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: 4508
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 4508
=> 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:4508
=> Some common attributes and some Parent attributes missing.
/!\ For features where both are missing A single Level2 features (e.g. mRNA) and a single level1 (e.g. gene) will be created by AGAT, and all level3 feautres (e,g, CDS,exon) will be attached to them. This is probably not what you want...
see B. 2.2 and 3. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
/!\ For features where the common attribute or the parent attribute is missing, it would be fine as long as you do not expect isoforms in your annotation (Eukaryote). see B. 4. at https://agat.readthedocs.io/en/latest/agat_how_does_it_work.html
!! You might try to fix the issue by choosing a common tag attribute to use in order to group the features correctly (parameter --ct in agat_convert_sp_gxf2gxf.pl).
=> Version of the Bioperl GFF parser selected by AGAT: 2
------ End parsing (done in 1 second) ------
------ Start checks ------
---------------------------- Check1: feature types -----------------------------
----------------------------------- ontology -----------------------------------
All feature types in agreement with the Ontology.
------------------------------------- agat -------------------------------------
AGAT can deal with all the encountered feature types (3rd column)
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check2: duplicates ------------------------------
None found
------------------------------ done in 0 seconds -------------------------------
-------------------------- Check3: sequential bucket ---------------------------
Nothing to check as sequential bucket!
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check4: l2 linked to l3 ----------------------------
L1 and L2 created:
AC092807.3--DDAH1 HAVANA gene 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
AC092807.3--DDAH1 HAVANA mRNA 13647 23704 . + . FI_gene_label "DDAH1^ENSG00000153904.21" ; ID "AC092807.3--DDAH1^ENST00000284031.13" ; Parent "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; ccdsid "CCDS705.1" ; exon_id "ENSE00001013010.7" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21" ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3" ; havana_transcript "OTTHUMT00000029189.3" ; hgnc_id "HGNC:2715" ; level 2 ; orig_coord_info "chr1,85464743,85465045,-" ; protein_id "ENSP00000284031.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13" ; transcript_name "DDAH1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ANKFN1--IKZF3 HAVANA gene 49937 59492 . + . FI_gene_label "IKZF3^ENSG00000161405.17" ; ID "ANKFN1--IKZF3^IKZF3^ENSG00000161405.17" ; exon_id "ENSE00002692875.1" ; exon_number 1 ; gene_id "ANKFN1--IKZF3^IKZF3^ENSG00000161405.17" ; gene_name IKZF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133250.5" ; havana_transcript "OTTHUMT00000257011.2" ; hgnc_id "HGNC:13178" ; level 2 ; orig_coord_info "chr17,39864120,39864126,-" ; protein_id "ENSP00000462791.1" ; transcript_id "ANKFN1--IKZF3^ENST00000293068.9" ; transcript_name "IKZF3-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
ANKFN1--IKZF3 HAVANA mRNA 49937 59492 . + . FI_gene_label "IKZF3^ENSG00000161405.17" ; ID "ANKFN1--IKZF3^ENST00000293068.9" ; Parent "ANKFN1--IKZF3^IKZF3^ENSG00000161405.17" ; exon_id "ENSE00002692875.1" ; exon_number 1 ; gene_id "ANKFN1--IKZF3^IKZF3^ENSG00000161405.17" ; gene_name IKZF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133250.5" ; havana_transcript "OTTHUMT00000257011.2" ; hgnc_id "HGNC:13178" ; level 2 ; orig_coord_info "chr17,39864120,39864126,-" ; protein_id "ENSP00000462791.1" ; transcript_id "ANKFN1--IKZF3^ENST00000293068.9" ; transcript_name "IKZF3-201" ; transcript_support_level 1 ; transcript_type nonsense_mediated_decay
L1 and L2 created:
ANKFN1--IKZF3 HAVANA gene 7779 42241 . + . FI_gene_label "ANKFN1^ENSG00000153930.12" ; ID "ANKFN1--IKZF3^ANKFN1^ENSG00000153930.12" ; ccdsid "CCDS32686.1" ; exon_id "ENSE00001239155.3" ; exon_number 1 ; gene_id "ANKFN1--IKZF3^ANKFN1^ENSG00000153930.12" ; gene_name ANKFN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155010.6" ; havana_transcript "OTTHUMT00000338043.1" ; hgnc_id "HGNC:26766" ; level 2 ; orig_coord_info "chr17,56153510,56153530,+" ; protein_id "ENSP00000321627.2" ; tag basic appris_principal_2 CCDS ; transcript_id "ANKFN1--IKZF3^ENST00000318698.6" ; transcript_name "ANKFN1-201" ; transcript_support_level 2 ; transcript_type protein_coding
ANKFN1--IKZF3 HAVANA mRNA 7779 42241 . + . FI_gene_label "ANKFN1^ENSG00000153930.12" ; ID "ANKFN1--IKZF3^ENST00000318698.6" ; Parent "ANKFN1--IKZF3^ANKFN1^ENSG00000153930.12" ; ccdsid "CCDS32686.1" ; exon_id "ENSE00001239155.3" ; exon_number 1 ; gene_id "ANKFN1--IKZF3^ANKFN1^ENSG00000153930.12" ; gene_name ANKFN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155010.6" ; havana_transcript "OTTHUMT00000338043.1" ; hgnc_id "HGNC:26766" ; level 2 ; orig_coord_info "chr17,56153510,56153530,+" ; protein_id "ENSP00000321627.2" ; tag basic appris_principal_2 CCDS ; transcript_id "ANKFN1--IKZF3^ENST00000318698.6" ; transcript_name "ANKFN1-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
ANKIB1--RUNDC3B HAVANA gene 1001 28206 . + . FI_gene_label "ANKIB1^ENSG00000001629.10" ; ID "ANKIB1--RUNDC3B^ANKIB1^ENSG00000001629.10" ; ccdsid "CCDS47639.1" ; exon_id "ENSE00000705085.1" ; exon_number 2 ; gene_id "ANKIB1--RUNDC3B^ANKIB1^ENSG00000001629.10" ; gene_name ANKIB1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155859.3" ; havana_transcript "OTTHUMT00000342018.2" ; hgnc_id "HGNC:22215" ; level 2 ; orig_coord_info "chr7,92294979,92295166,+" ; protein_id "ENSP00000265742.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ANKIB1--RUNDC3B^ENST00000265742.8" ; transcript_name "ANKIB1-201" ; transcript_support_level 1 ; transcript_type protein_coding
ANKIB1--RUNDC3B HAVANA mRNA 1001 28206 . + . FI_gene_label "ANKIB1^ENSG00000001629.10" ; ID "ANKIB1--RUNDC3B^ENST00000265742.8" ; Parent "ANKIB1--RUNDC3B^ANKIB1^ENSG00000001629.10" ; ccdsid "CCDS47639.1" ; exon_id "ENSE00000705085.1" ; exon_number 2 ; gene_id "ANKIB1--RUNDC3B^ANKIB1^ENSG00000001629.10" ; gene_name ANKIB1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155859.3" ; havana_transcript "OTTHUMT00000342018.2" ; hgnc_id "HGNC:22215" ; level 2 ; orig_coord_info "chr7,92294979,92295166,+" ; protein_id "ENSP00000265742.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ANKIB1--RUNDC3B^ENST00000265742.8" ; transcript_name "ANKIB1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ANKIB1--RUNDC3B HAVANA gene 32072 48814 . + . FI_gene_label "RUNDC3B^ENSG00000105784.15" ; ID "ANKIB1--RUNDC3B^RUNDC3B^ENSG00000105784.15" ; ccdsid "CCDS5609.1" ; exon_id "ENSE00001120801.1" ; exon_number 1 ; gene_id "ANKIB1--RUNDC3B^RUNDC3B^ENSG00000105784.15" ; gene_name RUNDC3B ; gene_type protein_coding ; havana_gene "OTTHUMG00000131035.4" ; havana_transcript "OTTHUMT00000253679.1" ; hgnc_id "HGNC:30286" ; level 2 ; orig_coord_info "chr7,87628824,87628945,+" ; protein_id "ENSP00000337732.3" ; tag basic CCDS ; transcript_id "ANKIB1--RUNDC3B^ENST00000338056.7" ; transcript_name "RUNDC3B-202" ; transcript_support_level 2 ; transcript_type protein_coding
ANKIB1--RUNDC3B HAVANA mRNA 32072 48814 . + . FI_gene_label "RUNDC3B^ENSG00000105784.15" ; ID "ANKIB1--RUNDC3B^ENST00000338056.7" ; Parent "ANKIB1--RUNDC3B^RUNDC3B^ENSG00000105784.15" ; ccdsid "CCDS5609.1" ; exon_id "ENSE00001120801.1" ; exon_number 1 ; gene_id "ANKIB1--RUNDC3B^RUNDC3B^ENSG00000105784.15" ; gene_name RUNDC3B ; gene_type protein_coding ; havana_gene "OTTHUMG00000131035.4" ; havana_transcript "OTTHUMT00000253679.1" ; hgnc_id "HGNC:30286" ; level 2 ; orig_coord_info "chr7,87628824,87628945,+" ; protein_id "ENSP00000337732.3" ; tag basic CCDS ; transcript_id "ANKIB1--RUNDC3B^ENST00000338056.7" ; transcript_name "RUNDC3B-202" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
CISD3--AC011447.3 HAVANA gene 1001 5429 . + . FI_gene_label "CISD3^ENSG00000277972.2" ; ID "CISD3--AC011447.3^CISD3^ENSG00000277972.2" ; ccdsid "CCDS45662.1" ; exon_id "ENSE00003749580.2" ; exon_number 1 ; gene_id "CISD3--AC011447.3^CISD3^ENSG00000277972.2" ; gene_name CISD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000188500.2" ; havana_transcript "OTTHUMT00000477444.2" ; hgnc_id "HGNC:27578" ; level 2 ; orig_coord_info "chr17,38730359,38730406,+" ; protein_id "ENSP00000483781.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CISD3--AC011447.3^ENST00000613478.2" ; transcript_name "CISD3-204" ; transcript_support_level 2 ; transcript_type protein_coding
CISD3--AC011447.3 HAVANA mRNA 1001 5429 . + . FI_gene_label "CISD3^ENSG00000277972.2" ; ID "CISD3--AC011447.3^ENST00000613478.2" ; Parent "CISD3--AC011447.3^CISD3^ENSG00000277972.2" ; ccdsid "CCDS45662.1" ; exon_id "ENSE00003749580.2" ; exon_number 1 ; gene_id "CISD3--AC011447.3^CISD3^ENSG00000277972.2" ; gene_name CISD3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000188500.2" ; havana_transcript "OTTHUMT00000477444.2" ; hgnc_id "HGNC:27578" ; level 2 ; orig_coord_info "chr17,38730359,38730406,+" ; protein_id "ENSP00000483781.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CISD3--AC011447.3^ENST00000613478.2" ; transcript_name "CISD3-204" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
CRTC1--CR381653.1 HAVANA gene 1003 22034 . + . FI_gene_label "CRTC1^ENSG00000105662.16" ; ID "CRTC1--CR381653.1^CRTC1^ENSG00000105662.16" ; ccdsid "CCDS32963.1" ; exon_id "ENSE00003001563.2" ; exon_number 1 ; gene_id "CRTC1--CR381653.1^CRTC1^ENSG00000105662.16" ; gene_name CRTC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000183115.5" ; havana_transcript "OTTHUMT00000465151.4" ; hgnc_id "HGNC:16062" ; level 2 ; orig_coord_info "chr19,18683703,18683828,+" ; protein_id "ENSP00000323332.7" ; tag non_canonical_U12 basic MANE_Select appris_principal_4 CCDS ; transcript_id "CRTC1--CR381653.1^ENST00000321949.13" ; transcript_name "CRTC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CRTC1--CR381653.1 HAVANA mRNA 1003 22034 . + . FI_gene_label "CRTC1^ENSG00000105662.16" ; ID "CRTC1--CR381653.1^ENST00000321949.13" ; Parent "CRTC1--CR381653.1^CRTC1^ENSG00000105662.16" ; ccdsid "CCDS32963.1" ; exon_id "ENSE00003001563.2" ; exon_number 1 ; gene_id "CRTC1--CR381653.1^CRTC1^ENSG00000105662.16" ; gene_name CRTC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000183115.5" ; havana_transcript "OTTHUMT00000465151.4" ; hgnc_id "HGNC:16062" ; level 2 ; orig_coord_info "chr19,18683703,18683828,+" ; protein_id "ENSP00000323332.7" ; tag non_canonical_U12 basic MANE_Select appris_principal_4 CCDS ; transcript_id "CRTC1--CR381653.1^ENST00000321949.13" ; transcript_name "CRTC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CRTC1--TEKT4P2 HAVANA gene 1003 22034 . + . FI_gene_label "CRTC1^ENSG00000105662.16" ; ID "CRTC1--TEKT4P2^CRTC1^ENSG00000105662.16" ; ccdsid "CCDS32963.1" ; exon_id "ENSE00003001563.2" ; exon_number 1 ; gene_id "CRTC1--TEKT4P2^CRTC1^ENSG00000105662.16" ; gene_name CRTC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000183115.5" ; havana_transcript "OTTHUMT00000465151.4" ; hgnc_id "HGNC:16062" ; level 2 ; orig_coord_info "chr19,18683703,18683828,+" ; protein_id "ENSP00000323332.7" ; tag non_canonical_U12 basic MANE_Select appris_principal_4 CCDS ; transcript_id "CRTC1--TEKT4P2^ENST00000321949.13" ; transcript_name "CRTC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CRTC1--TEKT4P2 HAVANA mRNA 1003 22034 . + . FI_gene_label "CRTC1^ENSG00000105662.16" ; ID "CRTC1--TEKT4P2^ENST00000321949.13" ; Parent "CRTC1--TEKT4P2^CRTC1^ENSG00000105662.16" ; ccdsid "CCDS32963.1" ; exon_id "ENSE00003001563.2" ; exon_number 1 ; gene_id "CRTC1--TEKT4P2^CRTC1^ENSG00000105662.16" ; gene_name CRTC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000183115.5" ; havana_transcript "OTTHUMT00000465151.4" ; hgnc_id "HGNC:16062" ; level 2 ; orig_coord_info "chr19,18683703,18683828,+" ; protein_id "ENSP00000323332.7" ; tag non_canonical_U12 basic MANE_Select appris_principal_4 CCDS ; transcript_id "CRTC1--TEKT4P2^ENST00000321949.13" ; transcript_name "CRTC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
DOCK8--PGM5P3-AS1 HAVANA gene 25669 65842 . + . FI_gene_label "DOCK8^ENSG00000107099.16" ; ID "DOCK8--PGM5P3-AS1^DOCK8^ENSG00000107099.16" ; exon_id "ENSE00001491729.1" ; exon_number 2 ; gene_id "DOCK8--PGM5P3-AS1^DOCK8^ENSG00000107099.16" ; gene_name DOCK8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000078789.9" ; havana_transcript "OTTHUMT00000192534.2" ; hgnc_id "HGNC:19191" ; level 2 ; orig_coord_info "chr9,368103,368300,+" ; protein_id "ENSP00000371766.1" ; tag basic ; transcript_id "DOCK8--PGM5P3-AS1^ENST00000382329.1" ; transcript_name "DOCK8-201" ; transcript_support_level 1 ; transcript_type protein_coding
DOCK8--PGM5P3-AS1 HAVANA mRNA 25669 65842 . + . FI_gene_label "DOCK8^ENSG00000107099.16" ; ID "DOCK8--PGM5P3-AS1^ENST00000382329.1" ; Parent "DOCK8--PGM5P3-AS1^DOCK8^ENSG00000107099.16" ; exon_id "ENSE00001491729.1" ; exon_number 2 ; gene_id "DOCK8--PGM5P3-AS1^DOCK8^ENSG00000107099.16" ; gene_name DOCK8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000078789.9" ; havana_transcript "OTTHUMT00000192534.2" ; hgnc_id "HGNC:19191" ; level 2 ; orig_coord_info "chr9,368103,368300,+" ; protein_id "ENSP00000371766.1" ; tag basic ; transcript_id "DOCK8--PGM5P3-AS1^ENST00000382329.1" ; transcript_name "DOCK8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
DOCK8--PGM5P4-AS1 HAVANA gene 25669 65842 . + . FI_gene_label "DOCK8^ENSG00000107099.16" ; ID "DOCK8--PGM5P4-AS1^DOCK8^ENSG00000107099.16" ; exon_id "ENSE00001491729.1" ; exon_number 2 ; gene_id "DOCK8--PGM5P4-AS1^DOCK8^ENSG00000107099.16" ; gene_name DOCK8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000078789.9" ; havana_transcript "OTTHUMT00000192534.2" ; hgnc_id "HGNC:19191" ; level 2 ; orig_coord_info "chr9,368103,368300,+" ; protein_id "ENSP00000371766.1" ; tag basic ; transcript_id "DOCK8--PGM5P4-AS1^ENST00000382329.1" ; transcript_name "DOCK8-201" ; transcript_support_level 1 ; transcript_type protein_coding
DOCK8--PGM5P4-AS1 HAVANA mRNA 25669 65842 . + . FI_gene_label "DOCK8^ENSG00000107099.16" ; ID "DOCK8--PGM5P4-AS1^ENST00000382329.1" ; Parent "DOCK8--PGM5P4-AS1^DOCK8^ENSG00000107099.16" ; exon_id "ENSE00001491729.1" ; exon_number 2 ; gene_id "DOCK8--PGM5P4-AS1^DOCK8^ENSG00000107099.16" ; gene_name DOCK8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000078789.9" ; havana_transcript "OTTHUMT00000192534.2" ; hgnc_id "HGNC:19191" ; level 2 ; orig_coord_info "chr9,368103,368300,+" ; protein_id "ENSP00000371766.1" ; tag basic ; transcript_id "DOCK8--PGM5P4-AS1^ENST00000382329.1" ; transcript_name "DOCK8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LHFPL5--CLPSL1 HAVANA gene 3397 10913 . + . FI_gene_label "LHFPL5^ENSG00000197753.11" ; ID "LHFPL5--CLPSL1^LHFPL5^ENSG00000197753.11" ; ccdsid "CCDS4812.1" ; exon_id "ENSE00003831190.2" ; exon_number 1 ; gene_id "LHFPL5--CLPSL1^LHFPL5^ENSG00000197753.11" ; gene_name LHFPL5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014584.6" ; havana_transcript "OTTHUMT00000040323.4" ; hgnc_id "HGNC:21253" ; level 2 ; orig_coord_info "chr6,35805671,35806082,+" ; protein_id "ENSP00000353346.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHFPL5--CLPSL1^ENST00000360215.3" ; transcript_name "LHFPL5-201" ; transcript_support_level 1 ; transcript_type protein_coding
LHFPL5--CLPSL1 HAVANA mRNA 3397 10913 . + . FI_gene_label "LHFPL5^ENSG00000197753.11" ; ID "LHFPL5--CLPSL1^ENST00000360215.3" ; Parent "LHFPL5--CLPSL1^LHFPL5^ENSG00000197753.11" ; ccdsid "CCDS4812.1" ; exon_id "ENSE00003831190.2" ; exon_number 1 ; gene_id "LHFPL5--CLPSL1^LHFPL5^ENSG00000197753.11" ; gene_name LHFPL5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014584.6" ; havana_transcript "OTTHUMT00000040323.4" ; hgnc_id "HGNC:21253" ; level 2 ; orig_coord_info "chr6,35805671,35806082,+" ; protein_id "ENSP00000353346.1" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHFPL5--CLPSL1^ENST00000360215.3" ; transcript_name "LHFPL5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LHFPL5--CLPSL1 HAVANA gene 20636 22979 . + . FI_gene_label "CLPSL1^ENSG00000204140.10" ; ID "LHFPL5--CLPSL1^CLPSL1^ENSG00000204140.10" ; ccdsid "CCDS43456.1" ; exon_id "ENSE00001569343.4" ; exon_number 1 ; gene_id "LHFPL5--CLPSL1^CLPSL1^ENSG00000204140.10" ; gene_name CLPSL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014582.3" ; havana_transcript "OTTHUMT00000040317.3" ; hgnc_id "HGNC:21251" ; level 2 ; orig_coord_info "chr6,35781111,35781209,+" ; protein_id "ENSP00000362968.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHFPL5--CLPSL1^ENST00000373861.6" ; transcript_name "CLPSL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LHFPL5--CLPSL1 HAVANA mRNA 20636 22979 . + . FI_gene_label "CLPSL1^ENSG00000204140.10" ; ID "LHFPL5--CLPSL1^ENST00000373861.6" ; Parent "LHFPL5--CLPSL1^CLPSL1^ENSG00000204140.10" ; ccdsid "CCDS43456.1" ; exon_id "ENSE00001569343.4" ; exon_number 1 ; gene_id "LHFPL5--CLPSL1^CLPSL1^ENSG00000204140.10" ; gene_name CLPSL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014582.3" ; havana_transcript "OTTHUMT00000040317.3" ; hgnc_id "HGNC:21251" ; level 2 ; orig_coord_info "chr6,35781111,35781209,+" ; protein_id "ENSP00000362968.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "LHFPL5--CLPSL1^ENST00000373861.6" ; transcript_name "CLPSL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHA13 HAVANA gene 16359 24799 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA10--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA10--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA10--PCDHA13 HAVANA mRNA 16359 24799 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA10--PCDHA13^ENST00000289272.3" ; Parent "PCDHA10--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA10--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHA13 HAVANA gene 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHA13^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHA13^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHA13^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA10--PCDHA13 HAVANA mRNA 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHA13^ENST00000562220.2" ; Parent "PCDHA10--PCDHA13^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHA13^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHA13^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHAC1 HAVANA gene 16359 26374 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA10--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA10--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA10--PCDHAC1 HAVANA mRNA 16359 26374 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA10--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA10--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA10--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHAC1 HAVANA gene 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHAC1^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC1^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHAC1^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA10--PCDHAC1 HAVANA mRNA 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHAC1^ENST00000562220.2" ; Parent "PCDHA10--PCDHAC1^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC1^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHAC1^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHAC2 HAVANA gene 16365 27100 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA10--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA10--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA10--PCDHAC2 HAVANA mRNA 16365 27100 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA10--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA10--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA10--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA10--PCDHAC2 HAVANA gene 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHAC2^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC2^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHAC2^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA10--PCDHAC2 HAVANA mRNA 1001 13358 . + . FI_gene_label "PCDHA10^ENSG00000250120.8" ; ID "PCDHA10--PCDHAC2^ENST00000562220.2" ; Parent "PCDHA10--PCDHAC2^PCDHA10^ENSG00000250120.8" ; ccdsid "CCDS75325.1" ; exon_id "ENSE00002616704.2" ; exon_number 1 ; gene_id "PCDHA10--PCDHAC2^PCDHA10^ENSG00000250120.8" ; gene_name PCDHA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163372.5" ; havana_transcript "OTTHUMT00000477562.1" ; hgnc_id "HGNC:8664" ; level 2 ; orig_coord_info "chr5,140856049,140858580,+" ; protein_id "ENSP00000478748.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHA10--PCDHAC2^ENST00000562220.2" ; transcript_name "PCDHA10-203" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHA13 HAVANA gene 8595 17035 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA3--PCDHA13 HAVANA mRNA 8595 17035 . + . FI_gene_label "PCDHA13^ENSG00000239389.8" ; ID "PCDHA3--PCDHA13^ENST00000289272.3" ; Parent "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; ccdsid "CCDS4240.1" ; exon_id "ENSE00001038419.2" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA13^ENSG00000239389.8" ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4" ; havana_transcript "OTTHUMT00000335000.2" ; hgnc_id "HGNC:8667" ; level 2 ; orig_coord_info "chr5,140882269,140884662,+" ; protein_id "ENSP00000289272.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHA13^ENST00000289272.3" ; transcript_name "PCDHA13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHA13 HAVANA gene 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHA13^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA3--PCDHA13 HAVANA mRNA 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHA13^ENST00000532566.3" ; Parent "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHA13^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHA13^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC1 HAVANA gene 8595 18610 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA3--PCDHAC1 HAVANA mRNA 8595 18610 . + . FI_gene_label "PCDHAC1^ENSG00000248383.5" ; ID "PCDHA3--PCDHAC1^ENST00000253807.3" ; Parent "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; ccdsid "CCDS4241.1" ; exon_id "ENSE00001085780.5" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHAC1^ENSG00000248383.5" ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3" ; havana_transcript "OTTHUMT00000251798.1" ; hgnc_id "HGNC:8676" ; level 2 ; orig_coord_info "chr5,140926893,140929325,+" ; protein_id "ENSP00000253807.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHAC1^ENST00000253807.3" ; transcript_name "PCDHAC1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC1 HAVANA gene 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC1^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA3--PCDHAC1 HAVANA mRNA 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC1^ENST00000532566.3" ; Parent "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC1^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC1^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC2 HAVANA gene 8601 19336 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA3--PCDHAC2 HAVANA mRNA 8601 19336 . + . FI_gene_label "PCDHAC2^ENSG00000243232.6" ; ID "PCDHA3--PCDHAC2^ENST00000289269.7" ; Parent "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; ccdsid "CCDS4242.1" ; exon_id "ENSE00001038414.4" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHAC2^ENSG00000243232.6" ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7" ; havana_transcript "OTTHUMT00000251802.4" ; hgnc_id "HGNC:8677" ; level 2 ; orig_coord_info "chr5,140966767,140969331,+" ; protein_id "ENSP00000289269.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA3--PCDHAC2^ENST00000289269.7" ; transcript_name "PCDHAC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHA3--PCDHAC2 HAVANA gene 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC2^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHA3--PCDHAC2 HAVANA mRNA 1001 5594 . + . FI_gene_label "PCDHA3^ENSG00000255408.4" ; ID "PCDHA3--PCDHAC2^ENST00000532566.3" ; Parent "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; exon_id "ENSE00002153432.3" ; exon_number 1 ; gene_id "PCDHA3--PCDHAC2^PCDHA3^ENSG00000255408.4" ; gene_name PCDHA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163357.4" ; havana_transcript "OTTHUMT00000477482.1" ; hgnc_id "HGNC:8669" ; level 2 ; orig_coord_info "chr5,140801198,140803669,+" ; protein_id "ENSP00000434086.2" ; tag RNA_Seq_supported_partial basic ; transcript_id "PCDHA3--PCDHAC2^ENST00000532566.3" ; transcript_name "PCDHA3-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA10 HAVANA gene 7742 17195 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGA5--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGA10 HAVANA mRNA 7742 17195 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGA5--PCDHGA10^ENST00000398610.2" ; Parent "PCDHGA5--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA10 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA10^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA10^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA10^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGA10 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA10^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGA10^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA10^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA10^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA11 HAVANA gene 7557 16362 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGA5--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGA11 HAVANA mRNA 7557 16362 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGA5--PCDHGA11^ENST00000398587.7" ; Parent "PCDHGA5--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA11 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA11^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA11^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA11^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGA11 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA11^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGA11^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA11^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA11^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA12 HAVANA gene 7553 15445 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGA5--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGA12 HAVANA mRNA 7553 15445 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGA5--PCDHGA12^ENST00000252085.4" ; Parent "PCDHGA5--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA12 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA12^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA12^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA12^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGA12 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA12^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGA12^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA12^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA12^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA8 HAVANA gene 10029 19209 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGA5--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGA8 HAVANA mRNA 10029 19209 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGA5--PCDHGA8^ENST00000398604.3" ; Parent "PCDHGA5--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA8 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA8^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA8^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA8^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGA8 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA8^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGA8^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA8^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA8^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA9 HAVANA gene 7574 15301 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGA5--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGA9 HAVANA mRNA 7574 15301 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGA5--PCDHGA9^ENST00000573521.1" ; Parent "PCDHGA5--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGA9 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA9^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA9^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA9^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGA9 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGA9^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGA9^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGA9^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGA9^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGB6 HAVANA gene 7735 17334 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGA5--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGB6 HAVANA mRNA 7735 17334 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGA5--PCDHGB6^ENST00000520790.1" ; Parent "PCDHGA5--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGB6 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGB6^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGB6^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGB6^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGB6 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGB6^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGB6^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGB6^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGB6^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGB7 HAVANA gene 7585 15514 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGA5--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGB7 HAVANA mRNA 7585 15514 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGA5--PCDHGB7^ENST00000398594.4" ; Parent "PCDHGA5--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGB7 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGB7^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGB7^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGB7^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGB7 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGB7^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGB7^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGB7^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGB7^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGC3 HAVANA gene 7572 17758 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGA5--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGC3 HAVANA mRNA 7572 17758 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGA5--PCDHGC3^ENST00000308177.5" ; Parent "PCDHGA5--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGC3 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGC3^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGC3^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGC3^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGC3 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGC3^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGC3^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGC3^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGC3^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGC4 HAVANA gene 7730 15526 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGA5--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGC4 HAVANA mRNA 7730 15526 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGA5--PCDHGC4^ENST00000306593.1" ; Parent "PCDHGA5--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGC4 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGC4^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGC4^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGC4^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGC4 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGC4^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGC4^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGC4^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGC4^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGC5 HAVANA gene 7553 15578 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGA5--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGA5--PCDHGC5 HAVANA mRNA 7553 15578 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGA5--PCDHGC5^ENST00000252087.3" ; Parent "PCDHGA5--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGA5--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 "PCDHGA5--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGA5--PCDHGC5 HAVANA gene 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGC5^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGC5^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGC5^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGA5--PCDHGC5 HAVANA mRNA 1001 4552 . + . FI_gene_label "PCDHGA5^ENSG00000253485.2" ; ID "PCDHGA5--PCDHGC5^ENST00000611914.1" ; Parent "PCDHGA5--PCDHGC5^PCDHGA5^ENSG00000253485.2" ; ccdsid "CCDS75333.1" ; exon_id "ENSE00003746232.1" ; exon_number 1 ; gene_id "PCDHGA5--PCDHGC5^PCDHGA5^ENSG00000253485.2" ; gene_name PCDHGA5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163683.2" ; havana_transcript "OTTHUMT00000476686.1" ; hgnc_id "HGNC:8703" ; level 2 ; orig_coord_info "chr5,141364331,141366769,+" ; protein_id "ENSP00000480337.1" ; tag RNA_Seq_supported_partial basic CCDS ; transcript_id "PCDHGA5--PCDHGC5^ENST00000611914.1" ; transcript_name "PCDHGA5-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCGF2--AC011447.3 HAVANA gene 8765 10461 . + . FI_gene_label "PCGF2^ENSG00000277258.5" ; ID "PCGF2--AC011447.3^PCGF2^ENSG00000277258.5" ; exon_id "ENSE00003739135.1" ; exon_number 1 ; gene_id "PCGF2--AC011447.3^PCGF2^ENSG00000277258.5" ; gene_name PCGF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000188501.3" ; havana_transcript "OTTHUMT00000477448.1" ; hgnc_id "HGNC:12929" ; level 2 ; orig_coord_info "chr17,38735492,38735596,-" ; protein_id "ENSP00000483741.1" ; tag mRNA_start_NF cds_start_NF ; transcript_id "PCGF2--AC011447.3^ENST00000610747.1" ; transcript_name "PCGF2-201" ; transcript_support_level 2 ; transcript_type protein_coding
PCGF2--AC011447.3 HAVANA mRNA 8765 10461 . + . FI_gene_label "PCGF2^ENSG00000277258.5" ; ID "PCGF2--AC011447.3^ENST00000610747.1" ; Parent "PCGF2--AC011447.3^PCGF2^ENSG00000277258.5" ; exon_id "ENSE00003739135.1" ; exon_number 1 ; gene_id "PCGF2--AC011447.3^PCGF2^ENSG00000277258.5" ; gene_name PCGF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000188501.3" ; havana_transcript "OTTHUMT00000477448.1" ; hgnc_id "HGNC:12929" ; level 2 ; orig_coord_info "chr17,38735492,38735596,-" ; protein_id "ENSP00000483741.1" ; tag mRNA_start_NF cds_start_NF ; transcript_id "PCGF2--AC011447.3^ENST00000610747.1" ; transcript_name "PCGF2-201" ; transcript_support_level 2 ; 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:
TEX2--STRADA HAVANA gene 27279 48071 . + . FI_gene_label "STRADA^ENSG00000266173.7" ; ID "TEX2--STRADA^STRADA^ENSG00000266173.7" ; exon_id "ENSE00003556671.1" ; exon_number 4 ; gene_id "TEX2--STRADA^STRADA^ENSG00000266173.7" ; gene_name STRADA ; gene_type protein_coding ; havana_gene "OTTHUMG00000178908.13" ; havana_transcript "OTTHUMT00000443889.2" ; hgnc_id "HGNC:30172" ; level 2 ; orig_coord_info "chr17,63714006,63714057,-" ; protein_id "ENSP00000245865.5" ; tag basic ; transcript_id "TEX2--STRADA^ENST00000245865.10" ; transcript_name "STRADA-201" ; transcript_support_level 1 ; transcript_type protein_coding
TEX2--STRADA HAVANA mRNA 27279 48071 . + . FI_gene_label "STRADA^ENSG00000266173.7" ; ID "TEX2--STRADA^ENST00000245865.10" ; Parent "TEX2--STRADA^STRADA^ENSG00000266173.7" ; exon_id "ENSE00003556671.1" ; exon_number 4 ; gene_id "TEX2--STRADA^STRADA^ENSG00000266173.7" ; gene_name STRADA ; gene_type protein_coding ; havana_gene "OTTHUMG00000178908.13" ; havana_transcript "OTTHUMT00000443889.2" ; hgnc_id "HGNC:30172" ; level 2 ; orig_coord_info "chr17,63714006,63714057,-" ; protein_id "ENSP00000245865.5" ; tag basic ; transcript_id "TEX2--STRADA^ENST00000245865.10" ; transcript_name "STRADA-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TEX2--STRADA HAVANA gene 1034 24053 . + . FI_gene_label "TEX2^ENSG00000136478.8" ; ID "TEX2--STRADA^TEX2^ENSG00000136478.8" ; ccdsid "CCDS11658.1" ; exon_id "ENSE00001324420.1" ; exon_number 2 ; gene_id "TEX2--STRADA^TEX2^ENSG00000136478.8" ; gene_name TEX2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178881.2" ; havana_transcript "OTTHUMT00000443743.1" ; hgnc_id "HGNC:30884" ; level 2 ; orig_coord_info "chr17,64212574,64214217,-" ; protein_id "ENSP00000258991.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "TEX2--STRADA^ENST00000258991.7" ; transcript_name "TEX2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TEX2--STRADA HAVANA mRNA 1034 24053 . + . FI_gene_label "TEX2^ENSG00000136478.8" ; ID "TEX2--STRADA^ENST00000258991.7" ; Parent "TEX2--STRADA^TEX2^ENSG00000136478.8" ; ccdsid "CCDS11658.1" ; exon_id "ENSE00001324420.1" ; exon_number 2 ; gene_id "TEX2--STRADA^TEX2^ENSG00000136478.8" ; gene_name TEX2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178881.2" ; havana_transcript "OTTHUMT00000443743.1" ; hgnc_id "HGNC:30884" ; level 2 ; orig_coord_info "chr17,64212574,64214217,-" ; protein_id "ENSP00000258991.3" ; tag basic appris_alternative_2 CCDS ; transcript_id "TEX2--STRADA^ENST00000258991.7" ; transcript_name "TEX2-201" ; 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:
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:
UPF1--AC011474.1 HAVANA gene 1001 23784 . + . FI_gene_label "UPF1^ENSG00000005007.13" ; ID "UPF1--AC011474.1^UPF1^ENSG00000005007.13" ; ccdsid "CCDS12386.1" ; exon_id "ENSE00001123172.8" ; exon_number 1 ; gene_id "UPF1--AC011474.1^UPF1^ENSG00000005007.13" ; gene_name UPF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000183025.2" ; havana_transcript "OTTHUMT00000464683.1" ; hgnc_id "HGNC:9962" ; level 2 ; orig_coord_info "chr19,18832210,18832440,+" ; protein_id "ENSP00000262803.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "UPF1--AC011474.1^ENST00000262803.10" ; transcript_name "UPF1-201" ; transcript_support_level 1 ; transcript_type protein_coding
UPF1--AC011474.1 HAVANA mRNA 1001 23784 . + . FI_gene_label "UPF1^ENSG00000005007.13" ; ID "UPF1--AC011474.1^ENST00000262803.10" ; Parent "UPF1--AC011474.1^UPF1^ENSG00000005007.13" ; ccdsid "CCDS12386.1" ; exon_id "ENSE00001123172.8" ; exon_number 1 ; gene_id "UPF1--AC011474.1^UPF1^ENSG00000005007.13" ; gene_name UPF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000183025.2" ; havana_transcript "OTTHUMT00000464683.1" ; hgnc_id "HGNC:9962" ; level 2 ; orig_coord_info "chr19,18832210,18832440,+" ; protein_id "ENSP00000262803.5" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "UPF1--AC011474.1^ENST00000262803.10" ; transcript_name "UPF1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
YIPF2--AF254983.2 HAVANA gene 1001 6180 . + . FI_gene_label "YIPF2^ENSG00000130733.11" ; ID "YIPF2--AF254983.2^YIPF2^ENSG00000130733.11" ; ccdsid "CCDS12251.1" ; exon_id "ENSE00003522764.1" ; exon_number 2 ; gene_id "YIPF2--AF254983.2^YIPF2^ENSG00000130733.11" ; gene_name YIPF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180796.3" ; havana_transcript "OTTHUMT00000453046.2" ; hgnc_id "HGNC:28476" ; level 2 ; orig_coord_info "chr19,10928380,10928410,-" ; protein_id "ENSP00000253031.1" ; tag basic appris_principal_1 CCDS ; transcript_id "YIPF2--AF254983.2^ENST00000253031.6" ; transcript_name "YIPF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
YIPF2--AF254983.2 HAVANA mRNA 1001 6180 . + . FI_gene_label "YIPF2^ENSG00000130733.11" ; ID "YIPF2--AF254983.2^ENST00000253031.6" ; Parent "YIPF2--AF254983.2^YIPF2^ENSG00000130733.11" ; ccdsid "CCDS12251.1" ; exon_id "ENSE00003522764.1" ; exon_number 2 ; gene_id "YIPF2--AF254983.2^YIPF2^ENSG00000130733.11" ; gene_name YIPF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180796.3" ; havana_transcript "OTTHUMT00000453046.2" ; hgnc_id "HGNC:28476" ; level 2 ; orig_coord_info "chr19,10928380,10928410,-" ; protein_id "ENSP00000253031.1" ; tag basic appris_principal_1 CCDS ; transcript_id "YIPF2--AF254983.2^ENST00000253031.6" ; transcript_name "YIPF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
YIPF2--VN1R7P HAVANA gene 1001 6180 . + . FI_gene_label "YIPF2^ENSG00000130733.11" ; ID "YIPF2--VN1R7P^YIPF2^ENSG00000130733.11" ; ccdsid "CCDS12251.1" ; exon_id "ENSE00003522764.1" ; exon_number 2 ; gene_id "YIPF2--VN1R7P^YIPF2^ENSG00000130733.11" ; gene_name YIPF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180796.3" ; havana_transcript "OTTHUMT00000453046.2" ; hgnc_id "HGNC:28476" ; level 2 ; orig_coord_info "chr19,10928380,10928410,-" ; protein_id "ENSP00000253031.1" ; tag basic appris_principal_1 CCDS ; transcript_id "YIPF2--VN1R7P^ENST00000253031.6" ; transcript_name "YIPF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
YIPF2--VN1R7P HAVANA mRNA 1001 6180 . + . FI_gene_label "YIPF2^ENSG00000130733.11" ; ID "YIPF2--VN1R7P^ENST00000253031.6" ; Parent "YIPF2--VN1R7P^YIPF2^ENSG00000130733.11" ; ccdsid "CCDS12251.1" ; exon_id "ENSE00003522764.1" ; exon_number 2 ; gene_id "YIPF2--VN1R7P^YIPF2^ENSG00000130733.11" ; gene_name YIPF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000180796.3" ; havana_transcript "OTTHUMT00000453046.2" ; hgnc_id "HGNC:28476" ; level 2 ; orig_coord_info "chr19,10928380,10928410,-" ; protein_id "ENSP00000253031.1" ; tag basic appris_principal_1 CCDS ; transcript_id "YIPF2--VN1R7P^ENST00000253031.6" ; transcript_name "YIPF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC092807.3--DDAH1 HAVANA gene 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA
AC092807.3--DDAH1 HAVANA RNA 1101 8302 . + . FI_gene_label "AC092807.3^ENSG00000282057.1" ; ID "AC092807.3--DDAH1^ENST00000467530.5" ; Parent "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; exon_id "ENSE00001891111.1" ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1" ; gene_name "AC092807.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6" ; havana_transcript "OTTHUMT00000029193.2" ; level 2 ; orig_coord_info "chr1,85577984,85578150,-" ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5" ; transcript_name "AC092807.3-203" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
CISD3--AC011447.3 HAVANA gene 11770 18394 . + . FI_gene_label "AC011447.3^ENSG00000267383.7" ; ID "CISD3--AC011447.3^AC011447.3^ENSG00000267383.7" ; exon_id "ENSE00002836707.1" ; exon_number 1 ; gene_id "CISD3--AC011447.3^AC011447.3^ENSG00000267383.7" ; gene_name "AC011447.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000180742.4" ; havana_transcript "OTTHUMT00000452861.1" ; level 2 ; orig_coord_info "chr19,20238288,20238460,-" ; transcript_id "CISD3--AC011447.3^ENST00000585498.1" ; transcript_name "AC011447.3-204" ; transcript_support_level 2 ; transcript_type lncRNA
CISD3--AC011447.3 HAVANA RNA 11770 18394 . + . FI_gene_label "AC011447.3^ENSG00000267383.7" ; ID "CISD3--AC011447.3^ENST00000585498.1" ; Parent "CISD3--AC011447.3^AC011447.3^ENSG00000267383.7" ; exon_id "ENSE00002836707.1" ; exon_number 1 ; gene_id "CISD3--AC011447.3^AC011447.3^ENSG00000267383.7" ; gene_name "AC011447.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000180742.4" ; havana_transcript "OTTHUMT00000452861.1" ; level 2 ; orig_coord_info "chr19,20238288,20238460,-" ; transcript_id "CISD3--AC011447.3^ENST00000585498.1" ; transcript_name "AC011447.3-204" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
CRTC1--CR381653.1 HAVANA gene 25035 33128 . + . FI_gene_label "CR381653.1^ENSG00000278932.4" ; ID "CRTC1--CR381653.1^CR381653.1^ENSG00000278932.4" ; exon_id "ENSE00003758425.1" ; exon_number 1 ; gene_id "CRTC1--CR381653.1^CR381653.1^ENSG00000278932.4" ; gene_name "CR381653.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189442.2" ; havana_transcript "OTTHUMT00000479692.1" ; level 2 ; orig_coord_info "chr21,9325013,9325100,+" ; tag basic ; transcript_id "CRTC1--CR381653.1^ENST00000622961.3" ; transcript_name "CR381653.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
CRTC1--CR381653.1 HAVANA RNA 25035 33128 . + . FI_gene_label "CR381653.1^ENSG00000278932.4" ; ID "CRTC1--CR381653.1^ENST00000622961.3" ; Parent "CRTC1--CR381653.1^CR381653.1^ENSG00000278932.4" ; exon_id "ENSE00003758425.1" ; exon_number 1 ; gene_id "CRTC1--CR381653.1^CR381653.1^ENSG00000278932.4" ; gene_name "CR381653.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189442.2" ; havana_transcript "OTTHUMT00000479692.1" ; level 2 ; orig_coord_info "chr21,9325013,9325100,+" ; tag basic ; transcript_id "CRTC1--CR381653.1^ENST00000622961.3" ; transcript_name "CR381653.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
CRTC1--TEKT4P2 HAVANA gene 25035 32000 . + . FI_gene_label "TEKT4P2^ENSG00000188681.11" ; ID "CRTC1--TEKT4P2^TEKT4P2^ENSG00000188681.11" ; exon_id "ENSE00001648449.1" ; exon_number 1 ; gene_id "CRTC1--TEKT4P2^TEKT4P2^ENSG00000188681.11" ; gene_name TEKT4P2 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000172149.2" ; havana_transcript "OTTHUMT00000417115.1" ; hgnc_id "HGNC:40046" ; level 2 ; orig_coord_info "chr21,9129683,9129752,-" ; tag basic ; transcript_id "CRTC1--TEKT4P2^ENST00000416067.5" ; transcript_name "TEKT4P2-201" ; transcript_support_level 1 ; transcript_type processed_transcript
CRTC1--TEKT4P2 HAVANA RNA 25035 32000 . + . FI_gene_label "TEKT4P2^ENSG00000188681.11" ; ID "CRTC1--TEKT4P2^ENST00000416067.5" ; Parent "CRTC1--TEKT4P2^TEKT4P2^ENSG00000188681.11" ; exon_id "ENSE00001648449.1" ; exon_number 1 ; gene_id "CRTC1--TEKT4P2^TEKT4P2^ENSG00000188681.11" ; gene_name TEKT4P2 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000172149.2" ; havana_transcript "OTTHUMT00000417115.1" ; hgnc_id "HGNC:40046" ; level 2 ; orig_coord_info "chr21,9129683,9129752,-" ; tag basic ; transcript_id "CRTC1--TEKT4P2^ENST00000416067.5" ; transcript_name "TEKT4P2-201" ; transcript_support_level 1 ; transcript_type processed_transcript
L1 and L2 created:
DOCK8--PGM5P3-AS1 HAVANA gene 68854 77101 . + . FI_gene_label "PGM5P3-AS1^ENSG00000277631.5" ; ID "DOCK8--PGM5P3-AS1^PGM5P3-AS1^ENSG00000277631.5" ; exon_id "ENSE00003734125.2" ; exon_number 1 ; gene_id "DOCK8--PGM5P3-AS1^PGM5P3-AS1^ENSG00000277631.5" ; gene_name "PGM5P3-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019423.7" ; havana_transcript "OTTHUMT00000051453.3" ; hgnc_id "HGNC:51194" ; level 2 ; orig_coord_info "chr9,72677,72816,+" ; tag basic TAGENE ; transcript_id "DOCK8--PGM5P3-AS1^ENST00000429980.6" ; transcript_name "PGM5P3-AS1-201" ; transcript_support_level 3 ; transcript_type lncRNA
DOCK8--PGM5P3-AS1 HAVANA RNA 68854 77101 . + . FI_gene_label "PGM5P3-AS1^ENSG00000277631.5" ; ID "DOCK8--PGM5P3-AS1^ENST00000429980.6" ; Parent "DOCK8--PGM5P3-AS1^PGM5P3-AS1^ENSG00000277631.5" ; exon_id "ENSE00003734125.2" ; exon_number 1 ; gene_id "DOCK8--PGM5P3-AS1^PGM5P3-AS1^ENSG00000277631.5" ; gene_name "PGM5P3-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000019423.7" ; havana_transcript "OTTHUMT00000051453.3" ; hgnc_id "HGNC:51194" ; level 2 ; orig_coord_info "chr9,72677,72816,+" ; tag basic TAGENE ; transcript_id "DOCK8--PGM5P3-AS1^ENST00000429980.6" ; transcript_name "PGM5P3-AS1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
DOCK8--PGM5P4-AS1 HAVANA gene 68847 74452 . + . FI_gene_label "PGM5P4-AS1^ENSG00000231943.9" ; ID "DOCK8--PGM5P4-AS1^PGM5P4-AS1^ENSG00000231943.9" ; exon_id "ENSE00003841419.1" ; exon_number 1 ; gene_id "DOCK8--PGM5P4-AS1^PGM5P4-AS1^ENSG00000231943.9" ; gene_name "PGM5P4-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000047830.7" ; havana_transcript "OTTHUMT00000330915.2" ; hgnc_id "HGNC:51195" ; level 2 ; orig_coord_info "chr2,113542547,113542694,-" ; tag basic TAGENE ; transcript_id "DOCK8--PGM5P4-AS1^ENST00000416105.2" ; transcript_name "PGM5P4-AS1-201" ; transcript_support_level 3 ; transcript_type lncRNA
DOCK8--PGM5P4-AS1 HAVANA RNA 68847 74452 . + . FI_gene_label "PGM5P4-AS1^ENSG00000231943.9" ; ID "DOCK8--PGM5P4-AS1^ENST00000416105.2" ; Parent "DOCK8--PGM5P4-AS1^PGM5P4-AS1^ENSG00000231943.9" ; exon_id "ENSE00003841419.1" ; exon_number 1 ; gene_id "DOCK8--PGM5P4-AS1^PGM5P4-AS1^ENSG00000231943.9" ; gene_name "PGM5P4-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000047830.7" ; havana_transcript "OTTHUMT00000330915.2" ; hgnc_id "HGNC:51195" ; level 2 ; orig_coord_info "chr2,113542547,113542694,-" ; tag basic TAGENE ; transcript_id "DOCK8--PGM5P4-AS1^ENST00000416105.2" ; transcript_name "PGM5P4-AS1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
PCGF2--AC011447.3 HAVANA gene 16804 23428 . + . FI_gene_label "AC011447.3^ENSG00000267383.7" ; ID "PCGF2--AC011447.3^AC011447.3^ENSG00000267383.7" ; exon_id "ENSE00002836707.1" ; exon_number 1 ; gene_id "PCGF2--AC011447.3^AC011447.3^ENSG00000267383.7" ; gene_name "AC011447.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000180742.4" ; havana_transcript "OTTHUMT00000452861.1" ; level 2 ; orig_coord_info "chr19,20238288,20238460,-" ; transcript_id "PCGF2--AC011447.3^ENST00000585498.1" ; transcript_name "AC011447.3-204" ; transcript_support_level 2 ; transcript_type lncRNA
PCGF2--AC011447.3 HAVANA RNA 16804 23428 . + . FI_gene_label "AC011447.3^ENSG00000267383.7" ; ID "PCGF2--AC011447.3^ENST00000585498.1" ; Parent "PCGF2--AC011447.3^AC011447.3^ENSG00000267383.7" ; exon_id "ENSE00002836707.1" ; exon_number 1 ; gene_id "PCGF2--AC011447.3^AC011447.3^ENSG00000267383.7" ; gene_name "AC011447.3" ; gene_type lncRNA ; havana_gene "OTTHUMG00000180742.4" ; havana_transcript "OTTHUMT00000452861.1" ; level 2 ; orig_coord_info "chr19,20238288,20238460,-" ; transcript_id "PCGF2--AC011447.3^ENST00000585498.1" ; transcript_name "AC011447.3-204" ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
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
L1 and L2 created:
UPF1--AC011474.1 HAVANA gene 26803 29929 . + . FI_gene_label "AC011474.1^ENSG00000264515.6" ; ID "UPF1--AC011474.1^AC011474.1^ENSG00000264515.6" ; exon_id "ENSE00002716199.1" ; exon_number 1 ; gene_id "UPF1--AC011474.1^AC011474.1^ENSG00000264515.6" ; gene_name "AC011474.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000178958.2" ; havana_transcript "OTTHUMT00000444112.1" ; level 2 ; orig_coord_info "chr19,29525424,29525734,-" ; transcript_id "UPF1--AC011474.1^ENST00000577849.1" ; transcript_name "AC011474.1-202" ; transcript_support_level 3 ; transcript_type retained_intron
UPF1--AC011474.1 HAVANA RNA 26803 29929 . + . FI_gene_label "AC011474.1^ENSG00000264515.6" ; ID "UPF1--AC011474.1^ENST00000577849.1" ; Parent "UPF1--AC011474.1^AC011474.1^ENSG00000264515.6" ; exon_id "ENSE00002716199.1" ; exon_number 1 ; gene_id "UPF1--AC011474.1^AC011474.1^ENSG00000264515.6" ; gene_name "AC011474.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000178958.2" ; havana_transcript "OTTHUMT00000444112.1" ; level 2 ; orig_coord_info "chr19,29525424,29525734,-" ; transcript_id "UPF1--AC011474.1^ENST00000577849.1" ; transcript_name "AC011474.1-202" ; transcript_support_level 3 ; transcript_type retained_intron
L1 and L2 created:
YIPF2--AF254983.2 HAVANA gene 9181 9315 . + . FI_gene_label "AF254983.2^ENSG00000278106.1" ; ID "YIPF2--AF254983.2^AF254983.2^ENSG00000278106.1" ; exon_id "ENSE00003752928.1" ; exon_number 1 ; gene_id "YIPF2--AF254983.2^AF254983.2^ENSG00000278106.1" ; gene_name "AF254983.2" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000188251.1" ; havana_transcript "OTTHUMT00000476769.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr21,10397644,10397778,+" ; tag basic ; transcript_id "YIPF2--AF254983.2^ENST00000612331.1" ; transcript_name "AF254983.2-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
YIPF2--AF254983.2 HAVANA RNA 9181 9315 . + . FI_gene_label "AF254983.2^ENSG00000278106.1" ; ID "YIPF2--AF254983.2^ENST00000612331.1" ; Parent "YIPF2--AF254983.2^AF254983.2^ENSG00000278106.1" ; exon_id "ENSE00003752928.1" ; exon_number 1 ; gene_id "YIPF2--AF254983.2^AF254983.2^ENSG00000278106.1" ; gene_name "AF254983.2" ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000188251.1" ; havana_transcript "OTTHUMT00000476769.1" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr21,10397644,10397778,+" ; tag basic ; transcript_id "YIPF2--AF254983.2^ENST00000612331.1" ; transcript_name "AF254983.2-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
L1 and L2 created:
YIPF2--VN1R7P HAVANA gene 9181 10401 . + . FI_gene_label "VN1R7P^ENSG00000275592.1" ; ID "YIPF2--VN1R7P^VN1R7P^ENSG00000275592.1" ; exon_id "ENSE00003745303.1" ; exon_number 1 ; gene_id "YIPF2--VN1R7P^VN1R7P^ENSG00000275592.1" ; gene_name VN1R7P ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188302.1" ; havana_transcript "OTTHUMT00000476852.1" ; hgnc_id "HGNC:8496" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr21,10357400,10357636,+" ; tag basic ; transcript_id "YIPF2--VN1R7P^ENST00000619242.1" ; transcript_name "VN1R7P-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
YIPF2--VN1R7P HAVANA RNA 9181 10401 . + . FI_gene_label "VN1R7P^ENSG00000275592.1" ; ID "YIPF2--VN1R7P^ENST00000619242.1" ; Parent "YIPF2--VN1R7P^VN1R7P^ENSG00000275592.1" ; exon_id "ENSE00003745303.1" ; exon_number 1 ; gene_id "YIPF2--VN1R7P^VN1R7P^ENSG00000275592.1" ; gene_name VN1R7P ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188302.1" ; havana_transcript "OTTHUMT00000476852.1" ; hgnc_id "HGNC:8496" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr21,10357400,10357636,+" ; tag basic ; transcript_id "YIPF2--VN1R7P^ENST00000619242.1" ; transcript_name "VN1R7P-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
382 cases fixed where L3 features have parent feature(s) missing
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--------------------------- 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
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------------------------- Check7: all level3 locations -------------------------
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check8: check cds -------------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
------------------------------ done in 0 seconds -------------------------------
----------------------------- Check10: check utrs ------------------------------
738 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 33 wrong level1 location cases
------------------------------ done in 0 seconds -------------------------------
---------------------- Check13: remove identical isoforms ----------------------
None found
------------------------------ done in 0 seconds -------------------------------
------ End checks (done in 0 second) ------
GFF3 file parsed