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: 6236
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 6236
=> 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:6236
=> 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:
ABCC4--MEMO1P5 HAVANA gene 1043 26091 . + . FI_gene_label "ABCC4^ENSG00000125257.16" ; ID "ABCC4--MEMO1P5^ABCC4^ENSG00000125257.16" ; ccdsid "CCDS76643.1" ; exon_id "ENSE00001472146.2" ; exon_number 1 ; gene_id "ABCC4--MEMO1P5^ABCC4^ENSG00000125257.16" ; gene_name ABCC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017216.11" ; havana_transcript "OTTHUMT00000474650.1" ; hgnc_id "HGNC:55" ; level 2 ; orig_coord_info "chr13,95301241,95301314,-" ; protein_id "ENSP00000442024.1" ; tag basic CCDS ; transcript_id "ABCC4--MEMO1P5^ENST00000536256.3" ; transcript_name "ABCC4-205" ; transcript_support_level 2 ; transcript_type protein_coding
ABCC4--MEMO1P5 HAVANA mRNA 1043 26091 . + . FI_gene_label "ABCC4^ENSG00000125257.16" ; ID "ABCC4--MEMO1P5^ENST00000536256.3" ; Parent "ABCC4--MEMO1P5^ABCC4^ENSG00000125257.16" ; ccdsid "CCDS76643.1" ; exon_id "ENSE00001472146.2" ; exon_number 1 ; gene_id "ABCC4--MEMO1P5^ABCC4^ENSG00000125257.16" ; gene_name ABCC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017216.11" ; havana_transcript "OTTHUMT00000474650.1" ; hgnc_id "HGNC:55" ; level 2 ; orig_coord_info "chr13,95301241,95301314,-" ; protein_id "ENSP00000442024.1" ; tag basic CCDS ; transcript_id "ABCC4--MEMO1P5^ENST00000536256.3" ; transcript_name "ABCC4-205" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
ABCC4--RNY4P27 HAVANA gene 1043 26091 . + . FI_gene_label "ABCC4^ENSG00000125257.16" ; ID "ABCC4--RNY4P27^ABCC4^ENSG00000125257.16" ; ccdsid "CCDS76643.1" ; exon_id "ENSE00001472146.2" ; exon_number 1 ; gene_id "ABCC4--RNY4P27^ABCC4^ENSG00000125257.16" ; gene_name ABCC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017216.11" ; havana_transcript "OTTHUMT00000474650.1" ; hgnc_id "HGNC:55" ; level 2 ; orig_coord_info "chr13,95301241,95301314,-" ; protein_id "ENSP00000442024.1" ; tag basic CCDS ; transcript_id "ABCC4--RNY4P27^ENST00000536256.3" ; transcript_name "ABCC4-205" ; transcript_support_level 2 ; transcript_type protein_coding
ABCC4--RNY4P27 HAVANA mRNA 1043 26091 . + . FI_gene_label "ABCC4^ENSG00000125257.16" ; ID "ABCC4--RNY4P27^ENST00000536256.3" ; Parent "ABCC4--RNY4P27^ABCC4^ENSG00000125257.16" ; ccdsid "CCDS76643.1" ; exon_id "ENSE00001472146.2" ; exon_number 1 ; gene_id "ABCC4--RNY4P27^ABCC4^ENSG00000125257.16" ; gene_name ABCC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017216.11" ; havana_transcript "OTTHUMT00000474650.1" ; hgnc_id "HGNC:55" ; level 2 ; orig_coord_info "chr13,95301241,95301314,-" ; protein_id "ENSP00000442024.1" ; tag basic CCDS ; transcript_id "ABCC4--RNY4P27^ENST00000536256.3" ; transcript_name "ABCC4-205" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
AC015911.9--SLFN12L HAVANA gene 4692 11059 . + . FI_gene_label "SLFN12L^ENSG00000205045.11" ; ID "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; exon_id "ENSE00003850559.1" ; exon_number 2 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; gene_name SLFN12L ; gene_type protein_coding ; havana_gene "OTTHUMG00000193506.1" ; havana_transcript "OTTHUMT00000395748.3" ; hgnc_id "HGNC:33920" ; level 2 ; orig_coord_info "chr17,35479117,35480155,-" ; protein_id "ENSP00000437635.2" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "AC015911.9--SLFN12L^ENST00000260908.12" ; transcript_name "SLFN12L-201" ; transcript_support_level 5 ; transcript_type protein_coding
AC015911.9--SLFN12L HAVANA mRNA 4692 11059 . + . FI_gene_label "SLFN12L^ENSG00000205045.11" ; ID "AC015911.9--SLFN12L^ENST00000260908.12" ; Parent "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; exon_id "ENSE00003850559.1" ; exon_number 2 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; gene_name SLFN12L ; gene_type protein_coding ; havana_gene "OTTHUMG00000193506.1" ; havana_transcript "OTTHUMT00000395748.3" ; hgnc_id "HGNC:33920" ; level 2 ; orig_coord_info "chr17,35479117,35480155,-" ; protein_id "ENSP00000437635.2" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "AC015911.9--SLFN12L^ENST00000260908.12" ; transcript_name "SLFN12L-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
AC092807.3--DDAH1 HAVANA gene 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC092807.3--DDAH1 HAVANA mRNA 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^ENST00000284031.13" ; Parent "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CCDC198--NPIPB12 HAVANA gene 1011 11912 . + . FI_gene_label "CCDC198^ENSG00000100557.10" ; ID "CCDC198--NPIPB12^CCDC198^ENSG00000100557.10" ; ccdsid "CCDS9730.1" ; exon_id "ENSE00000867380.6" ; exon_number 1 ; gene_id "CCDC198--NPIPB12^CCDC198^ENSG00000100557.10" ; gene_name CCDC198 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140317.6" ; havana_transcript "OTTHUMT00000276921.2" ; hgnc_id "HGNC:20189" ; level 2 ; orig_coord_info "chr14,57493493,57493715,-" ; protein_id "ENSP00000216445.3" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CCDC198--NPIPB12^ENST00000216445.8" ; transcript_name "CCDC198-201" ; transcript_support_level 1 ; transcript_type protein_coding
CCDC198--NPIPB12 HAVANA mRNA 1011 11912 . + . FI_gene_label "CCDC198^ENSG00000100557.10" ; ID "CCDC198--NPIPB12^ENST00000216445.8" ; Parent "CCDC198--NPIPB12^CCDC198^ENSG00000100557.10" ; ccdsid "CCDS9730.1" ; exon_id "ENSE00000867380.6" ; exon_number 1 ; gene_id "CCDC198--NPIPB12^CCDC198^ENSG00000100557.10" ; gene_name CCDC198 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140317.6" ; havana_transcript "OTTHUMT00000276921.2" ; hgnc_id "HGNC:20189" ; level 2 ; orig_coord_info "chr14,57493493,57493715,-" ; protein_id "ENSP00000216445.3" ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CCDC198--NPIPB12^ENST00000216445.8" ; transcript_name "CCDC198-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CCDC198--NPIPB12 ENSEMBL gene 23871 26088 . + . FI_gene_label "NPIPB12^ENSG00000169203.16" ; ID "CCDC198--NPIPB12^NPIPB12^ENSG00000169203.16" ; exon_id "ENSE00001744303.2" ; exon_number 1 ; gene_id "CCDC198--NPIPB12^NPIPB12^ENSG00000169203.16" ; gene_name NPIPB12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163547.2" ; hgnc_id "HGNC:37491" ; level 3 ; orig_coord_info "chr16,29485263,29485827,-" ; protein_id "ENSP00000399107.3" ; tag basic appris_alternative_2 ; transcript_id "CCDC198--NPIPB12^ENST00000458643.3" ; transcript_name "NPIPB12-201" ; transcript_support_level 5 ; transcript_type protein_coding
CCDC198--NPIPB12 ENSEMBL mRNA 23871 26088 . + . FI_gene_label "NPIPB12^ENSG00000169203.16" ; ID "CCDC198--NPIPB12^ENST00000458643.3" ; Parent "CCDC198--NPIPB12^NPIPB12^ENSG00000169203.16" ; exon_id "ENSE00001744303.2" ; exon_number 1 ; gene_id "CCDC198--NPIPB12^NPIPB12^ENSG00000169203.16" ; gene_name NPIPB12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163547.2" ; hgnc_id "HGNC:37491" ; level 3 ; orig_coord_info "chr16,29485263,29485827,-" ; protein_id "ENSP00000399107.3" ; tag basic appris_alternative_2 ; transcript_id "CCDC198--NPIPB12^ENST00000458643.3" ; transcript_name "NPIPB12-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
GLI3--AF246928.1 HAVANA gene 2769 37357 . + . FI_gene_label "GLI3^ENSG00000106571.15" ; ID "GLI3--AF246928.1^GLI3^ENSG00000106571.15" ; ccdsid "CCDS5465.1" ; exon_id "ENSE00001523285.1" ; exon_number 2 ; gene_id "GLI3--AF246928.1^GLI3^ENSG00000106571.15" ; gene_name GLI3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023630.8" ; havana_transcript "OTTHUMT00000250806.4" ; hgnc_id "HGNC:4319" ; level 2 ; orig_coord_info "chr7,42223130,42223253,-" ; protein_id "ENSP00000379258.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "GLI3--AF246928.1^ENST00000395925.8" ; transcript_name "GLI3-201" ; transcript_support_level 5 ; transcript_type protein_coding
GLI3--AF246928.1 HAVANA mRNA 2769 37357 . + . FI_gene_label "GLI3^ENSG00000106571.15" ; ID "GLI3--AF246928.1^ENST00000395925.8" ; Parent "GLI3--AF246928.1^GLI3^ENSG00000106571.15" ; ccdsid "CCDS5465.1" ; exon_id "ENSE00001523285.1" ; exon_number 2 ; gene_id "GLI3--AF246928.1^GLI3^ENSG00000106571.15" ; gene_name GLI3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023630.8" ; havana_transcript "OTTHUMT00000250806.4" ; hgnc_id "HGNC:4319" ; level 2 ; orig_coord_info "chr7,42223130,42223253,-" ; protein_id "ENSP00000379258.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "GLI3--AF246928.1^ENST00000395925.8" ; transcript_name "GLI3-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
GLI3--AJ009632.2 HAVANA gene 2769 37357 . + . FI_gene_label "GLI3^ENSG00000106571.15" ; ID "GLI3--AJ009632.2^GLI3^ENSG00000106571.15" ; ccdsid "CCDS5465.1" ; exon_id "ENSE00001523285.1" ; exon_number 2 ; gene_id "GLI3--AJ009632.2^GLI3^ENSG00000106571.15" ; gene_name GLI3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023630.8" ; havana_transcript "OTTHUMT00000250806.4" ; hgnc_id "HGNC:4319" ; level 2 ; orig_coord_info "chr7,42223130,42223253,-" ; protein_id "ENSP00000379258.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "GLI3--AJ009632.2^ENST00000395925.8" ; transcript_name "GLI3-201" ; transcript_support_level 5 ; transcript_type protein_coding
GLI3--AJ009632.2 HAVANA mRNA 2769 37357 . + . FI_gene_label "GLI3^ENSG00000106571.15" ; ID "GLI3--AJ009632.2^ENST00000395925.8" ; Parent "GLI3--AJ009632.2^GLI3^ENSG00000106571.15" ; ccdsid "CCDS5465.1" ; exon_id "ENSE00001523285.1" ; exon_number 2 ; gene_id "GLI3--AJ009632.2^GLI3^ENSG00000106571.15" ; gene_name GLI3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023630.8" ; havana_transcript "OTTHUMT00000250806.4" ; hgnc_id "HGNC:4319" ; level 2 ; orig_coord_info "chr7,42223130,42223253,-" ; protein_id "ENSP00000379258.3" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "GLI3--AJ009632.2^ENST00000395925.8" ; transcript_name "GLI3-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
GTF2A1L--STON1-GTF2A1L HAVANA gene 1059 10137 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
GTF2A1L--STON1-GTF2A1L HAVANA mRNA 1059 10137 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "GTF2A1L--STON1-GTF2A1L^ENST00000403751.8" ; Parent "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GUSBP13--NAIP ENSEMBL gene 10656 31835 . + . FI_gene_label "NAIP^ENSG00000249437.8" ; ID "GUSBP13--NAIP^NAIP^ENSG00000249437.8" ; ccdsid "CCDS4009.1" ; exon_id "ENSE00002284906.1" ; exon_number 2 ; gene_id "GUSBP13--NAIP^NAIP^ENSG00000249437.8" ; gene_name NAIP ; gene_type protein_coding ; havana_gene "OTTHUMG00000163318.7" ; hgnc_id "HGNC:7634" ; level 3 ; orig_coord_info "chr5,71012348,71012915,-" ; protein_id "ENSP00000443944.1" ; tag basic appris_principal_2 CCDS ; transcript_id "GUSBP13--NAIP^ENST00000194097.8" ; transcript_name "NAIP-201" ; transcript_support_level 1 ; transcript_type protein_coding
GUSBP13--NAIP ENSEMBL mRNA 10656 31835 . + . FI_gene_label "NAIP^ENSG00000249437.8" ; ID "GUSBP13--NAIP^ENST00000194097.8" ; Parent "GUSBP13--NAIP^NAIP^ENSG00000249437.8" ; ccdsid "CCDS4009.1" ; exon_id "ENSE00002284906.1" ; exon_number 2 ; gene_id "GUSBP13--NAIP^NAIP^ENSG00000249437.8" ; gene_name NAIP ; gene_type protein_coding ; havana_gene "OTTHUMG00000163318.7" ; hgnc_id "HGNC:7634" ; level 3 ; orig_coord_info "chr5,71012348,71012915,-" ; protein_id "ENSP00000443944.1" ; tag basic appris_principal_2 CCDS ; transcript_id "GUSBP13--NAIP^ENST00000194097.8" ; transcript_name "NAIP-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KIF5B--RET HAVANA gene 1001 24630 . + . FI_gene_label "KIF5B^ENSG00000170759.11" ; ID "KIF5B--RET^KIF5B^ENSG00000170759.11" ; ccdsid "CCDS7171.1" ; exon_id "ENSE00001551533.4" ; exon_number 1 ; gene_id "KIF5B--RET^KIF5B^ENSG00000170759.11" ; gene_name KIF5B ; gene_type protein_coding ; havana_gene "OTTHUMG00000017913.2" ; havana_transcript "OTTHUMT00000047467.2" ; hgnc_id "HGNC:6324" ; level 2 ; orig_coord_info "chr10,32055848,32055973,-" ; protein_id "ENSP00000307078.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KIF5B--RET^ENST00000302418.5" ; transcript_name "KIF5B-201" ; transcript_support_level 1 ; transcript_type protein_coding
KIF5B--RET HAVANA mRNA 1001 24630 . + . FI_gene_label "KIF5B^ENSG00000170759.11" ; ID "KIF5B--RET^ENST00000302418.5" ; Parent "KIF5B--RET^KIF5B^ENSG00000170759.11" ; ccdsid "CCDS7171.1" ; exon_id "ENSE00001551533.4" ; exon_number 1 ; gene_id "KIF5B--RET^KIF5B^ENSG00000170759.11" ; gene_name KIF5B ; gene_type protein_coding ; havana_gene "OTTHUMG00000017913.2" ; havana_transcript "OTTHUMT00000047467.2" ; hgnc_id "HGNC:6324" ; level 2 ; orig_coord_info "chr10,32055848,32055973,-" ; protein_id "ENSP00000307078.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KIF5B--RET^ENST00000302418.5" ; transcript_name "KIF5B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KIF5B--RET HAVANA gene 27636 48256 . + . FI_gene_label "RET^ENSG00000165731.20" ; ID "KIF5B--RET^RET^ENSG00000165731.20" ; ccdsid "CCDS53525.1" ; exon_id "ENSE00003744437.1" ; exon_number 1 ; gene_id "KIF5B--RET^RET^ENSG00000165731.20" ; gene_name RET ; gene_type protein_coding ; havana_gene "OTTHUMG00000018024.7" ; havana_transcript "OTTHUMT00000358138.3" ; hgnc_id "HGNC:9967" ; level 2 ; orig_coord_info "chr10,43077259,43077331,+" ; protein_id "ENSP00000344798.4" ; tag basic CCDS ; transcript_id "KIF5B--RET^ENST00000340058.6" ; transcript_name "RET-201" ; transcript_support_level 1 ; transcript_type protein_coding
KIF5B--RET HAVANA mRNA 27636 48256 . + . FI_gene_label "RET^ENSG00000165731.20" ; ID "KIF5B--RET^ENST00000340058.6" ; Parent "KIF5B--RET^RET^ENSG00000165731.20" ; ccdsid "CCDS53525.1" ; exon_id "ENSE00003744437.1" ; exon_number 1 ; gene_id "KIF5B--RET^RET^ENSG00000165731.20" ; gene_name RET ; gene_type protein_coding ; havana_gene "OTTHUMG00000018024.7" ; havana_transcript "OTTHUMT00000358138.3" ; hgnc_id "HGNC:9967" ; level 2 ; orig_coord_info "chr10,43077259,43077331,+" ; protein_id "ENSP00000344798.4" ; tag basic CCDS ; transcript_id "KIF5B--RET^ENST00000340058.6" ; transcript_name "RET-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KLRC4--KLRK1 HAVANA gene 7417 15704 . + . FI_gene_label "KLRK1^ENSG00000213809.9" ; ID "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; ccdsid "CCDS8623.1" ; exon_id "ENSE00003640305.1" ; exon_number 2 ; gene_id "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; gene_name KLRK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168574.3" ; havana_transcript "OTTHUMT00000400269.2" ; hgnc_id "HGNC:18788" ; level 2 ; orig_coord_info "chr12,10388771,10388810,-" ; protein_id "ENSP00000240618.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000240618.11" ; transcript_name "KLRK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
KLRC4--KLRK1 HAVANA mRNA 7417 15704 . + . FI_gene_label "KLRK1^ENSG00000213809.9" ; ID "KLRC4--KLRK1^ENST00000240618.11" ; Parent "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; ccdsid "CCDS8623.1" ; exon_id "ENSE00003640305.1" ; exon_number 2 ; gene_id "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; gene_name KLRK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168574.3" ; havana_transcript "OTTHUMT00000400269.2" ; hgnc_id "HGNC:18788" ; level 2 ; orig_coord_info "chr12,10388771,10388810,-" ; protein_id "ENSP00000240618.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000240618.11" ; transcript_name "KLRK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KLRC4--KLRK1 HAVANA gene 1001 3376 . + . FI_gene_label "KLRC4^ENSG00000183542.5" ; ID "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; ccdsid "CCDS8624.1" ; exon_id "ENSE00001145174.1" ; exon_number 1 ; gene_id "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; gene_name KLRC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168575.2" ; havana_transcript "OTTHUMT00000400108.2" ; hgnc_id "HGNC:6377" ; level 2 ; orig_coord_info "chr12,10409389,10409575,-" ; protein_id "ENSP00000310216.1" ; tag basic appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000309384.2" ; transcript_name "KLRC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
KLRC4--KLRK1 HAVANA mRNA 1001 3376 . + . FI_gene_label "KLRC4^ENSG00000183542.5" ; ID "KLRC4--KLRK1^ENST00000309384.2" ; Parent "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; ccdsid "CCDS8624.1" ; exon_id "ENSE00001145174.1" ; exon_number 1 ; gene_id "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; gene_name KLRC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168575.2" ; havana_transcript "OTTHUMT00000400108.2" ; hgnc_id "HGNC:6377" ; level 2 ; orig_coord_info "chr12,10409389,10409575,-" ; protein_id "ENSP00000310216.1" ; tag basic appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000309384.2" ; transcript_name "KLRC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MCM3AP--MTRNR2L12 HAVANA gene 1687 31388 . + . FI_gene_label "MCM3AP^ENSG00000160294.11" ; ID "MCM3AP--MTRNR2L12^MCM3AP^ENSG00000160294.11" ; ccdsid "CCDS13734.1" ; exon_id "ENSE00003847161.1" ; exon_number 1 ; gene_id "MCM3AP--MTRNR2L12^MCM3AP^ENSG00000160294.11" ; gene_name MCM3AP ; gene_type protein_coding ; havana_gene "OTTHUMG00000090630.5" ; havana_transcript "OTTHUMT00000504450.2" ; hgnc_id "HGNC:6946" ; level 2 ; orig_coord_info "chr21,46284068,46285286,-" ; protein_id "ENSP00000291688.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MCM3AP--MTRNR2L12^ENST00000291688.6" ; transcript_name "MCM3AP-201" ; transcript_support_level 1 ; transcript_type protein_coding
MCM3AP--MTRNR2L12 HAVANA mRNA 1687 31388 . + . FI_gene_label "MCM3AP^ENSG00000160294.11" ; ID "MCM3AP--MTRNR2L12^ENST00000291688.6" ; Parent "MCM3AP--MTRNR2L12^MCM3AP^ENSG00000160294.11" ; ccdsid "CCDS13734.1" ; exon_id "ENSE00003847161.1" ; exon_number 1 ; gene_id "MCM3AP--MTRNR2L12^MCM3AP^ENSG00000160294.11" ; gene_name MCM3AP ; gene_type protein_coding ; havana_gene "OTTHUMG00000090630.5" ; havana_transcript "OTTHUMT00000504450.2" ; hgnc_id "HGNC:6946" ; level 2 ; orig_coord_info "chr21,46284068,46285286,-" ; protein_id "ENSP00000291688.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "MCM3AP--MTRNR2L12^ENST00000291688.6" ; transcript_name "MCM3AP-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
MCM3AP--MTRNR2L12 HAVANA gene 34389 35437 . + . FI_gene_label "MTRNR2L12^ENSG00000269028.3" ; ID "MCM3AP--MTRNR2L12^MTRNR2L12^ENSG00000269028.3" ; exon_id "ENSE00002993977.3" ; exon_number 1 ; gene_id "MCM3AP--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 "MCM3AP--MTRNR2L12^ENST00000600213.3" ; transcript_name "MTRNR2L12-201" ; transcript_support_level NA ; transcript_type protein_coding
MCM3AP--MTRNR2L12 HAVANA mRNA 34389 35437 . + . FI_gene_label "MTRNR2L12^ENSG00000269028.3" ; ID "MCM3AP--MTRNR2L12^ENST00000600213.3" ; Parent "MCM3AP--MTRNR2L12^MTRNR2L12^ENSG00000269028.3" ; exon_id "ENSE00002993977.3" ; exon_number 1 ; gene_id "MCM3AP--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 "MCM3AP--MTRNR2L12^ENST00000600213.3" ; transcript_name "MTRNR2L12-201" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
NOLC1--GBF1 HAVANA gene 12359 63036 . + . FI_gene_label "GBF1^ENSG00000107862.6" ; ID "NOLC1--GBF1^GBF1^ENSG00000107862.6" ; exon_id "ENSE00001451422.1" ; exon_number 2 ; gene_id "NOLC1--GBF1^GBF1^ENSG00000107862.6" ; gene_name GBF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018955.2" ; hgnc_id "HGNC:4181" ; level 2 ; orig_coord_info "chr10,102258939,102259034,+" ; protein_id "ENSP00000359000.4" ; tag RNA_Seq_supported_only basic appris_principal_3 ; transcript_id "NOLC1--GBF1^ENST00000369983.4" ; transcript_name "GBF1-201" ; transcript_support_level 1 ; transcript_type protein_coding
NOLC1--GBF1 HAVANA mRNA 12359 63036 . + . FI_gene_label "GBF1^ENSG00000107862.6" ; ID "NOLC1--GBF1^ENST00000369983.4" ; Parent "NOLC1--GBF1^GBF1^ENSG00000107862.6" ; exon_id "ENSE00001451422.1" ; exon_number 2 ; gene_id "NOLC1--GBF1^GBF1^ENSG00000107862.6" ; gene_name GBF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018955.2" ; hgnc_id "HGNC:4181" ; level 2 ; orig_coord_info "chr10,102258939,102259034,+" ; protein_id "ENSP00000359000.4" ; tag RNA_Seq_supported_only basic appris_principal_3 ; transcript_id "NOLC1--GBF1^ENST00000369983.4" ; transcript_name "GBF1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NOLC1--GBF1 HAVANA gene 1240 9207 . + . FI_gene_label "NOLC1^ENSG00000166197.17" ; ID "NOLC1--GBF1^NOLC1^ENSG00000166197.17" ; exon_id "ENSE00001872190.1" ; exon_number 1 ; gene_id "NOLC1--GBF1^NOLC1^ENSG00000166197.17" ; gene_name NOLC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018944.5" ; havana_transcript "OTTHUMT00000470038.1" ; hgnc_id "HGNC:15608" ; level 2 ; orig_coord_info "chr10,102152415,102152530,+" ; protein_id "ENSP00000359024.5" ; tag mRNA_start_NF cds_start_NF ; transcript_id "NOLC1--GBF1^ENST00000370007.5" ; transcript_name "NOLC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
NOLC1--GBF1 HAVANA mRNA 1240 9207 . + . FI_gene_label "NOLC1^ENSG00000166197.17" ; ID "NOLC1--GBF1^ENST00000370007.5" ; Parent "NOLC1--GBF1^NOLC1^ENSG00000166197.17" ; exon_id "ENSE00001872190.1" ; exon_number 1 ; gene_id "NOLC1--GBF1^NOLC1^ENSG00000166197.17" ; gene_name NOLC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018944.5" ; havana_transcript "OTTHUMT00000470038.1" ; hgnc_id "HGNC:15608" ; level 2 ; orig_coord_info "chr10,102152415,102152530,+" ; protein_id "ENSP00000359024.5" ; tag mRNA_start_NF cds_start_NF ; transcript_id "NOLC1--GBF1^ENST00000370007.5" ; transcript_name "NOLC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA10 HAVANA gene 6778 16231 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; gene_name PCDHGA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163688.2" ; havana_transcript "OTTHUMT00000374747.1" ; hgnc_id "HGNC:8697" ; level 2 ; orig_coord_info "chr5,141413176,141415611,+" ; protein_id "ENSP00000381611.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA10 HAVANA mRNA 6778 16231 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGB2--PCDHGA10^ENST00000398610.2" ; Parent "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; gene_name PCDHGA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163688.2" ; havana_transcript "OTTHUMT00000374747.1" ; hgnc_id "HGNC:8697" ; level 2 ; orig_coord_info "chr5,141413176,141415611,+" ; protein_id "ENSP00000381611.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA10 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA10 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA10^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA11 HAVANA gene 6593 15398 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; gene_name PCDHGA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164055.3" ; havana_transcript "OTTHUMT00000376974.3" ; hgnc_id "HGNC:8698" ; level 2 ; orig_coord_info "chr5,141421228,141423660,+" ; protein_id "ENSP00000381589.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA11 HAVANA mRNA 6593 15398 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGB2--PCDHGA11^ENST00000398587.7" ; Parent "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; gene_name PCDHGA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164055.3" ; havana_transcript "OTTHUMT00000376974.3" ; hgnc_id "HGNC:8698" ; level 2 ; orig_coord_info "chr5,141421228,141423660,+" ; protein_id "ENSP00000381589.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA11 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA11 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA11^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA12 HAVANA gene 6589 14481 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; gene_name PCDHGA12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129611.6" ; havana_transcript "OTTHUMT00000251806.3" ; hgnc_id "HGNC:8699" ; level 2 ; orig_coord_info "chr5,141430760,141433183,+" ; protein_id "ENSP00000252085.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA12 HAVANA mRNA 6589 14481 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGB2--PCDHGA12^ENST00000252085.4" ; Parent "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; gene_name PCDHGA12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129611.6" ; havana_transcript "OTTHUMT00000251806.3" ; hgnc_id "HGNC:8699" ; level 2 ; orig_coord_info "chr5,141430760,141433183,+" ; protein_id "ENSP00000252085.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA12 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA12 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA12^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA8 HAVANA gene 9065 18245 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; gene_name PCDHGA8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164053.2" ; havana_transcript "OTTHUMT00000376972.1" ; hgnc_id "HGNC:8706" ; level 2 ; orig_coord_info "chr5,141392814,141395237,+" ; protein_id "ENSP00000381605.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA8 HAVANA mRNA 9065 18245 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGB2--PCDHGA8^ENST00000398604.3" ; Parent "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; gene_name PCDHGA8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164053.2" ; havana_transcript "OTTHUMT00000376972.1" ; hgnc_id "HGNC:8706" ; level 2 ; orig_coord_info "chr5,141392814,141395237,+" ; protein_id "ENSP00000381605.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA8 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA8 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA8^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA9 HAVANA gene 6610 14337 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; gene_name PCDHGA9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177473.2" ; havana_transcript "OTTHUMT00000437105.1" ; hgnc_id "HGNC:8707" ; level 2 ; orig_coord_info "chr5,141402953,141405376,+" ; protein_id "ENSP00000460274.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA9 HAVANA mRNA 6610 14337 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGB2--PCDHGA9^ENST00000573521.1" ; Parent "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; gene_name PCDHGA9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177473.2" ; havana_transcript "OTTHUMT00000437105.1" ; hgnc_id "HGNC:8707" ; level 2 ; orig_coord_info "chr5,141402953,141405376,+" ; protein_id "ENSP00000460274.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA9 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA9 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA9^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB6 HAVANA gene 6771 16370 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; gene_name PCDHGB6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163687.2" ; havana_transcript "OTTHUMT00000374746.1" ; hgnc_id "HGNC:8713" ; level 2 ; orig_coord_info "chr5,141408203,141410620,+" ; protein_id "ENSP00000428603.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGB6 HAVANA mRNA 6771 16370 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGB2--PCDHGB6^ENST00000520790.1" ; Parent "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; gene_name PCDHGB6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163687.2" ; havana_transcript "OTTHUMT00000374746.1" ; hgnc_id "HGNC:8713" ; level 2 ; orig_coord_info "chr5,141408203,141410620,+" ; protein_id "ENSP00000428603.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB6 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGB6 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB6^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB7 HAVANA gene 6621 14550 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; gene_name PCDHGB7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164054.2" ; havana_transcript "OTTHUMT00000376973.2" ; hgnc_id "HGNC:8714" ; level 2 ; orig_coord_info "chr5,141417860,141420274,+" ; protein_id "ENSP00000381594.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGB7 HAVANA mRNA 6621 14550 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGB2--PCDHGB7^ENST00000398594.4" ; Parent "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; gene_name PCDHGB7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164054.2" ; havana_transcript "OTTHUMT00000376973.2" ; hgnc_id "HGNC:8714" ; level 2 ; orig_coord_info "chr5,141417860,141420274,+" ; protein_id "ENSP00000381594.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB7 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGB7 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB7^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC3 HAVANA gene 6608 16794 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; gene_name PCDHGC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129613.8" ; havana_transcript "OTTHUMT00000251808.5" ; hgnc_id "HGNC:8716" ; level 2 ; orig_coord_info "chr5,141476117,141478546,+" ; protein_id "ENSP00000312070.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC3 HAVANA mRNA 6608 16794 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGB2--PCDHGC3^ENST00000308177.5" ; Parent "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; gene_name PCDHGC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129613.8" ; havana_transcript "OTTHUMT00000251808.5" ; hgnc_id "HGNC:8716" ; level 2 ; orig_coord_info "chr5,141476117,141478546,+" ; protein_id "ENSP00000312070.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC3 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC3 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC3^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC4 HAVANA gene 6766 14562 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; gene_name PCDHGC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129625.4" ; havana_transcript "OTTHUMT00000251820.2" ; hgnc_id "HGNC:8717" ; level 2 ; orig_coord_info "chr5,141485174,141487615,+" ; protein_id "ENSP00000306918.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC4 HAVANA mRNA 6766 14562 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGB2--PCDHGC4^ENST00000306593.1" ; Parent "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; gene_name PCDHGC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129625.4" ; havana_transcript "OTTHUMT00000251820.2" ; hgnc_id "HGNC:8717" ; level 2 ; orig_coord_info "chr5,141485174,141487615,+" ; protein_id "ENSP00000306918.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC4 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC4 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC4^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC5 HAVANA gene 6589 14614 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; gene_name PCDHGC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129624.2" ; havana_transcript "OTTHUMT00000251819.2" ; hgnc_id "HGNC:8718" ; level 2 ; orig_coord_info "chr5,141489241,141491700,+" ; protein_id "ENSP00000252087.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC5 HAVANA mRNA 6589 14614 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGB2--PCDHGC5^ENST00000252087.3" ; Parent "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; gene_name PCDHGC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129624.2" ; havana_transcript "OTTHUMT00000251819.2" ; hgnc_id "HGNC:8718" ; level 2 ; orig_coord_info "chr5,141489241,141491700,+" ; protein_id "ENSP00000252087.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC5 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC5 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC5^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PTPN2--NPIPB12 HAVANA gene 2247 26444 . + . FI_gene_label "PTPN2^ENSG00000175354.20" ; ID "PTPN2--NPIPB12^PTPN2^ENSG00000175354.20" ; ccdsid "CCDS11865.1" ; exon_id "ENSE00003848808.1" ; exon_number 1 ; gene_id "PTPN2--NPIPB12^PTPN2^ENSG00000175354.20" ; gene_name PTPN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131702.6" ; havana_transcript "OTTHUMT00000254613.4" ; hgnc_id "HGNC:9650" ; level 2 ; orig_coord_info "chr18,12884073,12884141,-" ; protein_id "ENSP00000311857.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "PTPN2--NPIPB12^ENST00000309660.10" ; transcript_name "PTPN2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PTPN2--NPIPB12 HAVANA mRNA 2247 26444 . + . FI_gene_label "PTPN2^ENSG00000175354.20" ; ID "PTPN2--NPIPB12^ENST00000309660.10" ; Parent "PTPN2--NPIPB12^PTPN2^ENSG00000175354.20" ; ccdsid "CCDS11865.1" ; exon_id "ENSE00003848808.1" ; exon_number 1 ; gene_id "PTPN2--NPIPB12^PTPN2^ENSG00000175354.20" ; gene_name PTPN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000131702.6" ; havana_transcript "OTTHUMT00000254613.4" ; hgnc_id "HGNC:9650" ; level 2 ; orig_coord_info "chr18,12884073,12884141,-" ; protein_id "ENSP00000311857.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "PTPN2--NPIPB12^ENST00000309660.10" ; transcript_name "PTPN2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PTPN2--NPIPB12 ENSEMBL gene 42076 44293 . + . FI_gene_label "NPIPB12^ENSG00000169203.16" ; ID "PTPN2--NPIPB12^NPIPB12^ENSG00000169203.16" ; exon_id "ENSE00001744303.2" ; exon_number 1 ; gene_id "PTPN2--NPIPB12^NPIPB12^ENSG00000169203.16" ; gene_name NPIPB12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163547.2" ; hgnc_id "HGNC:37491" ; level 3 ; orig_coord_info "chr16,29485263,29485827,-" ; protein_id "ENSP00000399107.3" ; tag basic appris_alternative_2 ; transcript_id "PTPN2--NPIPB12^ENST00000458643.3" ; transcript_name "NPIPB12-201" ; transcript_support_level 5 ; transcript_type protein_coding
PTPN2--NPIPB12 ENSEMBL mRNA 42076 44293 . + . FI_gene_label "NPIPB12^ENSG00000169203.16" ; ID "PTPN2--NPIPB12^ENST00000458643.3" ; Parent "PTPN2--NPIPB12^NPIPB12^ENSG00000169203.16" ; exon_id "ENSE00001744303.2" ; exon_number 1 ; gene_id "PTPN2--NPIPB12^NPIPB12^ENSG00000169203.16" ; gene_name NPIPB12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163547.2" ; hgnc_id "HGNC:37491" ; level 3 ; orig_coord_info "chr16,29485263,29485827,-" ; protein_id "ENSP00000399107.3" ; tag basic appris_alternative_2 ; transcript_id "PTPN2--NPIPB12^ENST00000458643.3" ; transcript_name "NPIPB12-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
RITA1--GLT8D2 HAVANA gene 9175 24135 . + . FI_gene_label "GLT8D2^ENSG00000120820.13" ; ID "RITA1--GLT8D2^GLT8D2^ENSG00000120820.13" ; ccdsid "CCDS9096.1" ; exon_id "ENSE00003575579.1" ; exon_number 3 ; gene_id "RITA1--GLT8D2^GLT8D2^ENSG00000120820.13" ; gene_name GLT8D2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000170120.2" ; havana_transcript "OTTHUMT00000407371.1" ; hgnc_id "HGNC:24890" ; level 2 ; orig_coord_info "chr12,104019630,104019648,-" ; protein_id "ENSP00000354053.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RITA1--GLT8D2^ENST00000360814.9" ; transcript_name "GLT8D2-201" ; transcript_support_level 1 ; transcript_type protein_coding
RITA1--GLT8D2 HAVANA mRNA 9175 24135 . + . FI_gene_label "GLT8D2^ENSG00000120820.13" ; ID "RITA1--GLT8D2^ENST00000360814.9" ; Parent "RITA1--GLT8D2^GLT8D2^ENSG00000120820.13" ; ccdsid "CCDS9096.1" ; exon_id "ENSE00003575579.1" ; exon_number 3 ; gene_id "RITA1--GLT8D2^GLT8D2^ENSG00000120820.13" ; gene_name GLT8D2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000170120.2" ; havana_transcript "OTTHUMT00000407371.1" ; hgnc_id "HGNC:24890" ; level 2 ; orig_coord_info "chr12,104019630,104019648,-" ; protein_id "ENSP00000354053.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RITA1--GLT8D2^ENST00000360814.9" ; transcript_name "GLT8D2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RITA1--GLT8D2 HAVANA gene 1196 4838 . + . FI_gene_label "RITA1^ENSG00000139405.16" ; ID "RITA1--GLT8D2^RITA1^ENSG00000139405.16" ; ccdsid "CCDS9166.1" ; exon_id "ENSE00003532017.1" ; exon_number 3 ; gene_id "RITA1--GLT8D2^RITA1^ENSG00000139405.16" ; gene_name RITA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169643.4" ; havana_transcript "OTTHUMT00000405239.2" ; hgnc_id "HGNC:25925" ; level 2 ; orig_coord_info "chr12,113186747,113187048,+" ; protein_id "ENSP00000449841.1" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "RITA1--GLT8D2^ENST00000548278.2" ; transcript_name "RITA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
RITA1--GLT8D2 HAVANA mRNA 1196 4838 . + . FI_gene_label "RITA1^ENSG00000139405.16" ; ID "RITA1--GLT8D2^ENST00000548278.2" ; Parent "RITA1--GLT8D2^RITA1^ENSG00000139405.16" ; ccdsid "CCDS9166.1" ; exon_id "ENSE00003532017.1" ; exon_number 3 ; gene_id "RITA1--GLT8D2^RITA1^ENSG00000139405.16" ; gene_name RITA1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169643.4" ; havana_transcript "OTTHUMT00000405239.2" ; hgnc_id "HGNC:25925" ; level 2 ; orig_coord_info "chr12,113186747,113187048,+" ; protein_id "ENSP00000449841.1" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "RITA1--GLT8D2^ENST00000548278.2" ; transcript_name "RITA1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RPSAP52--HMGA2 HAVANA gene 7036 17922 . + . FI_gene_label "HMGA2^ENSG00000149948.14" ; ID "RPSAP52--HMGA2^HMGA2^ENSG00000149948.14" ; ccdsid "CCDS31854.1" ; exon_id "ENSE00001242304.6" ; exon_number 1 ; gene_id "RPSAP52--HMGA2^HMGA2^ENSG00000149948.14" ; gene_name HMGA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168936.2" ; havana_transcript "OTTHUMT00000401660.1" ; hgnc_id "HGNC:5009" ; level 2 ; orig_coord_info "chr12,65825271,65825381,+" ; protein_id "ENSP00000346658.3" ; tag basic CCDS ; transcript_id "RPSAP52--HMGA2^ENST00000354636.7" ; transcript_name "HMGA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
RPSAP52--HMGA2 HAVANA mRNA 7036 17922 . + . FI_gene_label "HMGA2^ENSG00000149948.14" ; ID "RPSAP52--HMGA2^ENST00000354636.7" ; Parent "RPSAP52--HMGA2^HMGA2^ENSG00000149948.14" ; ccdsid "CCDS31854.1" ; exon_id "ENSE00001242304.6" ; exon_number 1 ; gene_id "RPSAP52--HMGA2^HMGA2^ENSG00000149948.14" ; gene_name HMGA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168936.2" ; havana_transcript "OTTHUMT00000401660.1" ; hgnc_id "HGNC:5009" ; level 2 ; orig_coord_info "chr12,65825271,65825381,+" ; protein_id "ENSP00000346658.3" ; tag basic CCDS ; transcript_id "RPSAP52--HMGA2^ENST00000354636.7" ; transcript_name "HMGA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
STX16--NPEPL1 HAVANA gene 1021 7754 . + . FI_gene_label "STX16^ENSG00000124222.22" ; ID "STX16--NPEPL1^STX16^ENSG00000124222.22" ; exon_id "ENSE00003459479.1" ; exon_number 3 ; gene_id "STX16--NPEPL1^STX16^ENSG00000124222.22" ; gene_name STX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033084.8" ; havana_transcript "OTTHUMT00000267911.2" ; hgnc_id "HGNC:11431" ; level 2 ; orig_coord_info "chr20,58667505,58667597,+" ; protein_id "ENSP00000312086.8" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "STX16--NPEPL1^ENST00000312283.12" ; transcript_name "STX16-201" ; transcript_support_level 3 ; transcript_type protein_coding
STX16--NPEPL1 HAVANA mRNA 1021 7754 . + . FI_gene_label "STX16^ENSG00000124222.22" ; ID "STX16--NPEPL1^ENST00000312283.12" ; Parent "STX16--NPEPL1^STX16^ENSG00000124222.22" ; exon_id "ENSE00003459479.1" ; exon_number 3 ; gene_id "STX16--NPEPL1^STX16^ENSG00000124222.22" ; gene_name STX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033084.8" ; havana_transcript "OTTHUMT00000267911.2" ; hgnc_id "HGNC:11431" ; level 2 ; orig_coord_info "chr20,58667505,58667597,+" ; protein_id "ENSP00000312086.8" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "STX16--NPEPL1^ENST00000312283.12" ; transcript_name "STX16-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
STX16--NPEPL1 HAVANA gene 18353 29399 . + . FI_gene_label "NPEPL1^ENSG00000215440.12" ; ID "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; ccdsid "CCDS46621.1" ; exon_id "ENSE00001408052.7" ; exon_number 1 ; gene_id "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; gene_name NPEPL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033060.8" ; havana_transcript "OTTHUMT00000080402.7" ; hgnc_id "HGNC:16244" ; level 2 ; orig_coord_info "chr20,58692901,58693050,+" ; protein_id "ENSP00000348395.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX16--NPEPL1^ENST00000356091.11" ; transcript_name "NPEPL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
STX16--NPEPL1 HAVANA mRNA 18353 29399 . + . FI_gene_label "NPEPL1^ENSG00000215440.12" ; ID "STX16--NPEPL1^ENST00000356091.11" ; Parent "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; ccdsid "CCDS46621.1" ; exon_id "ENSE00001408052.7" ; exon_number 1 ; gene_id "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; gene_name NPEPL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033060.8" ; havana_transcript "OTTHUMT00000080402.7" ; hgnc_id "HGNC:16244" ; level 2 ; orig_coord_info "chr20,58692901,58693050,+" ; protein_id "ENSP00000348395.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX16--NPEPL1^ENST00000356091.11" ; transcript_name "NPEPL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TAF4--AC114498.1 HAVANA gene 1001 23695 . + . FI_gene_label "TAF4^ENSG00000130699.18" ; ID "TAF4--AC114498.1^TAF4^ENSG00000130699.18" ; ccdsid "CCDS33500.1" ; exon_id "ENSE00001379037.1" ; exon_number 1 ; gene_id "TAF4--AC114498.1^TAF4^ENSG00000130699.18" ; gene_name TAF4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032893.9" ; havana_transcript "OTTHUMT00000079968.2" ; hgnc_id "HGNC:11537" ; level 2 ; orig_coord_info "chr20,62064451,62065810,-" ; protein_id "ENSP00000252996.3" ; tag basic appris_principal_1 CCDS ; transcript_id "TAF4--AC114498.1^ENST00000252996.8" ; transcript_name "TAF4-201" ; transcript_support_level 1 ; transcript_type protein_coding
TAF4--AC114498.1 HAVANA mRNA 1001 23695 . + . FI_gene_label "TAF4^ENSG00000130699.18" ; ID "TAF4--AC114498.1^ENST00000252996.8" ; Parent "TAF4--AC114498.1^TAF4^ENSG00000130699.18" ; ccdsid "CCDS33500.1" ; exon_id "ENSE00001379037.1" ; exon_number 1 ; gene_id "TAF4--AC114498.1^TAF4^ENSG00000130699.18" ; gene_name TAF4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032893.9" ; havana_transcript "OTTHUMT00000079968.2" ; hgnc_id "HGNC:11537" ; level 2 ; orig_coord_info "chr20,62064451,62065810,-" ; protein_id "ENSP00000252996.3" ; tag basic appris_principal_1 CCDS ; transcript_id "TAF4--AC114498.1^ENST00000252996.8" ; transcript_name "TAF4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TLK2--AC240565.1 HAVANA mRNA 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--AC240565.1^ENST00000326270.13" ; Parent "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--AC240565.1^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--AC240565.1^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TLK2--FAM157A HAVANA gene 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--FAM157A^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--FAM157A^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--FAM157A^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TLK2--FAM157A HAVANA mRNA 4784 35054 . + . FI_gene_label "TLK2^ENSG00000146872.18" ; ID "TLK2--FAM157A^ENST00000326270.13" ; Parent "TLK2--FAM157A^TLK2^ENSG00000146872.18" ; ccdsid "CCDS62283.1" ; exon_id "ENSE00003568961.1" ; exon_number 2 ; gene_id "TLK2--FAM157A^TLK2^ENSG00000146872.18" ; gene_name TLK2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000179176.3" ; havana_transcript "OTTHUMT00000445140.1" ; hgnc_id "HGNC:11842" ; level 2 ; orig_coord_info "chr17,62481126,62481206,+" ; protein_id "ENSP00000316512.9" ; tag basic CCDS ; transcript_id "TLK2--FAM157A^ENST00000326270.13" ; transcript_name "TLK2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TVP23C--CDRT4 HAVANA gene 1052 15760 . + . FI_gene_label "TVP23C^ENSG00000175106.17" ; ID "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; ccdsid "CCDS11170.1" ; exon_id "ENSE00001105678.2" ; exon_number 1 ; gene_id "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; gene_name TVP23C ; gene_type protein_coding ; havana_gene "OTTHUMG00000171461.10" ; havana_transcript "OTTHUMT00000130705.3" ; hgnc_id "HGNC:30453" ; level 2 ; orig_coord_info "chr17,15563437,15563448,-" ; protein_id "ENSP00000225576.3" ; tag basic CCDS ; transcript_id "TVP23C--CDRT4^ENST00000225576.7" ; transcript_name "TVP23C-201" ; transcript_support_level 1 ; transcript_type protein_coding
TVP23C--CDRT4 HAVANA mRNA 1052 15760 . + . FI_gene_label "TVP23C^ENSG00000175106.17" ; ID "TVP23C--CDRT4^ENST00000225576.7" ; Parent "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; ccdsid "CCDS11170.1" ; exon_id "ENSE00001105678.2" ; exon_number 1 ; gene_id "TVP23C--CDRT4^TVP23C^ENSG00000175106.17" ; gene_name TVP23C ; gene_type protein_coding ; havana_gene "OTTHUMG00000171461.10" ; havana_transcript "OTTHUMT00000130705.3" ; hgnc_id "HGNC:30453" ; level 2 ; orig_coord_info "chr17,15563437,15563448,-" ; protein_id "ENSP00000225576.3" ; tag basic CCDS ; transcript_id "TVP23C--CDRT4^ENST00000225576.7" ; transcript_name "TVP23C-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TVP23C--CDRT4 HAVANA gene 19889 25887 . + . FI_gene_label "CDRT4^ENSG00000239704.11" ; ID "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; ccdsid "CCDS73995.1" ; exon_id "ENSE00003735347.1" ; exon_number 3 ; gene_id "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; gene_name CDRT4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059070.14" ; havana_transcript "OTTHUMT00000130383.9" ; hgnc_id "HGNC:14383" ; level 2 ; orig_coord_info "chr17,15440208,15440238,-" ; protein_id "ENSP00000482523.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TVP23C--CDRT4^ENST00000619038.5" ; transcript_name "CDRT4-204" ; transcript_support_level 1 ; transcript_type protein_coding
TVP23C--CDRT4 HAVANA mRNA 19889 25887 . + . FI_gene_label "CDRT4^ENSG00000239704.11" ; ID "TVP23C--CDRT4^ENST00000619038.5" ; Parent "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; ccdsid "CCDS73995.1" ; exon_id "ENSE00003735347.1" ; exon_number 3 ; gene_id "TVP23C--CDRT4^CDRT4^ENSG00000239704.11" ; gene_name CDRT4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059070.14" ; havana_transcript "OTTHUMT00000130383.9" ; hgnc_id "HGNC:14383" ; level 2 ; orig_coord_info "chr17,15440208,15440238,-" ; protein_id "ENSP00000482523.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "TVP23C--CDRT4^ENST00000619038.5" ; transcript_name "CDRT4-204" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ABCC4--MEMO1P5 HAVANA gene 45325 45730 . + . FI_gene_label "MEMO1P5^ENSG00000271492.1" ; ID "ABCC4--MEMO1P5^MEMO1P5^ENSG00000271492.1" ; exon_id "ENSE00003652381.1" ; exon_number 1 ; gene_id "ABCC4--MEMO1P5^MEMO1P5^ENSG00000271492.1" ; gene_name MEMO1P5 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000184874.1" ; havana_transcript "OTTHUMT00000469290.1" ; hgnc_id "HGNC:49102" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr13,95394049,95394454,+" ; tag pseudo_consens basic ; transcript_id "ABCC4--MEMO1P5^ENST00000604810.1" ; transcript_name "MEMO1P5-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
ABCC4--MEMO1P5 HAVANA RNA 45325 45730 . + . FI_gene_label "MEMO1P5^ENSG00000271492.1" ; ID "ABCC4--MEMO1P5^ENST00000604810.1" ; Parent "ABCC4--MEMO1P5^MEMO1P5^ENSG00000271492.1" ; exon_id "ENSE00003652381.1" ; exon_number 1 ; gene_id "ABCC4--MEMO1P5^MEMO1P5^ENSG00000271492.1" ; gene_name MEMO1P5 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000184874.1" ; havana_transcript "OTTHUMT00000469290.1" ; hgnc_id "HGNC:49102" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr13,95394049,95394454,+" ; tag pseudo_consens basic ; transcript_id "ABCC4--MEMO1P5^ENST00000604810.1" ; transcript_name "MEMO1P5-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
ABCC4--RNY4P27 ENSEMBL gene 45325 45420 . + . FI_gene_label "RNY4P27^ENSG00000200211.1" ; ID "ABCC4--RNY4P27^RNY4P27^ENSG00000200211.1" ; exon_id "ENSE00001438104.1" ; exon_number 1 ; gene_id "ABCC4--RNY4P27^RNY4P27^ENSG00000200211.1" ; gene_name RNY4P27 ; gene_type misc_RNA ; hgnc_id "HGNC:42495" ; level 3 ; orig_coord_info "chr13,95336106,95336201,-" ; tag basic ; transcript_id "ABCC4--RNY4P27^ENST00000363341.1" ; transcript_name "RNY4P27-201" ; transcript_support_level NA ; transcript_type misc_RNA
ABCC4--RNY4P27 ENSEMBL RNA 45325 45420 . + . FI_gene_label "RNY4P27^ENSG00000200211.1" ; ID "ABCC4--RNY4P27^ENST00000363341.1" ; Parent "ABCC4--RNY4P27^RNY4P27^ENSG00000200211.1" ; exon_id "ENSE00001438104.1" ; exon_number 1 ; gene_id "ABCC4--RNY4P27^RNY4P27^ENSG00000200211.1" ; gene_name RNY4P27 ; gene_type misc_RNA ; hgnc_id "HGNC:42495" ; level 3 ; orig_coord_info "chr13,95336106,95336201,-" ; tag basic ; transcript_id "ABCC4--RNY4P27^ENST00000363341.1" ; transcript_name "RNY4P27-201" ; transcript_support_level NA ; transcript_type misc_RNA
L1 and L2 created:
AC015911.9--SLFN12L HAVANA gene 1001 1691 . + . FI_gene_label "AC015911.9^ENSG00000286030.2" ; ID "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; exon_id "ENSE00003850003.2" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; gene_name "AC015911.9" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000193507.2" ; havana_transcript "OTTHUMT00000502481.2" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr17,35522279,35522969,-" ; tag basic ; transcript_id "AC015911.9--SLFN12L^ENST00000650652.2" ; transcript_name "AC015911.9-201" ; transcript_type transcribed_unprocessed_pseudogene
AC015911.9--SLFN12L HAVANA RNA 1001 1691 . + . FI_gene_label "AC015911.9^ENSG00000286030.2" ; ID "AC015911.9--SLFN12L^ENST00000650652.2" ; Parent "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; exon_id "ENSE00003850003.2" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; gene_name "AC015911.9" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000193507.2" ; havana_transcript "OTTHUMT00000502481.2" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr17,35522279,35522969,-" ; tag basic ; transcript_id "AC015911.9--SLFN12L^ENST00000650652.2" ; transcript_name "AC015911.9-201" ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
AC015911.9--SLFN12L ENSEMBL gene 5824 9825 . + . FI_gene_label "SLFN12L^ENSG00000286065.2" ; ID "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; exon_id "ENSE00003899764.1" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; gene_name SLFN12L ; gene_type lncRNA ; havana_gene "OTTHUMG00000167707.2" ; hgnc_id "HGNC:33920" ; level 3 ; orig_coord_info "chr17,35480502,35480513,-" ; transcript_id "AC015911.9--SLFN12L^ENST00000675965.1" ; transcript_name "SLFN12L-206" ; transcript_type lncRNA
AC015911.9--SLFN12L ENSEMBL RNA 5824 9825 . + . FI_gene_label "SLFN12L^ENSG00000286065.2" ; ID "AC015911.9--SLFN12L^ENST00000675965.1" ; Parent "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; exon_id "ENSE00003899764.1" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; gene_name SLFN12L ; gene_type lncRNA ; havana_gene "OTTHUMG00000167707.2" ; hgnc_id "HGNC:33920" ; level 3 ; orig_coord_info "chr17,35480502,35480513,-" ; transcript_id "AC015911.9--SLFN12L^ENST00000675965.1" ; transcript_name "SLFN12L-206" ; transcript_type lncRNA
L1 and L2 created:
AC025884.2--IGH-@-ext HAVANA gene 1001 1711 . + . FI_gene_label "AC025884.2^ENSG00000259098.1" ; ID "AC025884.2--IGH-@-ext^AC025884.2^ENSG00000259098.1" ; exon_id "ENSE00002441536.1" ; exon_number 1 ; gene_id "AC025884.2--IGH-@-ext^AC025884.2^ENSG00000259098.1" ; gene_name "AC025884.2" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000171790.1" ; havana_transcript "OTTHUMT00000415152.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr15,22258138,22258848,+" ; tag basic ; transcript_id "AC025884.2--IGH-@-ext^ENST00000553429.1" ; transcript_name "AC025884.2-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
AC025884.2--IGH-@-ext HAVANA RNA 1001 1711 . + . FI_gene_label "AC025884.2^ENSG00000259098.1" ; ID "AC025884.2--IGH-@-ext^ENST00000553429.1" ; Parent "AC025884.2--IGH-@-ext^AC025884.2^ENSG00000259098.1" ; exon_id "ENSE00002441536.1" ; exon_number 1 ; gene_id "AC025884.2--IGH-@-ext^AC025884.2^ENSG00000259098.1" ; gene_name "AC025884.2" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000171790.1" ; havana_transcript "OTTHUMT00000415152.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr15,22258138,22258848,+" ; tag basic ; transcript_id "AC025884.2--IGH-@-ext^ENST00000553429.1" ; transcript_name "AC025884.2-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
AC025884.2--IGH-@-ext SuperLocus-ext gene 4712 1296052 . + . FI_gene_label "IGH-@-ext^IGH-.g@-ext" ; ID "AC025884.2--IGH-@-ext^IGH-@-ext^IGH-.g@-ext" ; gene_id "AC025884.2--IGH-@-ext^IGH-@-ext^IGH-.g@-ext" ; gene_name "IGH-@-ext" ; orig_coord_info "chr14,105583731,106875071,+" ; transcript_id "AC025884.2--IGH-@-ext^IGH-.t@-ext"
AC025884.2--IGH-@-ext SuperLocus-ext RNA 4712 1296052 . + . FI_gene_label "IGH-@-ext^IGH-.g@-ext" ; ID "AC025884.2--IGH-@-ext^IGH-.t@-ext" ; Parent "AC025884.2--IGH-@-ext^IGH-@-ext^IGH-.g@-ext" ; gene_id "AC025884.2--IGH-@-ext^IGH-@-ext^IGH-.g@-ext" ; gene_name "IGH-@-ext" ; orig_coord_info "chr14,105583731,106875071,+" ; transcript_id "AC025884.2--IGH-@-ext^IGH-.t@-ext"
L1 and L2 created:
AC091132.4--AC091132.1 HAVANA gene 3561 4511 . + . FI_gene_label "AC091132.4^ENSG00000267198.1" ; ID "AC091132.4--AC091132.1^AC091132.4^ENSG00000267198.1" ; exon_id "ENSE00002974385.1" ; exon_number 1 ; gene_id "AC091132.4--AC091132.1^AC091132.4^ENSG00000267198.1" ; gene_name "AC091132.4" ; gene_type lncRNA ; havana_gene "OTTHUMG00000180602.1" ; havana_transcript "OTTHUMT00000452149.1" ; level 2 ; orig_coord_info "chr17,45552855,45553267,+" ; tag basic ; transcript_id "AC091132.4--AC091132.1^ENST00000585761.1" ; transcript_name "AC091132.4-205" ; transcript_support_level 4 ; transcript_type lncRNA
AC091132.4--AC091132.1 HAVANA RNA 3561 4511 . + . FI_gene_label "AC091132.4^ENSG00000267198.1" ; ID "AC091132.4--AC091132.1^ENST00000585761.1" ; Parent "AC091132.4--AC091132.1^AC091132.4^ENSG00000267198.1" ; exon_id "ENSE00002974385.1" ; exon_number 1 ; gene_id "AC091132.4--AC091132.1^AC091132.4^ENSG00000267198.1" ; gene_name "AC091132.4" ; gene_type lncRNA ; havana_gene "OTTHUMG00000180602.1" ; havana_transcript "OTTHUMT00000452149.1" ; level 2 ; orig_coord_info "chr17,45552855,45553267,+" ; tag basic ; transcript_id "AC091132.4--AC091132.1^ENST00000585761.1" ; transcript_name "AC091132.4-205" ; transcript_support_level 4 ; transcript_type lncRNA
L1 and L2 created:
AC091132.4--AC091132.1 HAVANA gene 11023 11770 . + . FI_gene_label "AC091132.1^ENSG00000131484.4" ; ID "AC091132.4--AC091132.1^AC091132.1^ENSG00000131484.4" ; exon_id "ENSE00002831453.1" ; exon_number 1 ; gene_id "AC091132.4--AC091132.1^AC091132.1^ENSG00000131484.4" ; gene_name "AC091132.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000180601.1" ; havana_transcript "OTTHUMT00000452144.1" ; level 2 ; orig_coord_info "chr17,45533963,45534303,+" ; tag basic ; transcript_id "AC091132.4--AC091132.1^ENST00000588189.1" ; transcript_name "AC091132.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
AC091132.4--AC091132.1 HAVANA RNA 11023 11770 . + . FI_gene_label "AC091132.1^ENSG00000131484.4" ; ID "AC091132.4--AC091132.1^ENST00000588189.1" ; Parent "AC091132.4--AC091132.1^AC091132.1^ENSG00000131484.4" ; exon_id "ENSE00002831453.1" ; exon_number 1 ; gene_id "AC091132.4--AC091132.1^AC091132.1^ENSG00000131484.4" ; gene_name "AC091132.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000180601.1" ; havana_transcript "OTTHUMT00000452144.1" ; level 2 ; orig_coord_info "chr17,45533963,45534303,+" ; tag basic ; transcript_id "AC091132.4--AC091132.1^ENST00000588189.1" ; transcript_name "AC091132.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
AC092807.3--DDAH1 HAVANA gene 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA
AC092807.3--DDAH1 HAVANA RNA 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^ENST00000467530.5" ; Parent "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
GLI3--AF246928.1 HAVANA gene 40358 40444 . + . FI_gene_label "AF246928.1^ENSG00000280082.1" ; ID "GLI3--AF246928.1^AF246928.1^ENSG00000280082.1" ; exon_id "ENSE00003759741.1" ; exon_number 1 ; gene_id "GLI3--AF246928.1^AF246928.1^ENSG00000280082.1" ; gene_name "AF246928.1" ; gene_type TEC ; havana_gene "OTTHUMG00000172752.1" ; havana_transcript "OTTHUMT00000420361.1" ; level 2 ; orig_coord_info "chr21,15346652,15346738,+" ; tag basic ; transcript_id "GLI3--AF246928.1^ENST00000623768.1" ; transcript_name "AF246928.1-201" ; transcript_support_level NA ; transcript_type TEC
GLI3--AF246928.1 HAVANA RNA 40358 40444 . + . FI_gene_label "AF246928.1^ENSG00000280082.1" ; ID "GLI3--AF246928.1^ENST00000623768.1" ; Parent "GLI3--AF246928.1^AF246928.1^ENSG00000280082.1" ; exon_id "ENSE00003759741.1" ; exon_number 1 ; gene_id "GLI3--AF246928.1^AF246928.1^ENSG00000280082.1" ; gene_name "AF246928.1" ; gene_type TEC ; havana_gene "OTTHUMG00000172752.1" ; havana_transcript "OTTHUMT00000420361.1" ; level 2 ; orig_coord_info "chr21,15346652,15346738,+" ; tag basic ; transcript_id "GLI3--AF246928.1^ENST00000623768.1" ; transcript_name "AF246928.1-201" ; transcript_support_level NA ; transcript_type TEC
L1 and L2 created:
GLI3--AJ009632.2 HAVANA gene 73965 85687 . + . FI_gene_label "AJ009632.2^ENSG00000229425.3" ; ID "GLI3--AJ009632.2^AJ009632.2^ENSG00000229425.3" ; exon_id "ENSE00003864690.1" ; exon_number 1 ; gene_id "GLI3--AJ009632.2^AJ009632.2^ENSG00000229425.3" ; gene_name "AJ009632.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000074333.5" ; havana_transcript "OTTHUMT00000517956.1" ; level 2 ; orig_coord_info "chr21,15401988,15403870,-" ; tag basic TAGENE ; transcript_id "GLI3--AJ009632.2^ENST00000449602.2" ; transcript_name "AJ009632.2-210" ; transcript_support_level 5 ; transcript_type lncRNA
GLI3--AJ009632.2 HAVANA RNA 73965 85687 . + . FI_gene_label "AJ009632.2^ENSG00000229425.3" ; ID "GLI3--AJ009632.2^ENST00000449602.2" ; Parent "GLI3--AJ009632.2^AJ009632.2^ENSG00000229425.3" ; exon_id "ENSE00003864690.1" ; exon_number 1 ; gene_id "GLI3--AJ009632.2^AJ009632.2^ENSG00000229425.3" ; gene_name "AJ009632.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000074333.5" ; havana_transcript "OTTHUMT00000517956.1" ; level 2 ; orig_coord_info "chr21,15401988,15403870,-" ; tag basic TAGENE ; transcript_id "GLI3--AJ009632.2^ENST00000449602.2" ; transcript_name "AJ009632.2-210" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
GTF2A1L--STON1-GTF2A1L HAVANA gene 14395 15764 . + . FI_gene_label "STON1-GTF2A1L^ENSG00000068781.21" ; ID "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; exon_id "ENSE00001916353.1" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; gene_name "STON1-GTF2A1L" ; gene_type protein_coding ; havana_gene "OTTHUMG00000152037.6" ; havana_transcript "OTTHUMT00000325207.1" ; hgnc_id "HGNC:30651" ; level 1 ; orig_coord_info "chr2,48768954,48769121,+" ; tag exp_conf ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000463040.5" ; transcript_name "STON1-GTF2A1L-205" ; transcript_support_level 5 ; transcript_type processed_transcript
GTF2A1L--STON1-GTF2A1L HAVANA RNA 14395 15764 . + . FI_gene_label "STON1-GTF2A1L^ENSG00000068781.21" ; ID "GTF2A1L--STON1-GTF2A1L^ENST00000463040.5" ; Parent "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; exon_id "ENSE00001916353.1" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; gene_name "STON1-GTF2A1L" ; gene_type protein_coding ; havana_gene "OTTHUMG00000152037.6" ; havana_transcript "OTTHUMT00000325207.1" ; hgnc_id "HGNC:30651" ; level 1 ; orig_coord_info "chr2,48768954,48769121,+" ; tag exp_conf ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000463040.5" ; transcript_name "STON1-GTF2A1L-205" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
GUSBP13--NAIP HAVANA gene 1001 5633 . + . FI_gene_label "GUSBP13^ENSG00000198237.8" ; ID "GUSBP13--NAIP^GUSBP13^ENSG00000198237.8" ; exon_id "ENSE00002091111.1" ; exon_number 1 ; gene_id "GUSBP13--NAIP^GUSBP13^ENSG00000198237.8" ; gene_name GUSBP13 ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000164581.1" ; havana_transcript "OTTHUMT00000379319.1" ; hgnc_id "HGNC:54495" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr5,69875271,69875319,+" ; tag basic ; transcript_id "GUSBP13--NAIP^ENST00000506490.2" ; transcript_name "GUSBP13-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
GUSBP13--NAIP HAVANA RNA 1001 5633 . + . FI_gene_label "GUSBP13^ENSG00000198237.8" ; ID "GUSBP13--NAIP^ENST00000506490.2" ; Parent "GUSBP13--NAIP^GUSBP13^ENSG00000198237.8" ; exon_id "ENSE00002091111.1" ; exon_number 1 ; gene_id "GUSBP13--NAIP^GUSBP13^ENSG00000198237.8" ; gene_name GUSBP13 ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000164581.1" ; havana_transcript "OTTHUMT00000379319.1" ; hgnc_id "HGNC:54495" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr5,69875271,69875319,+" ; tag basic ; transcript_id "GUSBP13--NAIP^ENST00000506490.2" ; transcript_name "GUSBP13-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
L1 and L2 created:
RPSAP52--HMGA2 HAVANA gene 1024 4035 . + . FI_gene_label "RPSAP52^ENSG00000241749.4" ; ID "RPSAP52--HMGA2^RPSAP52^ENSG00000241749.4" ; exon_id "ENSE00001887935.1" ; exon_number 1 ; gene_id "RPSAP52--HMGA2^RPSAP52^ENSG00000241749.4" ; gene_name RPSAP52 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000157608.3" ; havana_transcript "OTTHUMT00000349256.2" ; hgnc_id "HGNC:35752" ; level 2 ; orig_coord_info "chr12,65826843,65826974,-" ; tag basic ; transcript_id "RPSAP52--HMGA2^ENST00000489520.2" ; transcript_name "RPSAP52-201" ; transcript_support_level 1 ; transcript_type processed_transcript
RPSAP52--HMGA2 HAVANA RNA 1024 4035 . + . FI_gene_label "RPSAP52^ENSG00000241749.4" ; ID "RPSAP52--HMGA2^ENST00000489520.2" ; Parent "RPSAP52--HMGA2^RPSAP52^ENSG00000241749.4" ; exon_id "ENSE00001887935.1" ; exon_number 1 ; gene_id "RPSAP52--HMGA2^RPSAP52^ENSG00000241749.4" ; gene_name RPSAP52 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000157608.3" ; havana_transcript "OTTHUMT00000349256.2" ; hgnc_id "HGNC:35752" ; level 2 ; orig_coord_info "chr12,65826843,65826974,-" ; tag basic ; transcript_id "RPSAP52--HMGA2^ENST00000489520.2" ; transcript_name "RPSAP52-201" ; transcript_support_level 1 ; transcript_type processed_transcript
L1 and L2 created:
TAF4--AC114498.1 HAVANA gene 28056 29690 . + . FI_gene_label "AC114498.1^ENSG00000235146.2" ; ID "TAF4--AC114498.1^AC114498.1^ENSG00000235146.2" ; exon_id "ENSE00001621971.1" ; exon_number 1 ; gene_id "TAF4--AC114498.1^AC114498.1^ENSG00000235146.2" ; gene_name "AC114498.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000002329.1" ; havana_transcript "OTTHUMT00000006707.1" ; level 2 ; orig_coord_info "chr1,587629,587701,+" ; tag not_best_in_genome_evidence basic ; transcript_id "TAF4--AC114498.1^ENST00000423796.1" ; transcript_name "AC114498.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TAF4--AC114498.1 HAVANA RNA 28056 29690 . + . FI_gene_label "AC114498.1^ENSG00000235146.2" ; ID "TAF4--AC114498.1^ENST00000423796.1" ; Parent "TAF4--AC114498.1^AC114498.1^ENSG00000235146.2" ; exon_id "ENSE00001621971.1" ; exon_number 1 ; gene_id "TAF4--AC114498.1^AC114498.1^ENSG00000235146.2" ; gene_name "AC114498.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000002329.1" ; havana_transcript "OTTHUMT00000006707.1" ; level 2 ; orig_coord_info "chr1,587629,587701,+" ; tag not_best_in_genome_evidence basic ; transcript_id "TAF4--AC114498.1^ENST00000423796.1" ; transcript_name "AC114498.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2--FAM157A HAVANA gene 40046 44186 . + . FI_gene_label "FAM157A^ENSG00000236438.7" ; ID "TLK2--FAM157A^FAM157A^ENSG00000236438.7" ; exon_id "ENSE00002579345.3" ; exon_number 1 ; gene_id "TLK2--FAM157A^FAM157A^ENSG00000236438.7" ; gene_name FAM157A ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000187506.3" ; havana_transcript "OTTHUMT00000488453.1" ; hgnc_id "HGNC:34079" ; level 2 ; orig_coord_info "chr3,198153287,198153409,+" ; tag basic ; transcript_id "TLK2--FAM157A^ENST00000437428.3" ; transcript_name "FAM157A-201" ; transcript_support_level 3 ; transcript_type processed_transcript
TLK2--FAM157A HAVANA RNA 40046 44186 . + . FI_gene_label "FAM157A^ENSG00000236438.7" ; ID "TLK2--FAM157A^ENST00000437428.3" ; Parent "TLK2--FAM157A^FAM157A^ENSG00000236438.7" ; exon_id "ENSE00002579345.3" ; exon_number 1 ; gene_id "TLK2--FAM157A^FAM157A^ENSG00000236438.7" ; gene_name FAM157A ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000187506.3" ; havana_transcript "OTTHUMT00000488453.1" ; hgnc_id "HGNC:34079" ; level 2 ; orig_coord_info "chr3,198153287,198153409,+" ; tag basic ; transcript_id "TLK2--FAM157A^ENST00000437428.3" ; transcript_name "FAM157A-201" ; transcript_support_level 3 ; 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
491 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 1 seconds -------------------------------
----------------------------- Check10: check utrs ------------------------------
1088 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 39 wrong level1 location cases
------------------------------ done in 0 seconds -------------------------------
---------------------- Check13: remove identical isoforms ----------------------
None found
------------------------------ done in 0 seconds -------------------------------
------ End checks (done in 1 second) ------
GFF3 file parsed