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: 3497
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 3497
=> 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:3497
=> 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:
CHD6--DHX35 HAVANA gene 51308 76692 . + . FI_gene_label "DHX35^ENSG00000101452.15" ; ID "CHD6--DHX35^DHX35^ENSG00000101452.15" ; ccdsid "CCDS13310.1" ; exon_id "ENSE00002216121.2" ; exon_number 1 ; gene_id "CHD6--DHX35^DHX35^ENSG00000101452.15" ; gene_name DHX35 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032463.9" ; havana_transcript "OTTHUMT00000079212.3" ; hgnc_id "HGNC:15861" ; level 2 ; orig_coord_info "chr20,38962368,38962407,+" ; protein_id "ENSP00000252011.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CHD6--DHX35^ENST00000252011.8" ; transcript_name "DHX35-201" ; transcript_support_level 1 ; transcript_type protein_coding
CHD6--DHX35 HAVANA mRNA 51308 76692 . + . FI_gene_label "DHX35^ENSG00000101452.15" ; ID "CHD6--DHX35^ENST00000252011.8" ; Parent "CHD6--DHX35^DHX35^ENSG00000101452.15" ; ccdsid "CCDS13310.1" ; exon_id "ENSE00002216121.2" ; exon_number 1 ; gene_id "CHD6--DHX35^DHX35^ENSG00000101452.15" ; gene_name DHX35 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032463.9" ; havana_transcript "OTTHUMT00000079212.3" ; hgnc_id "HGNC:15861" ; level 2 ; orig_coord_info "chr20,38962368,38962407,+" ; protein_id "ENSP00000252011.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CHD6--DHX35^ENST00000252011.8" ; transcript_name "DHX35-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CHD6--DHX35 HAVANA gene 1010 11607 . + . FI_gene_label "CHD6^ENSG00000124177.16" ; ID "CHD6--DHX35^CHD6^ENSG00000124177.16" ; exon_id "ENSE00001459809.1" ; exon_number 2 ; gene_id "CHD6--DHX35^CHD6^ENSG00000124177.16" ; gene_name CHD6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032487.4" ; havana_transcript "OTTHUMT00000079275.1" ; hgnc_id "HGNC:19057" ; level 2 ; orig_coord_info "chr20,41564011,41564148,-" ; protein_id "ENSP00000362319.3" ; tag basic ; transcript_id "CHD6--DHX35^ENST00000373222.3" ; transcript_name "CHD6-201" ; transcript_support_level 1 ; transcript_type protein_coding
CHD6--DHX35 HAVANA mRNA 1010 11607 . + . FI_gene_label "CHD6^ENSG00000124177.16" ; ID "CHD6--DHX35^ENST00000373222.3" ; Parent "CHD6--DHX35^CHD6^ENSG00000124177.16" ; exon_id "ENSE00001459809.1" ; exon_number 2 ; gene_id "CHD6--DHX35^CHD6^ENSG00000124177.16" ; gene_name CHD6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032487.4" ; havana_transcript "OTTHUMT00000079275.1" ; hgnc_id "HGNC:19057" ; level 2 ; orig_coord_info "chr20,41564011,41564148,-" ; protein_id "ENSP00000362319.3" ; tag basic ; transcript_id "CHD6--DHX35^ENST00000373222.3" ; transcript_name "CHD6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CHD6--LINC01734 HAVANA gene 1010 11607 . + . FI_gene_label "CHD6^ENSG00000124177.16" ; ID "CHD6--LINC01734^CHD6^ENSG00000124177.16" ; exon_id "ENSE00001459809.1" ; exon_number 2 ; gene_id "CHD6--LINC01734^CHD6^ENSG00000124177.16" ; gene_name CHD6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032487.4" ; havana_transcript "OTTHUMT00000079275.1" ; hgnc_id "HGNC:19057" ; level 2 ; orig_coord_info "chr20,41564011,41564148,-" ; protein_id "ENSP00000362319.3" ; tag basic ; transcript_id "CHD6--LINC01734^ENST00000373222.3" ; transcript_name "CHD6-201" ; transcript_support_level 1 ; transcript_type protein_coding
CHD6--LINC01734 HAVANA mRNA 1010 11607 . + . FI_gene_label "CHD6^ENSG00000124177.16" ; ID "CHD6--LINC01734^ENST00000373222.3" ; Parent "CHD6--LINC01734^CHD6^ENSG00000124177.16" ; exon_id "ENSE00001459809.1" ; exon_number 2 ; gene_id "CHD6--LINC01734^CHD6^ENSG00000124177.16" ; gene_name CHD6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032487.4" ; havana_transcript "OTTHUMT00000079275.1" ; hgnc_id "HGNC:19057" ; level 2 ; orig_coord_info "chr20,41564011,41564148,-" ; protein_id "ENSP00000362319.3" ; tag basic ; transcript_id "CHD6--LINC01734^ENST00000373222.3" ; transcript_name "CHD6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
FSIP1--AC013652.1 HAVANA gene 1001 15962 . + . FI_gene_label "FSIP1^ENSG00000150667.8" ; ID "FSIP1--AC013652.1^FSIP1^ENSG00000150667.8" ; ccdsid "CCDS10050.1" ; exon_id "ENSE00003574039.1" ; exon_number 2 ; gene_id "FSIP1--AC013652.1^FSIP1^ENSG00000150667.8" ; gene_name FSIP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000172456.3" ; havana_transcript "OTTHUMT00000252118.4" ; hgnc_id "HGNC:21674" ; level 2 ; orig_coord_info "chr15,39776399,39776524,-" ; protein_id "ENSP00000280236.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "FSIP1--AC013652.1^ENST00000350221.4" ; transcript_name "FSIP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
FSIP1--AC013652.1 HAVANA mRNA 1001 15962 . + . FI_gene_label "FSIP1^ENSG00000150667.8" ; ID "FSIP1--AC013652.1^ENST00000350221.4" ; Parent "FSIP1--AC013652.1^FSIP1^ENSG00000150667.8" ; ccdsid "CCDS10050.1" ; exon_id "ENSE00003574039.1" ; exon_number 2 ; gene_id "FSIP1--AC013652.1^FSIP1^ENSG00000150667.8" ; gene_name FSIP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000172456.3" ; havana_transcript "OTTHUMT00000252118.4" ; hgnc_id "HGNC:21674" ; level 2 ; orig_coord_info "chr15,39776399,39776524,-" ; protein_id "ENSP00000280236.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "FSIP1--AC013652.1^ENST00000350221.4" ; transcript_name "FSIP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
INPP5A--AL596223.1 HAVANA gene 2397 15201 . + . FI_gene_label "INPP5A^ENSG00000068383.19" ; ID "INPP5A--AL596223.1^INPP5A^ENSG00000068383.19" ; exon_id "ENSE00001635546.1" ; exon_number 1 ; gene_id "INPP5A--AL596223.1^INPP5A^ENSG00000068383.19" ; gene_name INPP5A ; gene_type protein_coding ; havana_gene "OTTHUMG00000019293.6" ; havana_transcript "OTTHUMT00000051087.2" ; hgnc_id "HGNC:6076" ; level 2 ; orig_coord_info "chr10,132607926,132607956,+" ; protein_id "ENSP00000340707.6" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "INPP5A--AL596223.1^ENST00000342652.6" ; transcript_name "INPP5A-201" ; transcript_support_level 5 ; transcript_type protein_coding
INPP5A--AL596223.1 HAVANA mRNA 2397 15201 . + . FI_gene_label "INPP5A^ENSG00000068383.19" ; ID "INPP5A--AL596223.1^ENST00000342652.6" ; Parent "INPP5A--AL596223.1^INPP5A^ENSG00000068383.19" ; exon_id "ENSE00001635546.1" ; exon_number 1 ; gene_id "INPP5A--AL596223.1^INPP5A^ENSG00000068383.19" ; gene_name INPP5A ; gene_type protein_coding ; havana_gene "OTTHUMG00000019293.6" ; havana_transcript "OTTHUMT00000051087.2" ; hgnc_id "HGNC:6076" ; level 2 ; orig_coord_info "chr10,132607926,132607956,+" ; protein_id "ENSP00000340707.6" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "INPP5A--AL596223.1^ENST00000342652.6" ; transcript_name "INPP5A-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
ITCH--PHF20 HAVANA gene 1072 35781 . + . FI_gene_label "ITCH^ENSG00000078747.16" ; ID "ITCH--PHF20^ITCH^ENSG00000078747.16" ; ccdsid "CCDS58768.1" ; exon_id "ENSE00003669122.1" ; exon_number 3 ; gene_id "ITCH--PHF20^ITCH^ENSG00000078747.16" ; gene_name ITCH ; gene_type protein_coding ; havana_gene "OTTHUMG00000032300.6" ; havana_transcript "OTTHUMT00000078783.2" ; hgnc_id "HGNC:13890" ; level 2 ; orig_coord_info "chr20,34393812,34393881,+" ; protein_id "ENSP00000262650.5" ; tag basic CCDS ; transcript_id "ITCH--PHF20^ENST00000262650.10" ; transcript_name "ITCH-201" ; transcript_support_level 1 ; transcript_type protein_coding
ITCH--PHF20 HAVANA mRNA 1072 35781 . + . FI_gene_label "ITCH^ENSG00000078747.16" ; ID "ITCH--PHF20^ENST00000262650.10" ; Parent "ITCH--PHF20^ITCH^ENSG00000078747.16" ; ccdsid "CCDS58768.1" ; exon_id "ENSE00003669122.1" ; exon_number 3 ; gene_id "ITCH--PHF20^ITCH^ENSG00000078747.16" ; gene_name ITCH ; gene_type protein_coding ; havana_gene "OTTHUMG00000032300.6" ; havana_transcript "OTTHUMT00000078783.2" ; hgnc_id "HGNC:13890" ; level 2 ; orig_coord_info "chr20,34393812,34393881,+" ; protein_id "ENSP00000262650.5" ; tag basic CCDS ; transcript_id "ITCH--PHF20^ENST00000262650.10" ; transcript_name "ITCH-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ITCH--PHF20 HAVANA gene 45984 67184 . + . FI_gene_label "PHF20^ENSG00000025293.17" ; ID "ITCH--PHF20^PHF20^ENSG00000025293.17" ; exon_id "ENSE00003477874.1" ; exon_number 3 ; gene_id "ITCH--PHF20^PHF20^ENSG00000025293.17" ; gene_name PHF20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032367.8" ; havana_transcript "OTTHUMT00000078947.3" ; hgnc_id "HGNC:16098" ; level 2 ; orig_coord_info "chr20,35801523,35801605,+" ; protein_id "ENSP00000341900.6" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "ITCH--PHF20^ENST00000339089.10" ; transcript_name "PHF20-201" ; transcript_support_level 2 ; transcript_type protein_coding
ITCH--PHF20 HAVANA mRNA 45984 67184 . + . FI_gene_label "PHF20^ENSG00000025293.17" ; ID "ITCH--PHF20^ENST00000339089.10" ; Parent "ITCH--PHF20^PHF20^ENSG00000025293.17" ; exon_id "ENSE00003477874.1" ; exon_number 3 ; gene_id "ITCH--PHF20^PHF20^ENSG00000025293.17" ; gene_name PHF20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032367.8" ; havana_transcript "OTTHUMT00000078947.3" ; hgnc_id "HGNC:16098" ; level 2 ; orig_coord_info "chr20,35801523,35801605,+" ; protein_id "ENSP00000341900.6" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "ITCH--PHF20^ENST00000339089.10" ; transcript_name "PHF20-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
MINK1--CLCN7 HAVANA gene 21628 43056 . + . FI_gene_label "CLCN7^ENSG00000103249.18" ; ID "MINK1--CLCN7^CLCN7^ENSG00000103249.18" ; exon_id "ENSE00002611053.1" ; exon_number 1 ; gene_id "MINK1--CLCN7^CLCN7^ENSG00000103249.18" ; gene_name CLCN7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000044467.6" ; havana_transcript "OTTHUMT00000432508.1" ; hgnc_id "HGNC:2025" ; level 2 ; orig_coord_info "chr16,1474834,1474974,-" ; protein_id "ENSP00000262318.8" ; tag basic ; transcript_id "MINK1--CLCN7^ENST00000262318.12" ; transcript_name "CLCN7-201" ; transcript_support_level 5 ; transcript_type protein_coding
MINK1--CLCN7 HAVANA mRNA 21628 43056 . + . FI_gene_label "CLCN7^ENSG00000103249.18" ; ID "MINK1--CLCN7^ENST00000262318.12" ; Parent "MINK1--CLCN7^CLCN7^ENSG00000103249.18" ; exon_id "ENSE00002611053.1" ; exon_number 1 ; gene_id "MINK1--CLCN7^CLCN7^ENSG00000103249.18" ; gene_name CLCN7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000044467.6" ; havana_transcript "OTTHUMT00000432508.1" ; hgnc_id "HGNC:2025" ; level 2 ; orig_coord_info "chr16,1474834,1474974,-" ; protein_id "ENSP00000262318.8" ; tag basic ; transcript_id "MINK1--CLCN7^ENST00000262318.12" ; transcript_name "CLCN7-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
MINK1--CLCN7 HAVANA gene 1061 18593 . + . FI_gene_label "MINK1^ENSG00000141503.17" ; ID "MINK1--CLCN7^MINK1^ENSG00000141503.17" ; ccdsid "CCDS45589.1" ; exon_id "ENSE00002648299.1" ; exon_number 1 ; gene_id "MINK1--CLCN7^MINK1^ENSG00000141503.17" ; gene_name MINK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177932.4" ; havana_transcript "OTTHUMT00000439803.1" ; hgnc_id "HGNC:17565" ; level 2 ; orig_coord_info "chr17,4833584,4833640,+" ; protein_id "ENSP00000269296.7" ; tag basic appris_alternative_2 CCDS ; transcript_id "MINK1--CLCN7^ENST00000347992.11" ; transcript_name "MINK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
MINK1--CLCN7 HAVANA mRNA 1061 18593 . + . FI_gene_label "MINK1^ENSG00000141503.17" ; ID "MINK1--CLCN7^ENST00000347992.11" ; Parent "MINK1--CLCN7^MINK1^ENSG00000141503.17" ; ccdsid "CCDS45589.1" ; exon_id "ENSE00002648299.1" ; exon_number 1 ; gene_id "MINK1--CLCN7^MINK1^ENSG00000141503.17" ; gene_name MINK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177932.4" ; havana_transcript "OTTHUMT00000439803.1" ; hgnc_id "HGNC:17565" ; level 2 ; orig_coord_info "chr17,4833584,4833640,+" ; protein_id "ENSP00000269296.7" ; tag basic appris_alternative_2 CCDS ; transcript_id "MINK1--CLCN7^ENST00000347992.11" ; transcript_name "MINK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PAN3--POLR1D HAVANA gene 28431 29988 . + . FI_gene_label "POLR1D^ENSG00000186184.19" ; ID "PAN3--POLR1D^POLR1D^ENSG00000186184.19" ; ccdsid "CCDS9325.1" ; exon_id "ENSE00003899880.1" ; exon_number 1 ; gene_id "PAN3--POLR1D^POLR1D^ENSG00000186184.19" ; gene_name POLR1D ; gene_type protein_coding ; havana_gene "OTTHUMG00000016635.10" ; havana_transcript "OTTHUMT00000044305.2" ; hgnc_id "HGNC:20422" ; level 2 ; orig_coord_info "chr13,27621984,27622009,+" ; protein_id "ENSP00000302478.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PAN3--POLR1D^ENST00000302979.5" ; transcript_name "POLR1D-201" ; transcript_support_level 1 ; transcript_type protein_coding
PAN3--POLR1D HAVANA mRNA 28431 29988 . + . FI_gene_label "POLR1D^ENSG00000186184.19" ; ID "PAN3--POLR1D^ENST00000302979.5" ; Parent "PAN3--POLR1D^POLR1D^ENSG00000186184.19" ; ccdsid "CCDS9325.1" ; exon_id "ENSE00003899880.1" ; exon_number 1 ; gene_id "PAN3--POLR1D^POLR1D^ENSG00000186184.19" ; gene_name POLR1D ; gene_type protein_coding ; havana_gene "OTTHUMG00000016635.10" ; havana_transcript "OTTHUMT00000044305.2" ; hgnc_id "HGNC:20422" ; level 2 ; orig_coord_info "chr13,27621984,27622009,+" ; protein_id "ENSP00000302478.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PAN3--POLR1D^ENST00000302979.5" ; transcript_name "POLR1D-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PAN3--POLR1D HAVANA gene 1040 24280 . + . FI_gene_label "PAN3^ENSG00000152520.14" ; ID "PAN3--POLR1D^PAN3^ENSG00000152520.14" ; ccdsid "CCDS9329.2" ; exon_id "ENSE00003572843.2" ; exon_number 1 ; gene_id "PAN3--POLR1D^PAN3^ENSG00000152520.14" ; gene_name PAN3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016645.6" ; havana_transcript "OTTHUMT00000044318.5" ; hgnc_id "HGNC:29991" ; level 2 ; orig_coord_info "chr13,28138658,28139087,+" ; protein_id "ENSP00000370345.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "PAN3--POLR1D^ENST00000380958.8" ; transcript_name "PAN3-201" ; transcript_support_level 5 ; transcript_type protein_coding
PAN3--POLR1D HAVANA mRNA 1040 24280 . + . FI_gene_label "PAN3^ENSG00000152520.14" ; ID "PAN3--POLR1D^ENST00000380958.8" ; Parent "PAN3--POLR1D^PAN3^ENSG00000152520.14" ; ccdsid "CCDS9329.2" ; exon_id "ENSE00003572843.2" ; exon_number 1 ; gene_id "PAN3--POLR1D^PAN3^ENSG00000152520.14" ; gene_name PAN3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016645.6" ; havana_transcript "OTTHUMT00000044318.5" ; hgnc_id "HGNC:29991" ; level 2 ; orig_coord_info "chr13,28138658,28139087,+" ; protein_id "ENSP00000370345.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "PAN3--POLR1D^ENST00000380958.8" ; transcript_name "PAN3-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PCDHB14--PCDHB15 HAVANA gene 8418 12388 . + . FI_gene_label "PCDHB15^ENSG00000113248.6" ; ID "PCDHB14--PCDHB15^PCDHB15^ENSG00000113248.6" ; ccdsid "CCDS4257.1" ; exon_id "ENSE00000766437.10" ; exon_number 1 ; gene_id "PCDHB14--PCDHB15^PCDHB15^ENSG00000113248.6" ; gene_name PCDHB15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129609.6" ; havana_transcript "OTTHUMT00000251804.5" ; hgnc_id "HGNC:8686" ; level 2 ; orig_coord_info "chr5,141245579,141247939,+" ; protein_id "ENSP00000231173.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHB14--PCDHB15^ENST00000231173.6" ; transcript_name "PCDHB15-201" ; transcript_support_level NA ; transcript_type protein_coding
PCDHB14--PCDHB15 HAVANA mRNA 8418 12388 . + . FI_gene_label "PCDHB15^ENSG00000113248.6" ; ID "PCDHB14--PCDHB15^ENST00000231173.6" ; Parent "PCDHB14--PCDHB15^PCDHB15^ENSG00000113248.6" ; ccdsid "CCDS4257.1" ; exon_id "ENSE00000766437.10" ; exon_number 1 ; gene_id "PCDHB14--PCDHB15^PCDHB15^ENSG00000113248.6" ; gene_name PCDHB15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129609.6" ; havana_transcript "OTTHUMT00000251804.5" ; hgnc_id "HGNC:8686" ; level 2 ; orig_coord_info "chr5,141245579,141247939,+" ; protein_id "ENSP00000231173.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHB14--PCDHB15^ENST00000231173.6" ; transcript_name "PCDHB15-201" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHB14--PCDHB15 HAVANA gene 1001 5417 . + . FI_gene_label "PCDHB14^ENSG00000120327.7" ; ID "PCDHB14--PCDHB15^PCDHB14^ENSG00000120327.7" ; ccdsid "CCDS4256.1" ; exon_id "ENSE00001430609.6" ; exon_number 1 ; gene_id "PCDHB14--PCDHB15^PCDHB14^ENSG00000120327.7" ; gene_name PCDHB14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129619.4" ; havana_transcript "OTTHUMT00000251814.3" ; hgnc_id "HGNC:8685" ; level 2 ; orig_coord_info "chr5,141223506,141225899,+" ; protein_id "ENSP00000239449.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHB14--PCDHB15^ENST00000239449.7" ; transcript_name "PCDHB14-201" ; transcript_support_level NA ; transcript_type protein_coding
PCDHB14--PCDHB15 HAVANA mRNA 1001 5417 . + . FI_gene_label "PCDHB14^ENSG00000120327.7" ; ID "PCDHB14--PCDHB15^ENST00000239449.7" ; Parent "PCDHB14--PCDHB15^PCDHB14^ENSG00000120327.7" ; ccdsid "CCDS4256.1" ; exon_id "ENSE00001430609.6" ; exon_number 1 ; gene_id "PCDHB14--PCDHB15^PCDHB14^ENSG00000120327.7" ; gene_name PCDHB14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129619.4" ; havana_transcript "OTTHUMT00000251814.3" ; hgnc_id "HGNC:8685" ; level 2 ; orig_coord_info "chr5,141223506,141225899,+" ; protein_id "ENSP00000239449.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHB14--PCDHB15^ENST00000239449.7" ; transcript_name "PCDHB14-201" ; transcript_support_level NA ; 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:
PHF20--MYLK2 HAVANA gene 1053 22253 . + . FI_gene_label "PHF20^ENSG00000025293.17" ; ID "PHF20--MYLK2^PHF20^ENSG00000025293.17" ; exon_id "ENSE00003477874.1" ; exon_number 3 ; gene_id "PHF20--MYLK2^PHF20^ENSG00000025293.17" ; gene_name PHF20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032367.8" ; havana_transcript "OTTHUMT00000078947.3" ; hgnc_id "HGNC:16098" ; level 2 ; orig_coord_info "chr20,35801523,35801605,+" ; protein_id "ENSP00000341900.6" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "PHF20--MYLK2^ENST00000339089.10" ; transcript_name "PHF20-201" ; transcript_support_level 2 ; transcript_type protein_coding
PHF20--MYLK2 HAVANA mRNA 1053 22253 . + . FI_gene_label "PHF20^ENSG00000025293.17" ; ID "PHF20--MYLK2^ENST00000339089.10" ; Parent "PHF20--MYLK2^PHF20^ENSG00000025293.17" ; exon_id "ENSE00003477874.1" ; exon_number 3 ; gene_id "PHF20--MYLK2^PHF20^ENSG00000025293.17" ; gene_name PHF20 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032367.8" ; havana_transcript "OTTHUMT00000078947.3" ; hgnc_id "HGNC:16098" ; level 2 ; orig_coord_info "chr20,35801523,35801605,+" ; protein_id "ENSP00000341900.6" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "PHF20--MYLK2^ENST00000339089.10" ; transcript_name "PHF20-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
PHF20--MYLK2 HAVANA gene 36509 46386 . + . FI_gene_label "MYLK2^ENSG00000101306.11" ; ID "PHF20--MYLK2^MYLK2^ENSG00000101306.11" ; ccdsid "CCDS13191.1" ; exon_id "ENSE00001469052.1" ; exon_number 2 ; gene_id "PHF20--MYLK2^MYLK2^ENSG00000101306.11" ; gene_name MYLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032194.3" ; havana_transcript "OTTHUMT00000078582.3" ; hgnc_id "HGNC:16243" ; level 2 ; orig_coord_info "chr20,31819581,31819632,+" ; protein_id "ENSP00000365152.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PHF20--MYLK2^ENST00000375985.5" ; transcript_name "MYLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PHF20--MYLK2 HAVANA mRNA 36509 46386 . + . FI_gene_label "MYLK2^ENSG00000101306.11" ; ID "PHF20--MYLK2^ENST00000375985.5" ; Parent "PHF20--MYLK2^MYLK2^ENSG00000101306.11" ; ccdsid "CCDS13191.1" ; exon_id "ENSE00001469052.1" ; exon_number 2 ; gene_id "PHF20--MYLK2^MYLK2^ENSG00000101306.11" ; gene_name MYLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032194.3" ; havana_transcript "OTTHUMT00000078582.3" ; hgnc_id "HGNC:16243" ; level 2 ; orig_coord_info "chr20,31819581,31819632,+" ; protein_id "ENSP00000365152.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PHF20--MYLK2^ENST00000375985.5" ; transcript_name "MYLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PTMS--MTRNR2L12 HAVANA gene 1848 5135 . + . FI_gene_label "PTMS^ENSG00000159335.18" ; ID "PTMS--MTRNR2L12^PTMS^ENSG00000159335.18" ; ccdsid "CCDS8560.1" ; exon_id "ENSE00002225326.3" ; exon_number 1 ; gene_id "PTMS--MTRNR2L12^PTMS^ENSG00000159335.18" ; gene_name PTMS ; gene_type protein_coding ; havana_gene "OTTHUMG00000169196.5" ; havana_transcript "OTTHUMT00000402841.2" ; hgnc_id "HGNC:9629" ; level 2 ; orig_coord_info "chr12,6766706,6766750,+" ; protein_id "ENSP00000310088.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PTMS--MTRNR2L12^ENST00000309083.8" ; transcript_name "PTMS-201" ; transcript_support_level 1 ; transcript_type protein_coding
PTMS--MTRNR2L12 HAVANA mRNA 1848 5135 . + . FI_gene_label "PTMS^ENSG00000159335.18" ; ID "PTMS--MTRNR2L12^ENST00000309083.8" ; Parent "PTMS--MTRNR2L12^PTMS^ENSG00000159335.18" ; ccdsid "CCDS8560.1" ; exon_id "ENSE00002225326.3" ; exon_number 1 ; gene_id "PTMS--MTRNR2L12^PTMS^ENSG00000159335.18" ; gene_name PTMS ; gene_type protein_coding ; havana_gene "OTTHUMG00000169196.5" ; havana_transcript "OTTHUMT00000402841.2" ; hgnc_id "HGNC:9629" ; level 2 ; orig_coord_info "chr12,6766706,6766750,+" ; protein_id "ENSP00000310088.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PTMS--MTRNR2L12^ENST00000309083.8" ; transcript_name "PTMS-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PTMS--MTRNR2L12 HAVANA gene 8136 9184 . + . FI_gene_label "MTRNR2L12^ENSG00000269028.3" ; ID "PTMS--MTRNR2L12^MTRNR2L12^ENSG00000269028.3" ; exon_id "ENSE00002993977.3" ; exon_number 1 ; gene_id "PTMS--MTRNR2L12^MTRNR2L12^ENSG00000269028.3" ; gene_name MTRNR2L12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000175726.3" ; havana_transcript "OTTHUMT00000430905.3" ; hgnc_id "HGNC:37169" ; level 2 ; orig_coord_info "chr3,96617202,96617273,-" ; protein_id "ENSP00000468991.1" ; tag not_best_in_genome_evidence basic appris_principal_1 ; transcript_id "PTMS--MTRNR2L12^ENST00000600213.3" ; transcript_name "MTRNR2L12-201" ; transcript_support_level NA ; transcript_type protein_coding
PTMS--MTRNR2L12 HAVANA mRNA 8136 9184 . + . FI_gene_label "MTRNR2L12^ENSG00000269028.3" ; ID "PTMS--MTRNR2L12^ENST00000600213.3" ; Parent "PTMS--MTRNR2L12^MTRNR2L12^ENSG00000269028.3" ; exon_id "ENSE00002993977.3" ; exon_number 1 ; gene_id "PTMS--MTRNR2L12^MTRNR2L12^ENSG00000269028.3" ; gene_name MTRNR2L12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000175726.3" ; havana_transcript "OTTHUMT00000430905.3" ; hgnc_id "HGNC:37169" ; level 2 ; orig_coord_info "chr3,96617202,96617273,-" ; protein_id "ENSP00000468991.1" ; tag not_best_in_genome_evidence basic appris_principal_1 ; transcript_id "PTMS--MTRNR2L12^ENST00000600213.3" ; transcript_name "MTRNR2L12-201" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
SCX--MROH1 ENSEMBL gene 9017 43278 . + . FI_gene_label "MROH1^ENSG00000179832.17" ; ID "SCX--MROH1^MROH1^ENSG00000179832.17" ; ccdsid "CCDS47938.1" ; exon_id "ENSE00002236754.1" ; exon_number 1 ; gene_id "SCX--MROH1^MROH1^ENSG00000179832.17" ; gene_name MROH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165781.1" ; hgnc_id "HGNC:26958" ; level 3 ; orig_coord_info "chr8,144163827,144163848,+" ; protein_id "ENSP00000321737.5" ; tag basic appris_principal_4 CCDS ; transcript_id "SCX--MROH1^ENST00000326134.9" ; transcript_name "MROH1-201" ; transcript_support_level 5 ; transcript_type protein_coding
SCX--MROH1 ENSEMBL mRNA 9017 43278 . + . FI_gene_label "MROH1^ENSG00000179832.17" ; ID "SCX--MROH1^ENST00000326134.9" ; Parent "SCX--MROH1^MROH1^ENSG00000179832.17" ; ccdsid "CCDS47938.1" ; exon_id "ENSE00002236754.1" ; exon_number 1 ; gene_id "SCX--MROH1^MROH1^ENSG00000179832.17" ; gene_name MROH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165781.1" ; hgnc_id "HGNC:26958" ; level 3 ; orig_coord_info "chr8,144163827,144163848,+" ; protein_id "ENSP00000321737.5" ; tag basic appris_principal_4 CCDS ; transcript_id "SCX--MROH1^ENST00000326134.9" ; transcript_name "MROH1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
SCX--MROH1 HAVANA gene 1001 3029 . + . FI_gene_label "SCX^ENSG00000260428.3" ; ID "SCX--MROH1^SCX^ENSG00000260428.3" ; ccdsid "CCDS43779.1" ; exon_id "ENSE00002607285.3" ; exon_number 1 ; gene_id "SCX--MROH1^SCX^ENSG00000260428.3" ; gene_name SCX ; gene_type protein_coding ; havana_gene "OTTHUMG00000175582.3" ; havana_transcript "OTTHUMT00000430547.3" ; hgnc_id "HGNC:32322" ; level 2 ; orig_coord_info "chr8,144266614,144267180,+" ; protein_id "ENSP00000476384.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SCX--MROH1^ENST00000567180.3" ; transcript_name "SCX-201" ; transcript_support_level 1 ; transcript_type protein_coding
SCX--MROH1 HAVANA mRNA 1001 3029 . + . FI_gene_label "SCX^ENSG00000260428.3" ; ID "SCX--MROH1^ENST00000567180.3" ; Parent "SCX--MROH1^SCX^ENSG00000260428.3" ; ccdsid "CCDS43779.1" ; exon_id "ENSE00002607285.3" ; exon_number 1 ; gene_id "SCX--MROH1^SCX^ENSG00000260428.3" ; gene_name SCX ; gene_type protein_coding ; havana_gene "OTTHUMG00000175582.3" ; havana_transcript "OTTHUMT00000430547.3" ; hgnc_id "HGNC:32322" ; level 2 ; orig_coord_info "chr8,144266614,144267180,+" ; protein_id "ENSP00000476384.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SCX--MROH1^ENST00000567180.3" ; transcript_name "SCX-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SEMA6A--AL158090.1 HAVANA gene 1429 29958 . + . FI_gene_label "SEMA6A^ENSG00000092421.17" ; ID "SEMA6A--AL158090.1^SEMA6A^ENSG00000092421.17" ; ccdsid "CCDS75288.1" ; exon_id "ENSE00002216709.1" ; exon_number 2 ; gene_id "SEMA6A--AL158090.1^SEMA6A^ENSG00000092421.17" ; gene_name SEMA6A ; gene_type protein_coding ; havana_gene "OTTHUMG00000162987.6" ; havana_transcript "OTTHUMT00000371271.2" ; hgnc_id "HGNC:10738" ; level 2 ; orig_coord_info "chr5,116504845,116504944,-" ; protein_id "ENSP00000257414.8" ; tag basic appris_principal_4 CCDS ; transcript_id "SEMA6A--AL158090.1^ENST00000257414.12" ; transcript_name "SEMA6A-201" ; transcript_support_level 1 ; transcript_type protein_coding
SEMA6A--AL158090.1 HAVANA mRNA 1429 29958 . + . FI_gene_label "SEMA6A^ENSG00000092421.17" ; ID "SEMA6A--AL158090.1^ENST00000257414.12" ; Parent "SEMA6A--AL158090.1^SEMA6A^ENSG00000092421.17" ; ccdsid "CCDS75288.1" ; exon_id "ENSE00002216709.1" ; exon_number 2 ; gene_id "SEMA6A--AL158090.1^SEMA6A^ENSG00000092421.17" ; gene_name SEMA6A ; gene_type protein_coding ; havana_gene "OTTHUMG00000162987.6" ; havana_transcript "OTTHUMT00000371271.2" ; hgnc_id "HGNC:10738" ; level 2 ; orig_coord_info "chr5,116504845,116504944,-" ; protein_id "ENSP00000257414.8" ; tag basic appris_principal_4 CCDS ; transcript_id "SEMA6A--AL158090.1^ENST00000257414.12" ; transcript_name "SEMA6A-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SEMA6A--RNU1-23P HAVANA gene 1429 29958 . + . FI_gene_label "SEMA6A^ENSG00000092421.17" ; ID "SEMA6A--RNU1-23P^SEMA6A^ENSG00000092421.17" ; ccdsid "CCDS75288.1" ; exon_id "ENSE00002216709.1" ; exon_number 2 ; gene_id "SEMA6A--RNU1-23P^SEMA6A^ENSG00000092421.17" ; gene_name SEMA6A ; gene_type protein_coding ; havana_gene "OTTHUMG00000162987.6" ; havana_transcript "OTTHUMT00000371271.2" ; hgnc_id "HGNC:10738" ; level 2 ; orig_coord_info "chr5,116504845,116504944,-" ; protein_id "ENSP00000257414.8" ; tag basic appris_principal_4 CCDS ; transcript_id "SEMA6A--RNU1-23P^ENST00000257414.12" ; transcript_name "SEMA6A-201" ; transcript_support_level 1 ; transcript_type protein_coding
SEMA6A--RNU1-23P HAVANA mRNA 1429 29958 . + . FI_gene_label "SEMA6A^ENSG00000092421.17" ; ID "SEMA6A--RNU1-23P^ENST00000257414.12" ; Parent "SEMA6A--RNU1-23P^SEMA6A^ENSG00000092421.17" ; ccdsid "CCDS75288.1" ; exon_id "ENSE00002216709.1" ; exon_number 2 ; gene_id "SEMA6A--RNU1-23P^SEMA6A^ENSG00000092421.17" ; gene_name SEMA6A ; gene_type protein_coding ; havana_gene "OTTHUMG00000162987.6" ; havana_transcript "OTTHUMT00000371271.2" ; hgnc_id "HGNC:10738" ; level 2 ; orig_coord_info "chr5,116504845,116504944,-" ; protein_id "ENSP00000257414.8" ; tag basic appris_principal_4 CCDS ; transcript_id "SEMA6A--RNU1-23P^ENST00000257414.12" ; transcript_name "SEMA6A-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TVP23C--CDRT4 HAVANA gene 1052 15760 . + . FI_gene_label "TVP23C^ENSG00000175106.17" ; ID "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; ccdsid "CCDS11170.1" ; exon_id "ENSE00001105678.2" ; exon_number 1 ; gene_id "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; gene_name TVP23C ; gene_type protein_coding ; havana_gene "OTTHUMG00000171461.10" ; havana_transcript "OTTHUMT00000130705.3" ; hgnc_id "HGNC:30453" ; level 2 ; orig_coord_info "chr17,15563437,15563448,-" ; protein_id "ENSP00000225576.3" ; tag basic CCDS ; transcript_id "TVP23C--CDRT4^ENST00000225576.7" ; transcript_name "TVP23C-201" ; transcript_support_level 1 ; transcript_type protein_coding
TVP23C--CDRT4 HAVANA mRNA 1052 15760 . + . FI_gene_label "TVP23C^ENSG00000175106.17" ; ID "TVP23C--CDRT4^ENST00000225576.7" ; Parent "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; ccdsid "CCDS11170.1" ; exon_id "ENSE00001105678.2" ; exon_number 1 ; gene_id "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; gene_name TVP23C ; gene_type protein_coding ; havana_gene "OTTHUMG00000171461.10" ; havana_transcript "OTTHUMT00000130705.3" ; hgnc_id "HGNC:30453" ; level 2 ; orig_coord_info "chr17,15563437,15563448,-" ; protein_id "ENSP00000225576.3" ; tag basic CCDS ; transcript_id "TVP23C--CDRT4^ENST00000225576.7" ; transcript_name "TVP23C-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TVP23C--CDRT4 HAVANA gene 19889 25887 . + . FI_gene_label "CDRT4^ENSG00000239704.11" ; ID "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; ccdsid "CCDS73995.1" ; exon_id "ENSE00003735347.1" ; exon_number 3 ; gene_id "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; gene_name CDRT4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059070.14" ; havana_transcript "OTTHUMT00000130383.9" ; hgnc_id "HGNC:14383" ; level 2 ; orig_coord_info "chr17,15440208,15440238,-" ; protein_id "ENSP00000482523.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TVP23C--CDRT4^ENST00000619038.5" ; transcript_name "CDRT4-204" ; transcript_support_level 1 ; transcript_type protein_coding
TVP23C--CDRT4 HAVANA mRNA 19889 25887 . + . FI_gene_label "CDRT4^ENSG00000239704.11" ; ID "TVP23C--CDRT4^ENST00000619038.5" ; Parent "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; ccdsid "CCDS73995.1" ; exon_id "ENSE00003735347.1" ; exon_number 3 ; gene_id "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; gene_name CDRT4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059070.14" ; havana_transcript "OTTHUMT00000130383.9" ; hgnc_id "HGNC:14383" ; level 2 ; orig_coord_info "chr17,15440208,15440238,-" ; protein_id "ENSP00000482523.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TVP23C--CDRT4^ENST00000619038.5" ; transcript_name "CDRT4-204" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF419--ZNF772 HAVANA gene 1040 9388 . + . FI_gene_label "ZNF419^ENSG00000105136.21" ; ID "ZNF419--ZNF772^ZNF419^ENSG00000105136.21" ; ccdsid "CCDS54326.1" ; exon_id "ENSE00002119234.1" ; exon_number 1 ; gene_id "ZNF419--ZNF772^ZNF419^ENSG00000105136.21" ; gene_name ZNF419 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037073.10" ; havana_transcript "OTTHUMT00000378506.1" ; hgnc_id "HGNC:20648" ; level 2 ; orig_coord_info "chr19,57487951,57487983,+" ; protein_id "ENSP00000221735.7" ; tag NAGNAG_splice_site basic MANE_Select appris_alternative_2 CCDS ; transcript_id "ZNF419--ZNF772^ENST00000221735.12" ; transcript_name "ZNF419-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF419--ZNF772 HAVANA mRNA 1040 9388 . + . FI_gene_label "ZNF419^ENSG00000105136.21" ; ID "ZNF419--ZNF772^ENST00000221735.12" ; Parent "ZNF419--ZNF772^ZNF419^ENSG00000105136.21" ; ccdsid "CCDS54326.1" ; exon_id "ENSE00002119234.1" ; exon_number 1 ; gene_id "ZNF419--ZNF772^ZNF419^ENSG00000105136.21" ; gene_name ZNF419 ; gene_type protein_coding ; havana_gene "OTTHUMG00000037073.10" ; havana_transcript "OTTHUMT00000378506.1" ; hgnc_id "HGNC:20648" ; level 2 ; orig_coord_info "chr19,57487951,57487983,+" ; protein_id "ENSP00000221735.7" ; tag NAGNAG_splice_site basic MANE_Select appris_alternative_2 CCDS ; transcript_id "ZNF419--ZNF772^ENST00000221735.12" ; transcript_name "ZNF419-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZNF419--ZNF772 HAVANA gene 12389 20373 . + . FI_gene_label "ZNF772^ENSG00000197128.12" ; ID "ZNF419--ZNF772^ZNF772^ENSG00000197128.12" ; ccdsid "CCDS33133.1" ; exon_id "ENSE00003691113.1" ; exon_number 1 ; gene_id "ZNF419--ZNF772^ZNF772^ENSG00000197128.12" ; gene_name ZNF772 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168007.3" ; havana_transcript "OTTHUMT00000397447.1" ; hgnc_id "HGNC:33106" ; level 2 ; orig_coord_info "chr19,57477277,57477309,-" ; protein_id "ENSP00000341165.4" ; tag basic appris_principal_4 CCDS ; transcript_id "ZNF419--ZNF772^ENST00000343280.8" ; transcript_name "ZNF772-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZNF419--ZNF772 HAVANA mRNA 12389 20373 . + . FI_gene_label "ZNF772^ENSG00000197128.12" ; ID "ZNF419--ZNF772^ENST00000343280.8" ; Parent "ZNF419--ZNF772^ZNF772^ENSG00000197128.12" ; ccdsid "CCDS33133.1" ; exon_id "ENSE00003691113.1" ; exon_number 1 ; gene_id "ZNF419--ZNF772^ZNF772^ENSG00000197128.12" ; gene_name ZNF772 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168007.3" ; havana_transcript "OTTHUMT00000397447.1" ; hgnc_id "HGNC:33106" ; level 2 ; orig_coord_info "chr19,57477277,57477309,-" ; protein_id "ENSP00000341165.4" ; tag basic appris_principal_4 CCDS ; transcript_id "ZNF419--ZNF772^ENST00000343280.8" ; transcript_name "ZNF772-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CHD6--LINC01734 HAVANA gene 51263 54792 . + . FI_gene_label "LINC01734^ENSG00000230324.1" ; ID "CHD6--LINC01734^LINC01734^ENSG00000230324.1" ; exon_id "ENSE00001687161.1" ; exon_number 1 ; gene_id "CHD6--LINC01734^LINC01734^ENSG00000230324.1" ; gene_name LINC01734 ; gene_type lncRNA ; havana_gene "OTTHUMG00000032466.2" ; havana_transcript "OTTHUMT00000079223.2" ; hgnc_id "HGNC:52522" ; level 2 ; orig_coord_info "chr20,39224555,39224748,-" ; tag basic ; transcript_id "CHD6--LINC01734^ENST00000412672.1" ; transcript_name "LINC01734-201" ; transcript_support_level 1 ; transcript_type lncRNA
CHD6--LINC01734 HAVANA RNA 51263 54792 . + . FI_gene_label "LINC01734^ENSG00000230324.1" ; ID "CHD6--LINC01734^ENST00000412672.1" ; Parent "CHD6--LINC01734^LINC01734^ENSG00000230324.1" ; exon_id "ENSE00001687161.1" ; exon_number 1 ; gene_id "CHD6--LINC01734^LINC01734^ENSG00000230324.1" ; gene_name LINC01734 ; gene_type lncRNA ; havana_gene "OTTHUMG00000032466.2" ; havana_transcript "OTTHUMT00000079223.2" ; hgnc_id "HGNC:52522" ; level 2 ; orig_coord_info "chr20,39224555,39224748,-" ; tag basic ; transcript_id "CHD6--LINC01734^ENST00000412672.1" ; transcript_name "LINC01734-201" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
FSIP1--AC013652.1 HAVANA gene 21835 37275 . + . FI_gene_label "AC013652.1^ENSG00000259345.7" ; ID "FSIP1--AC013652.1^AC013652.1^ENSG00000259345.7" ; exon_id "ENSE00002558629.1" ; exon_number 1 ; gene_id "FSIP1--AC013652.1^AC013652.1^ENSG00000259345.7" ; gene_name "AC013652.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000172466.4" ; havana_transcript "OTTHUMT00000418683.1" ; level 2 ; orig_coord_info "chr15,39427098,39427195,-" ; tag basic ; transcript_id "FSIP1--AC013652.1^ENST00000558209.1" ; transcript_name "AC013652.1-205" ; transcript_support_level 3 ; transcript_type lncRNA
FSIP1--AC013652.1 HAVANA RNA 21835 37275 . + . FI_gene_label "AC013652.1^ENSG00000259345.7" ; ID "FSIP1--AC013652.1^ENST00000558209.1" ; Parent "FSIP1--AC013652.1^AC013652.1^ENSG00000259345.7" ; exon_id "ENSE00002558629.1" ; exon_number 1 ; gene_id "FSIP1--AC013652.1^AC013652.1^ENSG00000259345.7" ; gene_name "AC013652.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000172466.4" ; havana_transcript "OTTHUMT00000418683.1" ; level 2 ; orig_coord_info "chr15,39427098,39427195,-" ; tag basic ; transcript_id "FSIP1--AC013652.1^ENST00000558209.1" ; transcript_name "AC013652.1-205" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
INPP5A--AL596223.1 HAVANA gene 21929 27002 . + . FI_gene_label "AL596223.1^ENSG00000229261.1" ; ID "INPP5A--AL596223.1^AL596223.1^ENSG00000229261.1" ; exon_id "ENSE00001618677.1" ; exon_number 1 ; gene_id "INPP5A--AL596223.1^AL596223.1^ENSG00000229261.1" ; gene_name "AL596223.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000018372.1" ; havana_transcript "OTTHUMT00000048393.1" ; level 2 ; orig_coord_info "chr10,69232371,69232490,-" ; tag basic ; transcript_id "INPP5A--AL596223.1^ENST00000450995.1" ; transcript_name "AL596223.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
INPP5A--AL596223.1 HAVANA RNA 21929 27002 . + . FI_gene_label "AL596223.1^ENSG00000229261.1" ; ID "INPP5A--AL596223.1^ENST00000450995.1" ; Parent "INPP5A--AL596223.1^AL596223.1^ENSG00000229261.1" ; exon_id "ENSE00001618677.1" ; exon_number 1 ; gene_id "INPP5A--AL596223.1^AL596223.1^ENSG00000229261.1" ; gene_name "AL596223.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000018372.1" ; havana_transcript "OTTHUMT00000048393.1" ; level 2 ; orig_coord_info "chr10,69232371,69232490,-" ; tag basic ; transcript_id "INPP5A--AL596223.1^ENST00000450995.1" ; transcript_name "AL596223.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
LINC02802--AC245060.4 HAVANA gene 1048 2686 . + . FI_gene_label "LINC02802^ENSG00000232527.8" ; ID "LINC02802--AC245060.4^LINC02802^ENSG00000232527.8" ; exon_id "ENSE00001555491.2" ; exon_number 1 ; gene_id "LINC02802--AC245060.4^LINC02802^ENSG00000232527.8" ; gene_name LINC02802 ; gene_type lncRNA ; havana_gene "OTTHUMG00000017423.5" ; havana_transcript "OTTHUMT00000046025.1" ; hgnc_id "HGNC:54326" ; level 2 ; orig_coord_info "chr1,144250225,144250279,-" ; transcript_id "LINC02802--AC245060.4^ENST00000294715.6" ; transcript_name "LINC02802-201" ; transcript_support_level 5 ; transcript_type lncRNA
LINC02802--AC245060.4 HAVANA RNA 1048 2686 . + . FI_gene_label "LINC02802^ENSG00000232527.8" ; ID "LINC02802--AC245060.4^ENST00000294715.6" ; Parent "LINC02802--AC245060.4^LINC02802^ENSG00000232527.8" ; exon_id "ENSE00001555491.2" ; exon_number 1 ; gene_id "LINC02802--AC245060.4^LINC02802^ENSG00000232527.8" ; gene_name LINC02802 ; gene_type lncRNA ; havana_gene "OTTHUMG00000017423.5" ; havana_transcript "OTTHUMT00000046025.1" ; hgnc_id "HGNC:54326" ; level 2 ; orig_coord_info "chr1,144250225,144250279,-" ; transcript_id "LINC02802--AC245060.4^ENST00000294715.6" ; transcript_name "LINC02802-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
LINC02802--AC245060.4 HAVANA gene 7249 12603 . + . FI_gene_label "AC245060.4^ENSG00000272779.1" ; ID "LINC02802--AC245060.4^AC245060.4^ENSG00000272779.1" ; exon_id "ENSE00003709307.1" ; exon_number 1 ; gene_id "LINC02802--AC245060.4^AC245060.4^ENSG00000272779.1" ; gene_name "AC245060.4" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000151046.4" ; havana_transcript "OTTHUMT00000321106.3" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr22,22303224,22303297,+" ; tag basic ; transcript_id "LINC02802--AC245060.4^ENST00000413293.1" ; transcript_name "AC245060.4-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
LINC02802--AC245060.4 HAVANA RNA 7249 12603 . + . FI_gene_label "AC245060.4^ENSG00000272779.1" ; ID "LINC02802--AC245060.4^ENST00000413293.1" ; Parent "LINC02802--AC245060.4^AC245060.4^ENSG00000272779.1" ; exon_id "ENSE00003709307.1" ; exon_number 1 ; gene_id "LINC02802--AC245060.4^AC245060.4^ENSG00000272779.1" ; gene_name "AC245060.4" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000151046.4" ; havana_transcript "OTTHUMT00000321106.3" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr22,22303224,22303297,+" ; tag basic ; transcript_id "LINC02802--AC245060.4^ENST00000413293.1" ; transcript_name "AC245060.4-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
SEMA6A--AL158090.1 HAVANA gene 35154 39023 . + . FI_gene_label "AL158090.1^ENSG00000232200.2" ; ID "SEMA6A--AL158090.1^AL158090.1^ENSG00000232200.2" ; exon_id "ENSE00001793432.2" ; exon_number 1 ; gene_id "SEMA6A--AL158090.1^AL158090.1^ENSG00000232200.2" ; gene_name "AL158090.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000032099.2" ; havana_transcript "OTTHUMT00000078371.2" ; level 2 ; orig_coord_info "chr20,24317971,24318086,-" ; tag basic ; transcript_id "SEMA6A--AL158090.1^ENST00000453921.2" ; transcript_name "AL158090.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
SEMA6A--AL158090.1 HAVANA RNA 35154 39023 . + . FI_gene_label "AL158090.1^ENSG00000232200.2" ; ID "SEMA6A--AL158090.1^ENST00000453921.2" ; Parent "SEMA6A--AL158090.1^AL158090.1^ENSG00000232200.2" ; exon_id "ENSE00001793432.2" ; exon_number 1 ; gene_id "SEMA6A--AL158090.1^AL158090.1^ENSG00000232200.2" ; gene_name "AL158090.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000032099.2" ; havana_transcript "OTTHUMT00000078371.2" ; level 2 ; orig_coord_info "chr20,24317971,24318086,-" ; tag basic ; transcript_id "SEMA6A--AL158090.1^ENST00000453921.2" ; transcript_name "AL158090.1-201" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
SEMA6A--RNU1-23P ENSEMBL gene 35154 35297 . + . FI_gene_label "RNU1-23P^ENSG00000200231.1" ; ID "SEMA6A--RNU1-23P^RNU1-23P^ENSG00000200231.1" ; exon_id "ENSE00001438124.1" ; exon_number 1 ; gene_id "SEMA6A--RNU1-23P^RNU1-23P^ENSG00000200231.1" ; gene_name "RNU1-23P" ; gene_type snRNA ; hgnc_id "HGNC:41964" ; level 3 ; orig_coord_info "chr20,24237255,24237398,+" ; tag basic ; transcript_id "SEMA6A--RNU1-23P^ENST00000363361.1" ; transcript_name "RNU1-23P-201" ; transcript_support_level NA ; transcript_type snRNA
SEMA6A--RNU1-23P ENSEMBL RNA 35154 35297 . + . FI_gene_label "RNU1-23P^ENSG00000200231.1" ; ID "SEMA6A--RNU1-23P^ENST00000363361.1" ; Parent "SEMA6A--RNU1-23P^RNU1-23P^ENSG00000200231.1" ; exon_id "ENSE00001438124.1" ; exon_number 1 ; gene_id "SEMA6A--RNU1-23P^RNU1-23P^ENSG00000200231.1" ; gene_name "RNU1-23P" ; gene_type snRNA ; hgnc_id "HGNC:41964" ; level 3 ; orig_coord_info "chr20,24237255,24237398,+" ; tag basic ; transcript_id "SEMA6A--RNU1-23P^ENST00000363361.1" ; transcript_name "RNU1-23P-201" ; transcript_support_level NA ; transcript_type snRNA
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
291 cases fixed where L3 features have parent feature(s) missing
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--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
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--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
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------------------------- Check7: all level3 locations -------------------------
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------------------------------ Check8: check cds -------------------------------
No problem found
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----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
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----------------------------- Check10: check utrs ------------------------------
505 UTRs created that were missing
No UTRs locations modified
No supernumerary UTRs removed
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------------------------ Check11: all level2 locations -------------------------
No problem found
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------------------------ Check12: all level1 locations -------------------------
We fixed 31 wrong level1 location cases
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---------------------- Check13: remove identical isoforms ----------------------
None found
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------ End checks (done in 0 second) ------
GFF3 file parsed