Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/75/24eedeba1a34d1379cbb8e158d0a2d/fi_workdir/aih-tih-sc-408cca-R1_A23WJ53LT4_1.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c5/6b2ba65ebaa099e9dea3094f146814/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c5/6b2ba65ebaa099e9dea3094f146814/.command.run
==> STAGING COMPLETE (3 inputs)
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: 4209
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 4209
=> 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:4209
=> 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:
CBFA2T2--POFUT1 HAVANA gene 1022 26338 . + . FI_gene_label "CBFA2T2^ENSG00000078699.22" ; ID "CBFA2T2--POFUT1^CBFA2T2^ENSG00000078699.22" ; ccdsid "CCDS46590.1" ; exon_id "ENSE00001750956.3" ; exon_number 1 ; gene_id "CBFA2T2--POFUT1^CBFA2T2^ENSG00000078699.22" ; gene_name CBFA2T2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032261.6" ; havana_transcript "OTTHUMT00000471953.1" ; hgnc_id "HGNC:1536" ; level 2 ; orig_coord_info "chr20,33490268,33490301,+" ; protein_id "ENSP00000345810.6" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "CBFA2T2--POFUT1^ENST00000342704.11" ; transcript_name "CBFA2T2-201" ; transcript_support_level 1 ; transcript_type protein_coding
CBFA2T2--POFUT1 HAVANA mRNA 1022 26338 . + . FI_gene_label "CBFA2T2^ENSG00000078699.22" ; ID "CBFA2T2--POFUT1^ENST00000342704.11" ; Parent "CBFA2T2--POFUT1^CBFA2T2^ENSG00000078699.22" ; ccdsid "CCDS46590.1" ; exon_id "ENSE00001750956.3" ; exon_number 1 ; gene_id "CBFA2T2--POFUT1^CBFA2T2^ENSG00000078699.22" ; gene_name CBFA2T2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032261.6" ; havana_transcript "OTTHUMT00000471953.1" ; hgnc_id "HGNC:1536" ; level 2 ; orig_coord_info "chr20,33490268,33490301,+" ; protein_id "ENSP00000345810.6" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "CBFA2T2--POFUT1^ENST00000342704.11" ; transcript_name "CBFA2T2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CBFA2T2--POFUT1 HAVANA gene 29358 34150 . + . FI_gene_label "POFUT1^ENSG00000101346.14" ; ID "CBFA2T2--POFUT1^POFUT1^ENSG00000101346.14" ; ccdsid "CCDS13199.1" ; exon_id "ENSE00003532759.1" ; exon_number 1 ; gene_id "CBFA2T2--POFUT1^POFUT1^ENSG00000101346.14" ; gene_name POFUT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133268.3" ; havana_transcript "OTTHUMT00000078614.1" ; hgnc_id "HGNC:14988" ; level 2 ; orig_coord_info "chr20,32207942,32208065,+" ; protein_id "ENSP00000364882.3" ; tag basic CCDS ; transcript_id "CBFA2T2--POFUT1^ENST00000375730.3" ; transcript_name "POFUT1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CBFA2T2--POFUT1 HAVANA mRNA 29358 34150 . + . FI_gene_label "POFUT1^ENSG00000101346.14" ; ID "CBFA2T2--POFUT1^ENST00000375730.3" ; Parent "CBFA2T2--POFUT1^POFUT1^ENSG00000101346.14" ; ccdsid "CCDS13199.1" ; exon_id "ENSE00003532759.1" ; exon_number 1 ; gene_id "CBFA2T2--POFUT1^POFUT1^ENSG00000101346.14" ; gene_name POFUT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000133268.3" ; havana_transcript "OTTHUMT00000078614.1" ; hgnc_id "HGNC:14988" ; level 2 ; orig_coord_info "chr20,32207942,32208065,+" ; protein_id "ENSP00000364882.3" ; tag basic CCDS ; transcript_id "CBFA2T2--POFUT1^ENST00000375730.3" ; transcript_name "POFUT1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
DYNLRB1--ITCH HAVANA gene 10527 45236 . + . FI_gene_label "ITCH^ENSG00000078747.16" ; ID "DYNLRB1--ITCH^ITCH^ENSG00000078747.16" ; ccdsid "CCDS58768.1" ; exon_id "ENSE00003669122.1" ; exon_number 3 ; gene_id "DYNLRB1--ITCH^ITCH^ENSG00000078747.16" ; gene_name ITCH ; gene_type protein_coding ; havana_gene "OTTHUMG00000032300.6" ; havana_transcript "OTTHUMT00000078783.2" ; hgnc_id "HGNC:13890" ; level 2 ; orig_coord_info "chr20,34393812,34393881,+" ; protein_id "ENSP00000262650.5" ; tag basic CCDS ; transcript_id "DYNLRB1--ITCH^ENST00000262650.10" ; transcript_name "ITCH-201" ; transcript_support_level 1 ; transcript_type protein_coding
DYNLRB1--ITCH HAVANA mRNA 10527 45236 . + . FI_gene_label "ITCH^ENSG00000078747.16" ; ID "DYNLRB1--ITCH^ENST00000262650.10" ; Parent "DYNLRB1--ITCH^ITCH^ENSG00000078747.16" ; ccdsid "CCDS58768.1" ; exon_id "ENSE00003669122.1" ; exon_number 3 ; gene_id "DYNLRB1--ITCH^ITCH^ENSG00000078747.16" ; gene_name ITCH ; gene_type protein_coding ; havana_gene "OTTHUMG00000032300.6" ; havana_transcript "OTTHUMT00000078783.2" ; hgnc_id "HGNC:13890" ; level 2 ; orig_coord_info "chr20,34393812,34393881,+" ; protein_id "ENSP00000262650.5" ; tag basic CCDS ; transcript_id "DYNLRB1--ITCH^ENST00000262650.10" ; transcript_name "ITCH-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
DYNLRB1--ITCH HAVANA gene 1031 4909 . + . FI_gene_label "DYNLRB1^ENSG00000125971.17" ; ID "DYNLRB1--ITCH^DYNLRB1^ENSG00000125971.17" ; exon_id "ENSE00001928730.1" ; exon_number 1 ; gene_id "DYNLRB1--ITCH^DYNLRB1^ENSG00000125971.17" ; gene_name DYNLRB1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032302.2" ; havana_transcript "OTTHUMT00000078792.2" ; hgnc_id "HGNC:15468" ; level 2 ; orig_coord_info "chr20,34516459,34516461,+" ; protein_id "ENSP00000300469.9" ; tag basic ; transcript_id "DYNLRB1--ITCH^ENST00000300469.13" ; transcript_name "DYNLRB1-201" ; transcript_support_level 5 ; transcript_type protein_coding
DYNLRB1--ITCH HAVANA mRNA 1031 4909 . + . FI_gene_label "DYNLRB1^ENSG00000125971.17" ; ID "DYNLRB1--ITCH^ENST00000300469.13" ; Parent "DYNLRB1--ITCH^DYNLRB1^ENSG00000125971.17" ; exon_id "ENSE00001928730.1" ; exon_number 1 ; gene_id "DYNLRB1--ITCH^DYNLRB1^ENSG00000125971.17" ; gene_name DYNLRB1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032302.2" ; havana_transcript "OTTHUMT00000078792.2" ; hgnc_id "HGNC:15468" ; level 2 ; orig_coord_info "chr20,34516459,34516461,+" ; protein_id "ENSP00000300469.9" ; tag basic ; transcript_id "DYNLRB1--ITCH^ENST00000300469.13" ; transcript_name "DYNLRB1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
INTS6--TPTE2P5 HAVANA gene 2229 43889 . + . FI_gene_label "INTS6^ENSG00000102786.15" ; ID "INTS6--TPTE2P5^INTS6^ENSG00000102786.15" ; ccdsid "CCDS9428.1" ; exon_id "ENSE00001901770.2" ; exon_number 1 ; gene_id "INTS6--TPTE2P5^INTS6^ENSG00000102786.15" ; gene_name INTS6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016945.7" ; havana_transcript "OTTHUMT00000045023.3" ; hgnc_id "HGNC:14879" ; level 2 ; orig_coord_info "chr13,51452415,51452525,-" ; protein_id "ENSP00000310260.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "INTS6--TPTE2P5^ENST00000311234.9" ; transcript_name "INTS6-201" ; transcript_support_level 1 ; transcript_type protein_coding
INTS6--TPTE2P5 HAVANA mRNA 2229 43889 . + . FI_gene_label "INTS6^ENSG00000102786.15" ; ID "INTS6--TPTE2P5^ENST00000311234.9" ; Parent "INTS6--TPTE2P5^INTS6^ENSG00000102786.15" ; ccdsid "CCDS9428.1" ; exon_id "ENSE00001901770.2" ; exon_number 1 ; gene_id "INTS6--TPTE2P5^INTS6^ENSG00000102786.15" ; gene_name INTS6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016945.7" ; havana_transcript "OTTHUMT00000045023.3" ; hgnc_id "HGNC:14879" ; level 2 ; orig_coord_info "chr13,51452415,51452525,-" ; protein_id "ENSP00000310260.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "INTS6--TPTE2P5^ENST00000311234.9" ; transcript_name "INTS6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ITCH--AL109824.1 HAVANA gene 1072 35781 . + . FI_gene_label "ITCH^ENSG00000078747.16" ; ID "ITCH--AL109824.1^ITCH^ENSG00000078747.16" ; ccdsid "CCDS58768.1" ; exon_id "ENSE00003669122.1" ; exon_number 3 ; gene_id "ITCH--AL109824.1^ITCH^ENSG00000078747.16" ; gene_name ITCH ; gene_type protein_coding ; havana_gene "OTTHUMG00000032300.6" ; havana_transcript "OTTHUMT00000078783.2" ; hgnc_id "HGNC:13890" ; level 2 ; orig_coord_info "chr20,34393812,34393881,+" ; protein_id "ENSP00000262650.5" ; tag basic CCDS ; transcript_id "ITCH--AL109824.1^ENST00000262650.10" ; transcript_name "ITCH-201" ; transcript_support_level 1 ; transcript_type protein_coding
ITCH--AL109824.1 HAVANA mRNA 1072 35781 . + . FI_gene_label "ITCH^ENSG00000078747.16" ; ID "ITCH--AL109824.1^ENST00000262650.10" ; Parent "ITCH--AL109824.1^ITCH^ENSG00000078747.16" ; ccdsid "CCDS58768.1" ; exon_id "ENSE00003669122.1" ; exon_number 3 ; gene_id "ITCH--AL109824.1^ITCH^ENSG00000078747.16" ; gene_name ITCH ; gene_type protein_coding ; havana_gene "OTTHUMG00000032300.6" ; havana_transcript "OTTHUMT00000078783.2" ; hgnc_id "HGNC:13890" ; level 2 ; orig_coord_info "chr20,34393812,34393881,+" ; protein_id "ENSP00000262650.5" ; tag basic CCDS ; transcript_id "ITCH--AL109824.1^ENST00000262650.10" ; transcript_name "ITCH-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ITCH--RFTN1P1 HAVANA gene 1072 35781 . + . FI_gene_label "ITCH^ENSG00000078747.16" ; ID "ITCH--RFTN1P1^ITCH^ENSG00000078747.16" ; ccdsid "CCDS58768.1" ; exon_id "ENSE00003669122.1" ; exon_number 3 ; gene_id "ITCH--RFTN1P1^ITCH^ENSG00000078747.16" ; gene_name ITCH ; gene_type protein_coding ; havana_gene "OTTHUMG00000032300.6" ; havana_transcript "OTTHUMT00000078783.2" ; hgnc_id "HGNC:13890" ; level 2 ; orig_coord_info "chr20,34393812,34393881,+" ; protein_id "ENSP00000262650.5" ; tag basic CCDS ; transcript_id "ITCH--RFTN1P1^ENST00000262650.10" ; transcript_name "ITCH-201" ; transcript_support_level 1 ; transcript_type protein_coding
ITCH--RFTN1P1 HAVANA mRNA 1072 35781 . + . FI_gene_label "ITCH^ENSG00000078747.16" ; ID "ITCH--RFTN1P1^ENST00000262650.10" ; Parent "ITCH--RFTN1P1^ITCH^ENSG00000078747.16" ; ccdsid "CCDS58768.1" ; exon_id "ENSE00003669122.1" ; exon_number 3 ; gene_id "ITCH--RFTN1P1^ITCH^ENSG00000078747.16" ; gene_name ITCH ; gene_type protein_coding ; havana_gene "OTTHUMG00000032300.6" ; havana_transcript "OTTHUMT00000078783.2" ; hgnc_id "HGNC:13890" ; level 2 ; orig_coord_info "chr20,34393812,34393881,+" ; protein_id "ENSP00000262650.5" ; tag basic CCDS ; transcript_id "ITCH--RFTN1P1^ENST00000262650.10" ; transcript_name "ITCH-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA10 HAVANA gene 6778 16231 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; gene_name PCDHGA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163688.2" ; havana_transcript "OTTHUMT00000374747.1" ; hgnc_id "HGNC:8697" ; level 2 ; orig_coord_info "chr5,141413176,141415611,+" ; protein_id "ENSP00000381611.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA10 HAVANA mRNA 6778 16231 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGB2--PCDHGA10^ENST00000398610.2" ; Parent "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; gene_name PCDHGA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163688.2" ; havana_transcript "OTTHUMT00000374747.1" ; hgnc_id "HGNC:8697" ; level 2 ; orig_coord_info "chr5,141413176,141415611,+" ; protein_id "ENSP00000381611.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA10 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA10 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA10^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA11 HAVANA gene 6593 15398 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; gene_name PCDHGA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164055.3" ; havana_transcript "OTTHUMT00000376974.3" ; hgnc_id "HGNC:8698" ; level 2 ; orig_coord_info "chr5,141421228,141423660,+" ; protein_id "ENSP00000381589.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA11 HAVANA mRNA 6593 15398 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGB2--PCDHGA11^ENST00000398587.7" ; Parent "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; gene_name PCDHGA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164055.3" ; havana_transcript "OTTHUMT00000376974.3" ; hgnc_id "HGNC:8698" ; level 2 ; orig_coord_info "chr5,141421228,141423660,+" ; protein_id "ENSP00000381589.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA11 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA11 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA11^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA12 HAVANA gene 6589 14481 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; gene_name PCDHGA12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129611.6" ; havana_transcript "OTTHUMT00000251806.3" ; hgnc_id "HGNC:8699" ; level 2 ; orig_coord_info "chr5,141430760,141433183,+" ; protein_id "ENSP00000252085.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA12 HAVANA mRNA 6589 14481 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGB2--PCDHGA12^ENST00000252085.4" ; Parent "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; gene_name PCDHGA12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129611.6" ; havana_transcript "OTTHUMT00000251806.3" ; hgnc_id "HGNC:8699" ; level 2 ; orig_coord_info "chr5,141430760,141433183,+" ; protein_id "ENSP00000252085.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA12 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA12 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA12^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA8 HAVANA gene 9065 18245 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; gene_name PCDHGA8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164053.2" ; havana_transcript "OTTHUMT00000376972.1" ; hgnc_id "HGNC:8706" ; level 2 ; orig_coord_info "chr5,141392814,141395237,+" ; protein_id "ENSP00000381605.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA8 HAVANA mRNA 9065 18245 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGB2--PCDHGA8^ENST00000398604.3" ; Parent "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; gene_name PCDHGA8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164053.2" ; havana_transcript "OTTHUMT00000376972.1" ; hgnc_id "HGNC:8706" ; level 2 ; orig_coord_info "chr5,141392814,141395237,+" ; protein_id "ENSP00000381605.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA8 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA8 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA8^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA9 HAVANA gene 6610 14337 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; gene_name PCDHGA9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177473.2" ; havana_transcript "OTTHUMT00000437105.1" ; hgnc_id "HGNC:8707" ; level 2 ; orig_coord_info "chr5,141402953,141405376,+" ; protein_id "ENSP00000460274.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA9 HAVANA mRNA 6610 14337 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGB2--PCDHGA9^ENST00000573521.1" ; Parent "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; gene_name PCDHGA9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177473.2" ; havana_transcript "OTTHUMT00000437105.1" ; hgnc_id "HGNC:8707" ; level 2 ; orig_coord_info "chr5,141402953,141405376,+" ; protein_id "ENSP00000460274.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA9 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA9 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA9^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB6 HAVANA gene 6771 16370 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; gene_name PCDHGB6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163687.2" ; havana_transcript "OTTHUMT00000374746.1" ; hgnc_id "HGNC:8713" ; level 2 ; orig_coord_info "chr5,141408203,141410620,+" ; protein_id "ENSP00000428603.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGB6 HAVANA mRNA 6771 16370 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGB2--PCDHGB6^ENST00000520790.1" ; Parent "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; gene_name PCDHGB6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163687.2" ; havana_transcript "OTTHUMT00000374746.1" ; hgnc_id "HGNC:8713" ; level 2 ; orig_coord_info "chr5,141408203,141410620,+" ; protein_id "ENSP00000428603.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB6 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGB6 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB6^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB7 HAVANA gene 6621 14550 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; gene_name PCDHGB7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164054.2" ; havana_transcript "OTTHUMT00000376973.2" ; hgnc_id "HGNC:8714" ; level 2 ; orig_coord_info "chr5,141417860,141420274,+" ; protein_id "ENSP00000381594.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGB7 HAVANA mRNA 6621 14550 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGB2--PCDHGB7^ENST00000398594.4" ; Parent "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; gene_name PCDHGB7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164054.2" ; havana_transcript "OTTHUMT00000376973.2" ; hgnc_id "HGNC:8714" ; level 2 ; orig_coord_info "chr5,141417860,141420274,+" ; protein_id "ENSP00000381594.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB7 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGB7 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB7^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC3 HAVANA gene 6608 16794 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; gene_name PCDHGC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129613.8" ; havana_transcript "OTTHUMT00000251808.5" ; hgnc_id "HGNC:8716" ; level 2 ; orig_coord_info "chr5,141476117,141478546,+" ; protein_id "ENSP00000312070.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC3 HAVANA mRNA 6608 16794 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGB2--PCDHGC3^ENST00000308177.5" ; Parent "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; gene_name PCDHGC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129613.8" ; havana_transcript "OTTHUMT00000251808.5" ; hgnc_id "HGNC:8716" ; level 2 ; orig_coord_info "chr5,141476117,141478546,+" ; protein_id "ENSP00000312070.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC3 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC3 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC3^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC4 HAVANA gene 6766 14562 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; gene_name PCDHGC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129625.4" ; havana_transcript "OTTHUMT00000251820.2" ; hgnc_id "HGNC:8717" ; level 2 ; orig_coord_info "chr5,141485174,141487615,+" ; protein_id "ENSP00000306918.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC4 HAVANA mRNA 6766 14562 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGB2--PCDHGC4^ENST00000306593.1" ; Parent "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; gene_name PCDHGC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129625.4" ; havana_transcript "OTTHUMT00000251820.2" ; hgnc_id "HGNC:8717" ; level 2 ; orig_coord_info "chr5,141485174,141487615,+" ; protein_id "ENSP00000306918.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC4 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC4 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC4^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC5 HAVANA gene 6589 14614 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; gene_name PCDHGC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129624.2" ; havana_transcript "OTTHUMT00000251819.2" ; hgnc_id "HGNC:8718" ; level 2 ; orig_coord_info "chr5,141489241,141491700,+" ; protein_id "ENSP00000252087.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC5 HAVANA mRNA 6589 14614 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGB2--PCDHGC5^ENST00000252087.3" ; Parent "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; gene_name PCDHGC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129624.2" ; havana_transcript "OTTHUMT00000251819.2" ; hgnc_id "HGNC:8718" ; level 2 ; orig_coord_info "chr5,141489241,141491700,+" ; protein_id "ENSP00000252087.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC5 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC5 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC5^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PIGU--AC140113.4 HAVANA gene 2097 16707 . + . FI_gene_label "PIGU^ENSG00000101464.11" ; ID "PIGU--AC140113.4^PIGU^ENSG00000101464.11" ; ccdsid "CCDS13239.1" ; exon_id "ENSE00003900529.1" ; exon_number 1 ; gene_id "PIGU--AC140113.4^PIGU^ENSG00000101464.11" ; gene_name PIGU ; gene_type protein_coding ; havana_gene "OTTHUMG00000032304.6" ; havana_transcript "OTTHUMT00000078795.2" ; hgnc_id "HGNC:15791" ; level 2 ; orig_coord_info "chr20,34676956,34677085,-" ; protein_id "ENSP00000217446.3" ; tag mRNA_start_NF MANE_Select appris_principal_1 CCDS ; transcript_id "PIGU--AC140113.4^ENST00000217446.8" ; transcript_name "PIGU-201" ; transcript_support_level 1 ; transcript_type protein_coding
PIGU--AC140113.4 HAVANA mRNA 2097 16707 . + . FI_gene_label "PIGU^ENSG00000101464.11" ; ID "PIGU--AC140113.4^ENST00000217446.8" ; Parent "PIGU--AC140113.4^PIGU^ENSG00000101464.11" ; ccdsid "CCDS13239.1" ; exon_id "ENSE00003900529.1" ; exon_number 1 ; gene_id "PIGU--AC140113.4^PIGU^ENSG00000101464.11" ; gene_name PIGU ; gene_type protein_coding ; havana_gene "OTTHUMG00000032304.6" ; havana_transcript "OTTHUMT00000078795.2" ; hgnc_id "HGNC:15791" ; level 2 ; orig_coord_info "chr20,34676956,34677085,-" ; protein_id "ENSP00000217446.3" ; tag mRNA_start_NF MANE_Select appris_principal_1 CCDS ; transcript_id "PIGU--AC140113.4^ENST00000217446.8" ; transcript_name "PIGU-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PIGU--DEFB118 HAVANA gene 2097 16707 . + . FI_gene_label "PIGU^ENSG00000101464.11" ; ID "PIGU--DEFB118^PIGU^ENSG00000101464.11" ; ccdsid "CCDS13239.1" ; exon_id "ENSE00003900529.1" ; exon_number 1 ; gene_id "PIGU--DEFB118^PIGU^ENSG00000101464.11" ; gene_name PIGU ; gene_type protein_coding ; havana_gene "OTTHUMG00000032304.6" ; havana_transcript "OTTHUMT00000078795.2" ; hgnc_id "HGNC:15791" ; level 2 ; orig_coord_info "chr20,34676956,34677085,-" ; protein_id "ENSP00000217446.3" ; tag mRNA_start_NF MANE_Select appris_principal_1 CCDS ; transcript_id "PIGU--DEFB118^ENST00000217446.8" ; transcript_name "PIGU-201" ; transcript_support_level 1 ; transcript_type protein_coding
PIGU--DEFB118 HAVANA mRNA 2097 16707 . + . FI_gene_label "PIGU^ENSG00000101464.11" ; ID "PIGU--DEFB118^ENST00000217446.8" ; Parent "PIGU--DEFB118^PIGU^ENSG00000101464.11" ; ccdsid "CCDS13239.1" ; exon_id "ENSE00003900529.1" ; exon_number 1 ; gene_id "PIGU--DEFB118^PIGU^ENSG00000101464.11" ; gene_name PIGU ; gene_type protein_coding ; havana_gene "OTTHUMG00000032304.6" ; havana_transcript "OTTHUMT00000078795.2" ; hgnc_id "HGNC:15791" ; level 2 ; orig_coord_info "chr20,34676956,34677085,-" ; protein_id "ENSP00000217446.3" ; tag mRNA_start_NF MANE_Select appris_principal_1 CCDS ; transcript_id "PIGU--DEFB118^ENST00000217446.8" ; transcript_name "PIGU-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PIGU--DEFB118 HAVANA gene 19708 21882 . + . FI_gene_label "DEFB118^ENSG00000131068.4" ; ID "PIGU--DEFB118^DEFB118^ENSG00000131068.4" ; ccdsid "CCDS13177.1" ; exon_id "ENSE00000898434.3" ; exon_number 1 ; gene_id "PIGU--DEFB118^DEFB118^ENSG00000131068.4" ; gene_name DEFB118 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032161.3" ; havana_transcript "OTTHUMT00000078501.3" ; hgnc_id "HGNC:16196" ; level 2 ; orig_coord_info "chr20,31368651,31368708,+" ; protein_id "ENSP00000253381.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PIGU--DEFB118^ENST00000253381.3" ; transcript_name "DEFB118-201" ; transcript_support_level 1 ; transcript_type protein_coding
PIGU--DEFB118 HAVANA mRNA 19708 21882 . + . FI_gene_label "DEFB118^ENSG00000131068.4" ; ID "PIGU--DEFB118^ENST00000253381.3" ; Parent "PIGU--DEFB118^DEFB118^ENSG00000131068.4" ; ccdsid "CCDS13177.1" ; exon_id "ENSE00000898434.3" ; exon_number 1 ; gene_id "PIGU--DEFB118^DEFB118^ENSG00000131068.4" ; gene_name DEFB118 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032161.3" ; havana_transcript "OTTHUMT00000078501.3" ; hgnc_id "HGNC:16196" ; level 2 ; orig_coord_info "chr20,31368651,31368708,+" ; protein_id "ENSP00000253381.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PIGU--DEFB118^ENST00000253381.3" ; transcript_name "DEFB118-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PIGU--RNA5-8SP6 HAVANA gene 2097 16707 . + . FI_gene_label "PIGU^ENSG00000101464.11" ; ID "PIGU--RNA5-8SP6^PIGU^ENSG00000101464.11" ; ccdsid "CCDS13239.1" ; exon_id "ENSE00003900529.1" ; exon_number 1 ; gene_id "PIGU--RNA5-8SP6^PIGU^ENSG00000101464.11" ; gene_name PIGU ; gene_type protein_coding ; havana_gene "OTTHUMG00000032304.6" ; havana_transcript "OTTHUMT00000078795.2" ; hgnc_id "HGNC:15791" ; level 2 ; orig_coord_info "chr20,34676956,34677085,-" ; protein_id "ENSP00000217446.3" ; tag mRNA_start_NF MANE_Select appris_principal_1 CCDS ; transcript_id "PIGU--RNA5-8SP6^ENST00000217446.8" ; transcript_name "PIGU-201" ; transcript_support_level 1 ; transcript_type protein_coding
PIGU--RNA5-8SP6 HAVANA mRNA 2097 16707 . + . FI_gene_label "PIGU^ENSG00000101464.11" ; ID "PIGU--RNA5-8SP6^ENST00000217446.8" ; Parent "PIGU--RNA5-8SP6^PIGU^ENSG00000101464.11" ; ccdsid "CCDS13239.1" ; exon_id "ENSE00003900529.1" ; exon_number 1 ; gene_id "PIGU--RNA5-8SP6^PIGU^ENSG00000101464.11" ; gene_name PIGU ; gene_type protein_coding ; havana_gene "OTTHUMG00000032304.6" ; havana_transcript "OTTHUMT00000078795.2" ; hgnc_id "HGNC:15791" ; level 2 ; orig_coord_info "chr20,34676956,34677085,-" ; protein_id "ENSP00000217446.3" ; tag mRNA_start_NF MANE_Select appris_principal_1 CCDS ; transcript_id "PIGU--RNA5-8SP6^ENST00000217446.8" ; transcript_name "PIGU-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RANBP1--TRMT2A HAVANA gene 13410 18761 . + . FI_gene_label "TRMT2A^ENSG00000099899.15" ; ID "RANBP1--TRMT2A^TRMT2A^ENSG00000099899.15" ; ccdsid "CCDS13774.1" ; exon_id "ENSE00001873673.2" ; exon_number 1 ; gene_id "RANBP1--TRMT2A^TRMT2A^ENSG00000099899.15" ; gene_name TRMT2A ; gene_type protein_coding ; havana_gene "OTTHUMG00000150454.12" ; havana_transcript "OTTHUMT00000318168.4" ; hgnc_id "HGNC:24974" ; level 2 ; orig_coord_info "chr22,20116883,20116906,-" ; protein_id "ENSP00000252136.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RANBP1--TRMT2A^ENST00000252136.12" ; transcript_name "TRMT2A-201" ; transcript_support_level 1 ; transcript_type protein_coding
RANBP1--TRMT2A HAVANA mRNA 13410 18761 . + . FI_gene_label "TRMT2A^ENSG00000099899.15" ; ID "RANBP1--TRMT2A^ENST00000252136.12" ; Parent "RANBP1--TRMT2A^TRMT2A^ENSG00000099899.15" ; ccdsid "CCDS13774.1" ; exon_id "ENSE00001873673.2" ; exon_number 1 ; gene_id "RANBP1--TRMT2A^TRMT2A^ENSG00000099899.15" ; gene_name TRMT2A ; gene_type protein_coding ; havana_gene "OTTHUMG00000150454.12" ; havana_transcript "OTTHUMT00000318168.4" ; hgnc_id "HGNC:24974" ; level 2 ; orig_coord_info "chr22,20116883,20116906,-" ; protein_id "ENSP00000252136.7" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RANBP1--TRMT2A^ENST00000252136.12" ; transcript_name "TRMT2A-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
RANBP1--TRMT2A HAVANA gene 2611 10069 . + . FI_gene_label "RANBP1^ENSG00000099901.17" ; ID "RANBP1--TRMT2A^RANBP1^ENSG00000099901.17" ; ccdsid "CCDS13775.1" ; exon_id "ENSE00001953373.1" ; exon_number 1 ; gene_id "RANBP1--TRMT2A^RANBP1^ENSG00000099901.17" ; gene_name RANBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150490.35" ; havana_transcript "OTTHUMT00000343733.1" ; hgnc_id "HGNC:9847" ; level 2 ; orig_coord_info "chr22,20117650,20117664,+" ; protein_id "ENSP00000327583.3" ; tag basic appris_principal_4 CCDS ; transcript_id "RANBP1--TRMT2A^ENST00000331821.7" ; transcript_name "RANBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
RANBP1--TRMT2A HAVANA mRNA 2611 10069 . + . FI_gene_label "RANBP1^ENSG00000099901.17" ; ID "RANBP1--TRMT2A^ENST00000331821.7" ; Parent "RANBP1--TRMT2A^RANBP1^ENSG00000099901.17" ; ccdsid "CCDS13775.1" ; exon_id "ENSE00001953373.1" ; exon_number 1 ; gene_id "RANBP1--TRMT2A^RANBP1^ENSG00000099901.17" ; gene_name RANBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150490.35" ; havana_transcript "OTTHUMT00000343733.1" ; hgnc_id "HGNC:9847" ; level 2 ; orig_coord_info "chr22,20117650,20117664,+" ; protein_id "ENSP00000327583.3" ; tag basic appris_principal_4 CCDS ; transcript_id "RANBP1--TRMT2A^ENST00000331821.7" ; transcript_name "RANBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SPTLC3--SEL1L2 HAVANA gene 28233 50174 . + . FI_gene_label "SEL1L2^ENSG00000101251.13" ; ID "SPTLC3--SEL1L2^SEL1L2^ENSG00000101251.13" ; exon_id "ENSE00001932979.2" ; exon_number 1 ; gene_id "SPTLC3--SEL1L2^SEL1L2^ENSG00000101251.13" ; gene_name SEL1L2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031910.5" ; havana_transcript "OTTHUMT00000078067.3" ; hgnc_id "HGNC:15897" ; level 2 ; orig_coord_info "chr20,13990477,13990534,-" ; protein_id "ENSP00000284951.5" ; tag not_organism_supported basic MANE_Select appris_principal_1 ; transcript_id "SPTLC3--SEL1L2^ENST00000284951.10" ; transcript_name "SEL1L2-201" ; transcript_support_level 5 ; transcript_type protein_coding
SPTLC3--SEL1L2 HAVANA mRNA 28233 50174 . + . FI_gene_label "SEL1L2^ENSG00000101251.13" ; ID "SPTLC3--SEL1L2^ENST00000284951.10" ; Parent "SPTLC3--SEL1L2^SEL1L2^ENSG00000101251.13" ; exon_id "ENSE00001932979.2" ; exon_number 1 ; gene_id "SPTLC3--SEL1L2^SEL1L2^ENSG00000101251.13" ; gene_name SEL1L2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031910.5" ; havana_transcript "OTTHUMT00000078067.3" ; hgnc_id "HGNC:15897" ; level 2 ; orig_coord_info "chr20,13990477,13990534,-" ; protein_id "ENSP00000284951.5" ; tag not_organism_supported basic MANE_Select appris_principal_1 ; transcript_id "SPTLC3--SEL1L2^ENST00000284951.10" ; transcript_name "SEL1L2-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
SPTLC3--SEL1L2 HAVANA gene 1001 22809 . + . FI_gene_label "SPTLC3^ENSG00000172296.13" ; ID "SPTLC3--SEL1L2^SPTLC3^ENSG00000172296.13" ; ccdsid "CCDS13115.2" ; exon_id "ENSE00001930212.2" ; exon_number 1 ; gene_id "SPTLC3--SEL1L2^SPTLC3^ENSG00000172296.13" ; gene_name SPTLC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031899.5" ; havana_transcript "OTTHUMT00000254544.3" ; hgnc_id "HGNC:16253" ; level 2 ; orig_coord_info "chr20,13009268,13009384,+" ; protein_id "ENSP00000381968.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SPTLC3--SEL1L2^ENST00000399002.7" ; transcript_name "SPTLC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
SPTLC3--SEL1L2 HAVANA mRNA 1001 22809 . + . FI_gene_label "SPTLC3^ENSG00000172296.13" ; ID "SPTLC3--SEL1L2^ENST00000399002.7" ; Parent "SPTLC3--SEL1L2^SPTLC3^ENSG00000172296.13" ; ccdsid "CCDS13115.2" ; exon_id "ENSE00001930212.2" ; exon_number 1 ; gene_id "SPTLC3--SEL1L2^SPTLC3^ENSG00000172296.13" ; gene_name SPTLC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000031899.5" ; havana_transcript "OTTHUMT00000254544.3" ; hgnc_id "HGNC:16253" ; level 2 ; orig_coord_info "chr20,13009268,13009384,+" ; protein_id "ENSP00000381968.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SPTLC3--SEL1L2^ENST00000399002.7" ; transcript_name "SPTLC3-201" ; 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:
TRPC4AP--EDEM2 HAVANA gene 1001 20734 . + . FI_gene_label "TRPC4AP^ENSG00000100991.12" ; ID "TRPC4AP--EDEM2^TRPC4AP^ENSG00000100991.12" ; ccdsid "CCDS13246.1" ; exon_id "ENSE00002254384.1" ; exon_number 1 ; gene_id "TRPC4AP--EDEM2^TRPC4AP^ENSG00000100991.12" ; gene_name TRPC4AP ; gene_type protein_coding ; havana_gene "OTTHUMG00000032319.3" ; havana_transcript "OTTHUMT00000078832.2" ; hgnc_id "HGNC:16181" ; level 2 ; orig_coord_info "chr20,35092614,35092781,-" ; protein_id "ENSP00000252015.2" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "TRPC4AP--EDEM2^ENST00000252015.3" ; transcript_name "TRPC4AP-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRPC4AP--EDEM2 HAVANA mRNA 1001 20734 . + . FI_gene_label "TRPC4AP^ENSG00000100991.12" ; ID "TRPC4AP--EDEM2^ENST00000252015.3" ; Parent "TRPC4AP--EDEM2^TRPC4AP^ENSG00000100991.12" ; ccdsid "CCDS13246.1" ; exon_id "ENSE00002254384.1" ; exon_number 1 ; gene_id "TRPC4AP--EDEM2^TRPC4AP^ENSG00000100991.12" ; gene_name TRPC4AP ; gene_type protein_coding ; havana_gene "OTTHUMG00000032319.3" ; havana_transcript "OTTHUMT00000078832.2" ; hgnc_id "HGNC:16181" ; level 2 ; orig_coord_info "chr20,35092614,35092781,-" ; protein_id "ENSP00000252015.2" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "TRPC4AP--EDEM2^ENST00000252015.3" ; transcript_name "TRPC4AP-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TRPC4AP--EDEM2 HAVANA gene 23752 34834 . + . FI_gene_label "EDEM2^ENSG00000088298.13" ; ID "TRPC4AP--EDEM2^EDEM2^ENSG00000088298.13" ; ccdsid "CCDS46592.1" ; exon_id "ENSE00001463664.3" ; exon_number 1 ; gene_id "TRPC4AP--EDEM2^EDEM2^ENSG00000088298.13" ; gene_name EDEM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032322.5" ; havana_transcript "OTTHUMT00000471967.1" ; hgnc_id "HGNC:15877" ; level 2 ; orig_coord_info "chr20,35147152,35147258,-" ; protein_id "ENSP00000363615.2" ; tag basic CCDS ; transcript_id "TRPC4AP--EDEM2^ENST00000374491.3" ; transcript_name "EDEM2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRPC4AP--EDEM2 HAVANA mRNA 23752 34834 . + . FI_gene_label "EDEM2^ENSG00000088298.13" ; ID "TRPC4AP--EDEM2^ENST00000374491.3" ; Parent "TRPC4AP--EDEM2^EDEM2^ENSG00000088298.13" ; ccdsid "CCDS46592.1" ; exon_id "ENSE00001463664.3" ; exon_number 1 ; gene_id "TRPC4AP--EDEM2^EDEM2^ENSG00000088298.13" ; gene_name EDEM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000032322.5" ; havana_transcript "OTTHUMT00000471967.1" ; hgnc_id "HGNC:15877" ; level 2 ; orig_coord_info "chr20,35147152,35147258,-" ; protein_id "ENSP00000363615.2" ; tag basic CCDS ; transcript_id "TRPC4AP--EDEM2^ENST00000374491.3" ; transcript_name "EDEM2-201" ; 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:
UBE2L3--SNAP29 HAVANA gene 11839 20898 . + . FI_gene_label "SNAP29^ENSG00000099940.12" ; ID "UBE2L3--SNAP29^SNAP29^ENSG00000099940.12" ; ccdsid "CCDS13784.1" ; exon_id "ENSE00001313354.5" ; exon_number 1 ; gene_id "UBE2L3--SNAP29^SNAP29^ENSG00000099940.12" ; gene_name SNAP29 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150765.7" ; havana_transcript "OTTHUMT00000320000.5" ; hgnc_id "HGNC:11133" ; level 2 ; orig_coord_info "chr22,20859111,20859347,+" ; protein_id "ENSP00000215730.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBE2L3--SNAP29^ENST00000215730.12" ; transcript_name "SNAP29-201" ; transcript_support_level 1 ; transcript_type protein_coding
UBE2L3--SNAP29 HAVANA mRNA 11839 20898 . + . FI_gene_label "SNAP29^ENSG00000099940.12" ; ID "UBE2L3--SNAP29^ENST00000215730.12" ; Parent "UBE2L3--SNAP29^SNAP29^ENSG00000099940.12" ; ccdsid "CCDS13784.1" ; exon_id "ENSE00001313354.5" ; exon_number 1 ; gene_id "UBE2L3--SNAP29^SNAP29^ENSG00000099940.12" ; gene_name SNAP29 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150765.7" ; havana_transcript "OTTHUMT00000320000.5" ; hgnc_id "HGNC:11133" ; level 2 ; orig_coord_info "chr22,20859111,20859347,+" ; protein_id "ENSP00000215730.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBE2L3--SNAP29^ENST00000215730.12" ; transcript_name "SNAP29-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
UBE2L3--SNAP29 HAVANA gene 2372 8838 . + . FI_gene_label "UBE2L3^ENSG00000185651.15" ; ID "UBE2L3--SNAP29^UBE2L3^ENSG00000185651.15" ; ccdsid "CCDS13790.1" ; exon_id "ENSE00000000252.2" ; exon_number 1 ; gene_id "UBE2L3--SNAP29^UBE2L3^ENSG00000185651.15" ; gene_name UBE2L3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150823.2" ; havana_transcript "OTTHUMT00000320219.2" ; hgnc_id "HGNC:12488" ; level 2 ; orig_coord_info "chr22,21567745,21567771,+" ; protein_id "ENSP00000344259.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBE2L3--SNAP29^ENST00000342192.9" ; transcript_name "UBE2L3-201" ; transcript_support_level 1 ; transcript_type protein_coding
UBE2L3--SNAP29 HAVANA mRNA 2372 8838 . + . FI_gene_label "UBE2L3^ENSG00000185651.15" ; ID "UBE2L3--SNAP29^ENST00000342192.9" ; Parent "UBE2L3--SNAP29^UBE2L3^ENSG00000185651.15" ; ccdsid "CCDS13790.1" ; exon_id "ENSE00000000252.2" ; exon_number 1 ; gene_id "UBE2L3--SNAP29^UBE2L3^ENSG00000185651.15" ; gene_name UBE2L3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000150823.2" ; havana_transcript "OTTHUMT00000320219.2" ; hgnc_id "HGNC:12488" ; level 2 ; orig_coord_info "chr22,21567745,21567771,+" ; protein_id "ENSP00000344259.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBE2L3--SNAP29^ENST00000342192.9" ; transcript_name "UBE2L3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
USP9Y--HEATR5A HAVANA gene 13795 62032 . + . FI_gene_label "USP9Y^ENSG00000114374.13" ; ID "USP9Y--HEATR5A^USP9Y^ENSG00000114374.13" ; ccdsid "CCDS14781.1" ; exon_id "ENSE00003651478.1" ; exon_number 3 ; gene_id "USP9Y--HEATR5A^USP9Y^ENSG00000114374.13" ; gene_name USP9Y ; gene_type protein_coding ; havana_gene "OTTHUMG00000036469.3" ; havana_transcript "OTTHUMT00000088703.3" ; hgnc_id "HGNC:12633" ; level 2 ; orig_coord_info "chrY,12709448,12709543,+" ; protein_id "ENSP00000342812.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP9Y--HEATR5A^ENST00000338981.7" ; transcript_name "USP9Y-201" ; transcript_support_level 1 ; transcript_type protein_coding
USP9Y--HEATR5A HAVANA mRNA 13795 62032 . + . FI_gene_label "USP9Y^ENSG00000114374.13" ; ID "USP9Y--HEATR5A^ENST00000338981.7" ; Parent "USP9Y--HEATR5A^USP9Y^ENSG00000114374.13" ; ccdsid "CCDS14781.1" ; exon_id "ENSE00003651478.1" ; exon_number 3 ; gene_id "USP9Y--HEATR5A^USP9Y^ENSG00000114374.13" ; gene_name USP9Y ; gene_type protein_coding ; havana_gene "OTTHUMG00000036469.3" ; havana_transcript "OTTHUMT00000088703.3" ; hgnc_id "HGNC:12633" ; level 2 ; orig_coord_info "chrY,12709448,12709543,+" ; protein_id "ENSP00000342812.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "USP9Y--HEATR5A^ENST00000338981.7" ; transcript_name "USP9Y-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
USP9Y--HEATR5A HAVANA gene 65052 67878 . + . FI_gene_label "HEATR5A^ENSG00000129493.15" ; ID "USP9Y--HEATR5A^HEATR5A^ENSG00000129493.15" ; exon_id "ENSE00003474994.1" ; exon_number 2 ; gene_id "USP9Y--HEATR5A^HEATR5A^ENSG00000129493.15" ; gene_name HEATR5A ; gene_type protein_coding ; havana_gene "OTTHUMG00000169043.5" ; havana_transcript "OTTHUMT00000409469.1" ; hgnc_id "HGNC:20276" ; level 2 ; orig_coord_info "chr14,31402850,31402975,-" ; protein_id "ENSP00000371903.2" ; tag basic appris_alternative_2 ; transcript_id "USP9Y--HEATR5A^ENST00000382464.6" ; transcript_name "HEATR5A-201" ; transcript_support_level 2 ; transcript_type protein_coding
USP9Y--HEATR5A HAVANA mRNA 65052 67878 . + . FI_gene_label "HEATR5A^ENSG00000129493.15" ; ID "USP9Y--HEATR5A^ENST00000382464.6" ; Parent "USP9Y--HEATR5A^HEATR5A^ENSG00000129493.15" ; exon_id "ENSE00003474994.1" ; exon_number 2 ; gene_id "USP9Y--HEATR5A^HEATR5A^ENSG00000129493.15" ; gene_name HEATR5A ; gene_type protein_coding ; havana_gene "OTTHUMG00000169043.5" ; havana_transcript "OTTHUMT00000409469.1" ; hgnc_id "HGNC:20276" ; level 2 ; orig_coord_info "chr14,31402850,31402975,-" ; protein_id "ENSP00000371903.2" ; tag basic appris_alternative_2 ; transcript_id "USP9Y--HEATR5A^ENST00000382464.6" ; transcript_name "HEATR5A-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
ZFAND3--DAAM2 HAVANA gene 17184 49506 . + . FI_gene_label "DAAM2^ENSG00000146122.17" ; ID "ZFAND3--DAAM2^DAAM2^ENSG00000146122.17" ; ccdsid "CCDS56426.1" ; exon_id "ENSE00003549792.1" ; exon_number 2 ; gene_id "ZFAND3--DAAM2^DAAM2^ENSG00000146122.17" ; gene_name DAAM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014653.5" ; havana_transcript "OTTHUMT00000040464.3" ; hgnc_id "HGNC:18143" ; level 2 ; orig_coord_info "chr6,39856303,39856470,+" ; protein_id "ENSP00000274867.4" ; tag basic MANE_Select appris_principal_3 CCDS ; transcript_id "ZFAND3--DAAM2^ENST00000274867.9" ; transcript_name "DAAM2-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZFAND3--DAAM2 HAVANA mRNA 17184 49506 . + . FI_gene_label "DAAM2^ENSG00000146122.17" ; ID "ZFAND3--DAAM2^ENST00000274867.9" ; Parent "ZFAND3--DAAM2^DAAM2^ENSG00000146122.17" ; ccdsid "CCDS56426.1" ; exon_id "ENSE00003549792.1" ; exon_number 2 ; gene_id "ZFAND3--DAAM2^DAAM2^ENSG00000146122.17" ; gene_name DAAM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014653.5" ; havana_transcript "OTTHUMT00000040464.3" ; hgnc_id "HGNC:18143" ; level 2 ; orig_coord_info "chr6,39856303,39856470,+" ; protein_id "ENSP00000274867.4" ; tag basic MANE_Select appris_principal_3 CCDS ; transcript_id "ZFAND3--DAAM2^ENST00000274867.9" ; transcript_name "DAAM2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZFAND3--DAAM2 HAVANA gene 1001 14105 . + . FI_gene_label "ZFAND3^ENSG00000156639.12" ; ID "ZFAND3--DAAM2^ZFAND3^ENSG00000156639.12" ; ccdsid "CCDS4836.1" ; exon_id "ENSE00001460453.3" ; exon_number 1 ; gene_id "ZFAND3--DAAM2^ZFAND3^ENSG00000156639.12" ; gene_name ZFAND3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014629.7" ; havana_transcript "OTTHUMT00000040424.4" ; hgnc_id "HGNC:18019" ; level 2 ; orig_coord_info "chr6,37819946,37820016,+" ; protein_id "ENSP00000287218.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZFAND3--DAAM2^ENST00000287218.9" ; transcript_name "ZFAND3-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZFAND3--DAAM2 HAVANA mRNA 1001 14105 . + . FI_gene_label "ZFAND3^ENSG00000156639.12" ; ID "ZFAND3--DAAM2^ENST00000287218.9" ; Parent "ZFAND3--DAAM2^ZFAND3^ENSG00000156639.12" ; ccdsid "CCDS4836.1" ; exon_id "ENSE00001460453.3" ; exon_number 1 ; gene_id "ZFAND3--DAAM2^ZFAND3^ENSG00000156639.12" ; gene_name ZFAND3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014629.7" ; havana_transcript "OTTHUMT00000040424.4" ; hgnc_id "HGNC:18019" ; level 2 ; orig_coord_info "chr6,37819946,37820016,+" ; protein_id "ENSP00000287218.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZFAND3--DAAM2^ENST00000287218.9" ; transcript_name "ZFAND3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZFAND3--TMEM217 HAVANA gene 1001 14105 . + . FI_gene_label "ZFAND3^ENSG00000156639.12" ; ID "ZFAND3--TMEM217^ZFAND3^ENSG00000156639.12" ; ccdsid "CCDS4836.1" ; exon_id "ENSE00001460453.3" ; exon_number 1 ; gene_id "ZFAND3--TMEM217^ZFAND3^ENSG00000156639.12" ; gene_name ZFAND3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014629.7" ; havana_transcript "OTTHUMT00000040424.4" ; hgnc_id "HGNC:18019" ; level 2 ; orig_coord_info "chr6,37819946,37820016,+" ; protein_id "ENSP00000287218.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZFAND3--TMEM217^ENST00000287218.9" ; transcript_name "ZFAND3-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZFAND3--TMEM217 HAVANA mRNA 1001 14105 . + . FI_gene_label "ZFAND3^ENSG00000156639.12" ; ID "ZFAND3--TMEM217^ENST00000287218.9" ; Parent "ZFAND3--TMEM217^ZFAND3^ENSG00000156639.12" ; ccdsid "CCDS4836.1" ; exon_id "ENSE00001460453.3" ; exon_number 1 ; gene_id "ZFAND3--TMEM217^ZFAND3^ENSG00000156639.12" ; gene_name ZFAND3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014629.7" ; havana_transcript "OTTHUMT00000040424.4" ; hgnc_id "HGNC:18019" ; level 2 ; orig_coord_info "chr6,37819946,37820016,+" ; protein_id "ENSP00000287218.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZFAND3--TMEM217^ENST00000287218.9" ; transcript_name "ZFAND3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZFAND3--TMEM217 HAVANA gene 17662 24324 . + . FI_gene_label "TMEM217^ENSG00000172738.12" ; ID "ZFAND3--TMEM217^TMEM217^ENSG00000172738.12" ; ccdsid "CCDS4831.1" ; exon_id "ENSE00001192460.4" ; exon_number 2 ; gene_id "ZFAND3--TMEM217^TMEM217^ENSG00000172738.12" ; gene_name TMEM217 ; gene_type protein_coding ; havana_gene "OTTHUMG00000193508.2" ; havana_transcript "OTTHUMT00000357542.3" ; hgnc_id "HGNC:21238" ; level 2 ; orig_coord_info "chr6,37218426,37219030,-" ; protein_id "ENSP00000338164.2" ; tag basic appris_principal_4 CCDS ; transcript_id "ZFAND3--TMEM217^ENST00000336655.7" ; transcript_name "TMEM217-201" ; transcript_support_level 2 ; transcript_type protein_coding
ZFAND3--TMEM217 HAVANA mRNA 17662 24324 . + . FI_gene_label "TMEM217^ENSG00000172738.12" ; ID "ZFAND3--TMEM217^ENST00000336655.7" ; Parent "ZFAND3--TMEM217^TMEM217^ENSG00000172738.12" ; ccdsid "CCDS4831.1" ; exon_id "ENSE00001192460.4" ; exon_number 2 ; gene_id "ZFAND3--TMEM217^TMEM217^ENSG00000172738.12" ; gene_name TMEM217 ; gene_type protein_coding ; havana_gene "OTTHUMG00000193508.2" ; havana_transcript "OTTHUMT00000357542.3" ; hgnc_id "HGNC:21238" ; level 2 ; orig_coord_info "chr6,37218426,37219030,-" ; protein_id "ENSP00000338164.2" ; tag basic appris_principal_4 CCDS ; transcript_id "ZFAND3--TMEM217^ENST00000336655.7" ; transcript_name "TMEM217-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
AC016629.1--RPL23AP53 HAVANA gene 8334 8790 . + . FI_gene_label "RPL23AP53^ENSG00000223508.5" ; ID "AC016629.1--RPL23AP53^RPL23AP53^ENSG00000223508.5" ; exon_id "ENSE00002114182.1" ; exon_number 1 ; gene_id "AC016629.1--RPL23AP53^RPL23AP53^ENSG00000223508.5" ; gene_name RPL23AP53 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000163943.3" ; havana_transcript "OTTHUMT00000350190.2" ; hgnc_id "HGNC:35921" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr8,213251,213707,-" ; tag pseudo_consens basic ; transcript_id "AC016629.1--RPL23AP53^ENST00000521854.1" ; transcript_name "RPL23AP53-201" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
AC016629.1--RPL23AP53 HAVANA RNA 8334 8790 . + . FI_gene_label "RPL23AP53^ENSG00000223508.5" ; ID "AC016629.1--RPL23AP53^ENST00000521854.1" ; Parent "AC016629.1--RPL23AP53^RPL23AP53^ENSG00000223508.5" ; exon_id "ENSE00002114182.1" ; exon_number 1 ; gene_id "AC016629.1--RPL23AP53^RPL23AP53^ENSG00000223508.5" ; gene_name RPL23AP53 ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000163943.3" ; havana_transcript "OTTHUMT00000350190.2" ; hgnc_id "HGNC:35921" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr8,213251,213707,-" ; tag pseudo_consens basic ; transcript_id "AC016629.1--RPL23AP53^ENST00000521854.1" ; transcript_name "RPL23AP53-201" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
L1 and L2 created:
AC016629.1--RPL23AP53 HAVANA gene 1001 1199 . + . FI_gene_label "AC016629.1^ENSG00000269032.1" ; ID "AC016629.1--RPL23AP53^AC016629.1^ENSG00000269032.1" ; exon_id "ENSE00002983124.1" ; exon_number 1 ; gene_id "AC016629.1--RPL23AP53^AC016629.1^ENSG00000269032.1" ; gene_name "AC016629.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000183524.1" ; havana_transcript "OTTHUMT00000466987.1" ; level 2 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr19,58586158,58586356,+" ; tag basic ; transcript_id "AC016629.1--RPL23AP53^ENST00000597341.1" ; transcript_name "AC016629.1-201" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
AC016629.1--RPL23AP53 HAVANA RNA 1001 1199 . + . FI_gene_label "AC016629.1^ENSG00000269032.1" ; ID "AC016629.1--RPL23AP53^ENST00000597341.1" ; Parent "AC016629.1--RPL23AP53^AC016629.1^ENSG00000269032.1" ; exon_id "ENSE00002983124.1" ; exon_number 1 ; gene_id "AC016629.1--RPL23AP53^AC016629.1^ENSG00000269032.1" ; gene_name "AC016629.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000183524.1" ; havana_transcript "OTTHUMT00000466987.1" ; level 2 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr19,58586158,58586356,+" ; tag basic ; transcript_id "AC016629.1--RPL23AP53^ENST00000597341.1" ; transcript_name "AC016629.1-201" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
L1 and L2 created:
INTS6--TPTE2P5 HAVANA gene 48162 55079 . + . FI_gene_label "TPTE2P5^ENSG00000168852.13" ; ID "INTS6--TPTE2P5^TPTE2P5^ENSG00000168852.13" ; exon_id "ENSE00001752647.1" ; exon_number 1 ; gene_id "INTS6--TPTE2P5^TPTE2P5^ENSG00000168852.13" ; gene_name TPTE2P5 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000016779.3" ; havana_transcript "OTTHUMT00000044649.1" ; hgnc_id "HGNC:42356" ; level 2 ; orig_coord_info "chr13,40921619,40921749,-" ; tag basic ; transcript_id "INTS6--TPTE2P5^ENST00000379515.3" ; transcript_name "TPTE2P5-201" ; transcript_support_level 5 ; transcript_type processed_transcript
INTS6--TPTE2P5 HAVANA RNA 48162 55079 . + . FI_gene_label "TPTE2P5^ENSG00000168852.13" ; ID "INTS6--TPTE2P5^ENST00000379515.3" ; Parent "INTS6--TPTE2P5^TPTE2P5^ENSG00000168852.13" ; exon_id "ENSE00001752647.1" ; exon_number 1 ; gene_id "INTS6--TPTE2P5^TPTE2P5^ENSG00000168852.13" ; gene_name TPTE2P5 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000016779.3" ; havana_transcript "OTTHUMT00000044649.1" ; hgnc_id "HGNC:42356" ; level 2 ; orig_coord_info "chr13,40921619,40921749,-" ; tag basic ; transcript_id "INTS6--TPTE2P5^ENST00000379515.3" ; transcript_name "TPTE2P5-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
ITCH--AL109824.1 HAVANA gene 45932 48528 . + . FI_gene_label "AL109824.1^ENSG00000286803.1" ; ID "ITCH--AL109824.1^AL109824.1^ENSG00000286803.1" ; exon_id "ENSE00003879317.1" ; exon_number 1 ; gene_id "ITCH--AL109824.1^AL109824.1^ENSG00000286803.1" ; gene_name "AL109824.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000194308.1" ; havana_transcript "OTTHUMT00000514139.1" ; level 2 ; orig_coord_info "chr20,34741401,34741607,+" ; tag basic TAGENE ; transcript_id "ITCH--AL109824.1^ENST00000655046.1" ; transcript_name "AL109824.1-201" ; transcript_type lncRNA
ITCH--AL109824.1 HAVANA RNA 45932 48528 . + . FI_gene_label "AL109824.1^ENSG00000286803.1" ; ID "ITCH--AL109824.1^ENST00000655046.1" ; Parent "ITCH--AL109824.1^AL109824.1^ENSG00000286803.1" ; exon_id "ENSE00003879317.1" ; exon_number 1 ; gene_id "ITCH--AL109824.1^AL109824.1^ENSG00000286803.1" ; gene_name "AL109824.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000194308.1" ; havana_transcript "OTTHUMT00000514139.1" ; level 2 ; orig_coord_info "chr20,34741401,34741607,+" ; tag basic TAGENE ; transcript_id "ITCH--AL109824.1^ENST00000655046.1" ; transcript_name "AL109824.1-201" ; transcript_type lncRNA
L1 and L2 created:
ITCH--RFTN1P1 HAVANA gene 46976 52243 . + . FI_gene_label "RFTN1P1^ENSG00000234795.10" ; ID "ITCH--RFTN1P1^RFTN1P1^ENSG00000234795.10" ; exon_id "ENSE00001803550.1" ; exon_number 1 ; gene_id "ITCH--RFTN1P1^RFTN1P1^ENSG00000234795.10" ; gene_name RFTN1P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000041013.4" ; havana_transcript "OTTHUMT00000471806.2" ; hgnc_id "HGNC:23971" ; level 2 ; orig_coord_info "chrY,7809154,7809261,-" ; transcript_id "ITCH--RFTN1P1^ENST00000442584.2" ; transcript_name "RFTN1P1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
ITCH--RFTN1P1 HAVANA RNA 46976 52243 . + . FI_gene_label "RFTN1P1^ENSG00000234795.10" ; ID "ITCH--RFTN1P1^ENST00000442584.2" ; Parent "ITCH--RFTN1P1^RFTN1P1^ENSG00000234795.10" ; exon_id "ENSE00001803550.1" ; exon_number 1 ; gene_id "ITCH--RFTN1P1^RFTN1P1^ENSG00000234795.10" ; gene_name RFTN1P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000041013.4" ; havana_transcript "OTTHUMT00000471806.2" ; hgnc_id "HGNC:23971" ; level 2 ; orig_coord_info "chrY,7809154,7809261,-" ; transcript_id "ITCH--RFTN1P1^ENST00000442584.2" ; transcript_name "RFTN1P1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
PIGU--AC140113.4 HAVANA gene 19708 19929 . + . FI_gene_label "AC140113.4^ENSG00000273858.1" ; ID "PIGU--AC140113.4^AC140113.4^ENSG00000273858.1" ; exon_id "ENSE00003733454.1" ; exon_number 1 ; gene_id "PIGU--AC140113.4^AC140113.4^ENSG00000273858.1" ; gene_name "AC140113.4" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188059.1" ; havana_transcript "OTTHUMT00000475842.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chrY,11042722,11042943,-" ; tag basic ; transcript_id "PIGU--AC140113.4^ENST00000622087.1" ; transcript_name "AC140113.4-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
PIGU--AC140113.4 HAVANA RNA 19708 19929 . + . FI_gene_label "AC140113.4^ENSG00000273858.1" ; ID "PIGU--AC140113.4^ENST00000622087.1" ; Parent "PIGU--AC140113.4^AC140113.4^ENSG00000273858.1" ; exon_id "ENSE00003733454.1" ; exon_number 1 ; gene_id "PIGU--AC140113.4^AC140113.4^ENSG00000273858.1" ; gene_name "AC140113.4" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000188059.1" ; havana_transcript "OTTHUMT00000475842.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chrY,11042722,11042943,-" ; tag basic ; transcript_id "PIGU--AC140113.4^ENST00000622087.1" ; transcript_name "AC140113.4-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
PIGU--RNA5-8SP6 ENSEMBL gene 19708 19859 . + . FI_gene_label "RNA5-8SP6^ENSG00000251705.1" ; ID "PIGU--RNA5-8SP6^RNA5-8SP6^ENSG00000251705.1" ; exon_id "ENSE00002088173.1" ; exon_number 1 ; gene_id "PIGU--RNA5-8SP6^RNA5-8SP6^ENSG00000251705.1" ; gene_name "RNA5-8SP6" ; gene_type rRNA_pseudogene ; hgnc_id "HGNC:41960" ; level 3 ; orig_coord_info "chrY,10200155,10200306,+" ; tag basic ; transcript_id "PIGU--RNA5-8SP6^ENST00000515896.1" ; transcript_name "RNA5-8SP6-201" ; transcript_support_level NA ; transcript_type rRNA_pseudogene
PIGU--RNA5-8SP6 ENSEMBL RNA 19708 19859 . + . FI_gene_label "RNA5-8SP6^ENSG00000251705.1" ; ID "PIGU--RNA5-8SP6^ENST00000515896.1" ; Parent "PIGU--RNA5-8SP6^RNA5-8SP6^ENSG00000251705.1" ; exon_id "ENSE00002088173.1" ; exon_number 1 ; gene_id "PIGU--RNA5-8SP6^RNA5-8SP6^ENSG00000251705.1" ; gene_name "RNA5-8SP6" ; gene_type rRNA_pseudogene ; hgnc_id "HGNC:41960" ; level 3 ; orig_coord_info "chrY,10200155,10200306,+" ; tag basic ; transcript_id "PIGU--RNA5-8SP6^ENST00000515896.1" ; transcript_name "RNA5-8SP6-201" ; transcript_support_level NA ; transcript_type rRNA_pseudogene
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
314 cases fixed where L3 features have parent feature(s) missing
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
------------------------------ done in 0 seconds -------------------------------
------------------------- Check7: all level3 locations -------------------------
------------------------------ done in 0 seconds -------------------------------
------------------------------ Check8: check cds -------------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------
----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
------------------------------ done in 0 seconds -------------------------------
----------------------------- Check10: check utrs ------------------------------
585 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