ENSE00001294168.3" ; exon_number 1 ; gene_id "RERE--CAMTA1^CAMTA1^ENSG00000171735.19" ; gene_name CAMTA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000001212.7" ; havana_transcript "OTTHUMT00000003588.5" ; hgnc_id "HGNC:18806" ; level 2 ; orig_coord_info "chr1,6785531,6785575,+" ; protein_id "ENSP00000306522.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RERE--CAMTA1^ENST00000303635.12" ; transcript_name "CAMTA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
RERE--CAMTA1 HAVANA mRNA 46536 83283 . + . FI_gene_label "CAMTA1^ENSG00000171735.19" ; ID "RERE--CAMTA1^ENST00000303635.12" ; Parent "RERE--CAMTA1^CAMTA1^ENSG00000171735.19" ; ccdsid "CCDS30576.1" ; exon_id "ENSE00001294168.3" ; exon_number 1 ; gene_id "RERE--CAMTA1^CAMTA1^ENSG00000171735.19" ; gene_name CAMTA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000001212.7" ; havana_transcript "OTTHUMT00000003588.5" ; hgnc_id "HGNC:18806" ; level 2 ; orig_coord_info "chr1,6785531,6785575,+" ; protein_id "ENSP00000306522.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RERE--CAMTA1^ENST00000303635.12" ; transcript_name "CAMTA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RERE--CAMTA1 HAVANA gene 4257 43535 . + . FI_gene_label "RERE^ENSG00000142599.19" ; ID "RERE--CAMTA1^RERE^ENSG00000142599.19" ; ccdsid "CCDS95.1" ; exon_id "ENSE00003476162.1" ; exon_number 3 ; gene_id "RERE--CAMTA1^RERE^ENSG00000142599.19" ; gene_name RERE ; gene_type protein_coding ; havana_gene "OTTHUMG00000001765.9" ; havana_transcript "OTTHUMT00000004916.1" ; hgnc_id "HGNC:9965" ; level 2 ; orig_coord_info "chr1,8655973,8656297,-" ; protein_id "ENSP00000338629.3" ; tag basic appris_principal_1 CCDS ; transcript_id "RERE--CAMTA1^ENST00000337907.7" ; transcript_name "RERE-201" ; transcript_support_level 1 ; transcript_type protein_coding
RERE--CAMTA1 HAVANA mRNA 4257 43535 . + . FI_gene_label "RERE^ENSG00000142599.19" ; ID "RERE--CAMTA1^ENST00000337907.7" ; Parent "RERE--CAMTA1^RERE^ENSG00000142599.19" ; ccdsid "CCDS95.1" ; exon_id "ENSE00003476162.1" ; exon_number 3 ; gene_id "RERE--CAMTA1^RERE^ENSG00000142599.19" ; gene_name RERE ; gene_type protein_coding ; havana_gene "OTTHUMG00000001765.9" ; havana_transcript "OTTHUMT00000004916.1" ; hgnc_id "HGNC:9965" ; level 2 ; orig_coord_info "chr1,8655973,8656297,-" ; protein_id "ENSP00000338629.3" ; tag basic appris_principal_1 CCDS ; transcript_id "RERE--CAMTA1^ENST00000337907.7" ; transcript_name "RERE-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
YARS1--CDC45 HAVANA gene 22368 38901 . + . FI_gene_label "CDC45^ENSG00000093009.11" ; ID "YARS1--CDC45^CDC45^ENSG00000093009.11" ; ccdsid "CCDS13762.1" ; exon_id "ENSE00003890102.2" ; exon_number 1 ; gene_id "YARS1--CDC45^CDC45^ENSG00000093009.11" ; gene_name CDC45 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150386.3" ; havana_transcript "OTTHUMT00000317903.2" ; hgnc_id "HGNC:1739" ; level 2 ; orig_coord_info "chr22,19479969,19480019,+" ; protein_id "ENSP00000263201.2" ; tag CAGE_supported_TSS basic MANE_Select appris_principal_1 CCDS ; transcript_id "YARS1--CDC45^ENST00000263201.7" ; transcript_name "CDC45-201" ; transcript_support_level 1 ; transcript_type protein_coding
YARS1--CDC45 HAVANA mRNA 22368 38901 . + . FI_gene_label "CDC45^ENSG00000093009.11" ; ID "YARS1--CDC45^ENST00000263201.7" ; Parent "YARS1--CDC45^CDC45^ENSG00000093009.11" ; ccdsid "CCDS13762.1" ; exon_id "ENSE00003890102.2" ; exon_number 1 ; gene_id "YARS1--CDC45^CDC45^ENSG00000093009.11" ; gene_name CDC45 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150386.3" ; havana_transcript "OTTHUMT00000317903.2" ; hgnc_id "HGNC:1739" ; level 2 ; orig_coord_info "chr22,19479969,19480019,+" ; protein_id "ENSP00000263201.2" ; tag CAGE_supported_TSS basic MANE_Select appris_principal_1 CCDS ; transcript_id "YARS1--CDC45^ENST00000263201.7" ; transcript_name "CDC45-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
YARS1--CDC45 HAVANA gene 1023 18902 . + . FI_gene_label "YARS1^ENSG00000134684.12" ; ID "YARS1--CDC45^YARS1^ENSG00000134684.12" ; ccdsid "CCDS368.1" ; exon_id "ENSE00001460665.4" ; exon_number 1 ; gene_id "YARS1--CDC45^YARS1^ENSG00000134684.12" ; gene_name YARS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000003933.2" ; havana_transcript "OTTHUMT00000011225.1" ; hgnc_id "HGNC:12840" ; level 2 ; orig_coord_info "chr1,32817188,32817244,-" ; protein_id "ENSP00000362576.4" ; tag basic appris_principal_1 CCDS ; transcript_id "YARS1--CDC45^ENST00000373477.9" ; transcript_name "YARS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
YARS1--CDC45 HAVANA mRNA 1023 18902 . + . FI_gene_label "YARS1^ENSG00000134684.12" ; ID "YARS1--CDC45^ENST00000373477.9" ; Parent "YARS1--CDC45^YARS1^ENSG00000134684.12" ; ccdsid "CCDS368.1" ; exon_id "ENSE00001460665.4" ; exon_number 1 ; gene_id "YARS1--CDC45^YARS1^ENSG00000134684.12" ; gene_name YARS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000003933.2" ; havana_transcript "OTTHUMT00000011225.1" ; hgnc_id "HGNC:12840" ; level 2 ; orig_coord_info "chr1,32817188,32817244,-" ; protein_id "ENSP00000362576.4" ; tag basic appris_principal_1 CCDS ; transcript_id "YARS1--CDC45^ENST00000373477.9" ; transcript_name "YARS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
YKT6--COBL HAVANA gene 1020 12008 . + . FI_gene_label "YKT6^ENSG00000106636.9" ; ID "YKT6--COBL^YKT6^ENSG00000106636.9" ; ccdsid "CCDS5482.1" ; exon_id "ENSE00001943685.2" ; exon_number 1 ; gene_id "YKT6--COBL^YKT6^ENSG00000106636.9" ; gene_name YKT6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129089.4" ; havana_transcript "OTTHUMT00000251125.3" ; hgnc_id "HGNC:16959" ; level 2 ; orig_coord_info "chr7,44201136,44201239,+" ; protein_id "ENSP00000223369.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "YKT6--COBL^ENST00000223369.3" ; transcript_name "YKT6-201" ; transcript_support_level 1 ; transcript_type protein_coding
YKT6--COBL HAVANA mRNA 1020 12008 . + . FI_gene_label "YKT6^ENSG00000106636.9" ; ID "YKT6--COBL^ENST00000223369.3" ; Parent "YKT6--COBL^YKT6^ENSG00000106636.9" ; ccdsid "CCDS5482.1" ; exon_id "ENSE00001943685.2" ; exon_number 1 ; gene_id "YKT6--COBL^YKT6^ENSG00000106636.9" ; gene_name YKT6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129089.4" ; havana_transcript "OTTHUMT00000251125.3" ; hgnc_id "HGNC:16959" ; level 2 ; orig_coord_info "chr7,44201136,44201239,+" ; protein_id "ENSP00000223369.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "YKT6--COBL^ENST00000223369.3" ; transcript_name "YKT6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
YKT6--COBL HAVANA gene 15018 46478 . + . FI_gene_label "COBL^ENSG00000106078.19" ; ID "YKT6--COBL^COBL^ENSG00000106078.19" ; ccdsid "CCDS34637.1" ; exon_id "ENSE00001957186.2" ; exon_number 1 ; gene_id "YKT6--COBL^COBL^ENSG00000106078.19" ; gene_name COBL ; gene_type protein_coding ; havana_gene "OTTHUMG00000155999.7" ; havana_transcript "OTTHUMT00000342682.2" ; hgnc_id "HGNC:22199" ; level 2 ; orig_coord_info "chr7,51316593,51316633,-" ; protein_id "ENSP00000265136.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "YKT6--COBL^ENST00000265136.12" ; transcript_name "COBL-201" ; transcript_support_level 1 ; transcript_type protein_coding
YKT6--COBL HAVANA mRNA 15018 46478 . + . FI_gene_label "COBL^ENSG00000106078.19" ; ID "YKT6--COBL^ENST00000265136.12" ; Parent "YKT6--COBL^COBL^ENSG00000106078.19" ; ccdsid "CCDS34637.1" ; exon_id "ENSE00001957186.2" ; exon_number 1 ; gene_id "YKT6--COBL^COBL^ENSG00000106078.19" ; gene_name COBL ; gene_type protein_coding ; havana_gene "OTTHUMG00000155999.7" ; havana_transcript "OTTHUMT00000342682.2" ; hgnc_id "HGNC:22199" ; level 2 ; orig_coord_info "chr7,51316593,51316633,-" ; protein_id "ENSP00000265136.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "YKT6--COBL^ENST00000265136.12" ; transcript_name "COBL-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC004951.2--COBL HAVANA gene 1001 5278 . + . FI_gene_label "AC004951.2^ENSG00000239556.4" ; ID "AC004951.2--COBL^AC004951.2^ENSG00000239556.4" ; exon_id "ENSE00001741837.2" ; exon_number 1 ; gene_id "AC004951.2--COBL^AC004951.2^ENSG00000239556.4" ; gene_name "AC004951.2" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000155269.4" ; havana_transcript "OTTHUMT00000339267.4" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr7,43990095,43990207,-" ; tag basic ; transcript_id "AC004951.2--COBL^ENST00000420754.4" ; transcript_name "AC004951.2-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
AC004951.2--COBL HAVANA RNA 1001 5278 . + . FI_gene_label "AC004951.2^ENSG00000239556.4" ; ID "AC004951.2--COBL^ENST00000420754.4" ; Parent "AC004951.2--COBL^AC004951.2^ENSG00000239556.4" ; exon_id "ENSE00001741837.2" ; exon_number 1 ; gene_id "AC004951.2--COBL^AC004951.2^ENSG00000239556.4" ; gene_name "AC004951.2" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000155269.4" ; havana_transcript "OTTHUMT00000339267.4" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr7,43990095,43990207,-" ; tag basic ; transcript_id "AC004951.2--COBL^ENST00000420754.4" ; transcript_name "AC004951.2-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
LANCL2--AC011228.1 HAVANA gene 20846 22602 . + . FI_gene_label "AC011228.1^ENSG00000228735.1" ; ID "LANCL2--AC011228.1^AC011228.1^ENSG00000228735.1" ; exon_id "ENSE00001625711.1" ; exon_number 1 ; gene_id "LANCL2--AC011228.1^AC011228.1^ENSG00000228735.1" ; gene_name "AC011228.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000156065.1" ; havana_transcript "OTTHUMT00000342910.1" ; level 2 ; orig_coord_info "chr7,54578280,54578794,-" ; tag basic ; transcript_id "LANCL2--AC011228.1^ENST00000439027.1" ; transcript_name "AC011228.1-201" ; transcript_support_level 1 ; transcript_type lncRNA
LANCL2--AC011228.1 HAVANA RNA 20846 22602 . + . FI_gene_label "AC011228.1^ENSG00000228735.1" ; ID "LANCL2--AC011228.1^ENST00000439027.1" ; Parent "LANCL2--AC011228.1^AC011228.1^ENSG00000228735.1" ; exon_id "ENSE00001625711.1" ; exon_number 1 ; gene_id "LANCL2--AC011228.1^AC011228.1^ENSG00000228735.1" ; gene_name "AC011228.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000156065.1" ; havana_transcript "OTTHUMT00000342910.1" ; level 2 ; orig_coord_info "chr7,54578280,54578794,-" ; tag basic ; transcript_id "LANCL2--AC011228.1^ENST00000439027.1" ; transcript_name "AC011228.1-201" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
LANCL2--RNU6-1125P ENSEMBL gene 20846 20952 . + . FI_gene_label "RNU6-1125P^ENSG00000200471.1" ; ID "LANCL2--RNU6-1125P^RNU6-1125P^ENSG00000200471.1" ; exon_id "ENSE00001807763.1" ; exon_number 1 ; gene_id "LANCL2--RNU6-1125P^RNU6-1125P^ENSG00000200471.1" ; gene_name "RNU6-1125P" ; gene_type snRNA ; hgnc_id "HGNC:48088" ; level 3 ; orig_coord_info "chr7,54621025,54621131,+" ; tag basic ; transcript_id "LANCL2--RNU6-1125P^ENST00000363601.1" ; transcript_name "RNU6-1125P-201" ; transcript_support_level NA ; transcript_type snRNA
LANCL2--RNU6-1125P ENSEMBL RNA 20846 20952 . + . FI_gene_label "RNU6-1125P^ENSG00000200471.1" ; ID "LANCL2--RNU6-1125P^ENST00000363601.1" ; Parent "LANCL2--RNU6-1125P^RNU6-1125P^ENSG00000200471.1" ; exon_id "ENSE00001807763.1" ; exon_number 1 ; gene_id "LANCL2--RNU6-1125P^RNU6-1125P^ENSG00000200471.1" ; gene_name "RNU6-1125P" ; gene_type snRNA ; hgnc_id "HGNC:48088" ; level 3 ; orig_coord_info "chr7,54621025,54621131,+" ; tag basic ; transcript_id "LANCL2--RNU6-1125P^ENST00000363601.1" ; transcript_name "RNU6-1125P-201" ; transcript_support_level NA ; transcript_type snRNA
L1 and L2 created:
MIR34AHG--QKI HAVANA gene 3996 5501 . + . FI_gene_label "MIR34AHG^ENSG00000228526.7" ; ID "MIR34AHG--QKI^MIR34AHG^ENSG00000228526.7" ; exon_id "ENSE00001670416.1" ; exon_number 1 ; gene_id "MIR34AHG--QKI^MIR34AHG^ENSG00000228526.7" ; gene_name MIR34AHG ; gene_type lncRNA ; havana_gene "OTTHUMG00000001762.6" ; havana_transcript "OTTHUMT00000487981.2" ; hgnc_id "HGNC:51913" ; level 2 ; orig_coord_info "chr1,9183631,9183750,-" ; transcript_id "MIR34AHG--QKI^ENST00000437157.3" ; transcript_name "MIR34AHG-201" ; transcript_support_level 5 ; transcript_type lncRNA
MIR34AHG--QKI HAVANA RNA 3996 5501 . + . FI_gene_label "MIR34AHG^ENSG00000228526.7" ; ID "MIR34AHG--QKI^ENST00000437157.3" ; Parent "MIR34AHG--QKI^MIR34AHG^ENSG00000228526.7" ; exon_id "ENSE00001670416.1" ; exon_number 1 ; gene_id "MIR34AHG--QKI^MIR34AHG^ENSG00000228526.7" ; gene_name MIR34AHG ; gene_type lncRNA ; havana_gene "OTTHUMG00000001762.6" ; havana_transcript "OTTHUMT00000487981.2" ; hgnc_id "HGNC:51913" ; level 2 ; orig_coord_info "chr1,9183631,9183750,-" ; transcript_id "MIR34AHG--QKI^ENST00000437157.3" ; transcript_name "MIR34AHG-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
POLR2J4--UPK3BL1 HAVANA gene 1001 4422 . + . FI_gene_label "POLR2J4^ENSG00000272655.2" ; ID "POLR2J4--UPK3BL1^POLR2J4^ENSG00000272655.2" ; exon_id "ENSE00001746198.1" ; exon_number 1 ; gene_id "POLR2J4--UPK3BL1^POLR2J4^ENSG00000272655.2" ; gene_name POLR2J4 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000155253.4" ; havana_transcript "OTTHUMT00000339134.1" ; hgnc_id "HGNC:28195" ; level 2 ; orig_coord_info "chr7,44019061,44019170,-" ; tag basic ; transcript_id "POLR2J4--UPK3BL1^ENST00000326391.6" ; transcript_name "POLR2J4-203" ; transcript_support_level 1 ; transcript_type processed_transcript
POLR2J4--UPK3BL1 HAVANA RNA 1001 4422 . + . FI_gene_label "POLR2J4^ENSG00000272655.2" ; ID "POLR2J4--UPK3BL1^ENST00000326391.6" ; Parent "POLR2J4--UPK3BL1^POLR2J4^ENSG00000272655.2" ; exon_id "ENSE00001746198.1" ; exon_number 1 ; gene_id "POLR2J4--UPK3BL1^POLR2J4^ENSG00000272655.2" ; gene_name POLR2J4 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000155253.4" ; havana_transcript "OTTHUMT00000339134.1" ; hgnc_id "HGNC:28195" ; level 2 ; orig_coord_info "chr7,44019061,44019170,-" ; tag basic ; transcript_id "POLR2J4--UPK3BL1^ENST00000326391.6" ; transcript_name "POLR2J4-203" ; transcript_support_level 1 ; transcript_type processed_transcript
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
TLK2P1--AC110079.1 HAVANA RNA 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^ENST00000530992.1" ; Parent "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
TLK2P1--AC110079.1 HAVANA RNA 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^ENST00000567913.2" ; Parent "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
300 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 ------------------------------
528 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 0 second) ------
GFF3 file parsed