Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8c/f5813bbda2118c099d545d6539e414/fi_workdir/659_dc8-T1-TRNA-1_B23MHV2LT4_1.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c1/6ca96d72fdeec5670ad9302a667313/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c1/6ca96d72fdeec5670ad9302a667313/.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: 5240
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 5240
=> 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:5240
=> 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 2 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:
BRAF--SND1 HAVANA gene 1198 35070 . + . FI_gene_label "BRAF^ENSG00000157764.14" ; ID "BRAF--SND1^BRAF^ENSG00000157764.14" ; exon_id "ENSE00003826734.1" ; exon_number 1 ; gene_id "BRAF--SND1^BRAF^ENSG00000157764.14" ; gene_name BRAF ; gene_type protein_coding ; havana_gene "OTTHUMG00000157457.6" ; havana_transcript "OTTHUMT00000496651.1" ; hgnc_id "HGNC:1097" ; level 2 ; orig_coord_info "chr7,140924566,140924703,-" ; protein_id "ENSP00000288602.7" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "BRAF--SND1^ENST00000288602.11" ; transcript_name "BRAF-201" ; transcript_support_level 1 ; transcript_type protein_coding
BRAF--SND1 HAVANA mRNA 1198 35070 . + . FI_gene_label "BRAF^ENSG00000157764.14" ; ID "BRAF--SND1^ENST00000288602.11" ; Parent "BRAF--SND1^BRAF^ENSG00000157764.14" ; exon_id "ENSE00003826734.1" ; exon_number 1 ; gene_id "BRAF--SND1^BRAF^ENSG00000157764.14" ; gene_name BRAF ; gene_type protein_coding ; havana_gene "OTTHUMG00000157457.6" ; havana_transcript "OTTHUMT00000496651.1" ; hgnc_id "HGNC:1097" ; level 2 ; orig_coord_info "chr7,140924566,140924703,-" ; protein_id "ENSP00000288602.7" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "BRAF--SND1^ENST00000288602.11" ; transcript_name "BRAF-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
BRAF--SND1 HAVANA gene 50082 86677 . + . FI_gene_label "SND1^ENSG00000197157.11" ; ID "BRAF--SND1^SND1^ENSG00000197157.11" ; ccdsid "CCDS34747.1" ; exon_id "ENSE00001903029.2" ; exon_number 1 ; gene_id "BRAF--SND1^SND1^ENSG00000197157.11" ; gene_name SND1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157560.3" ; havana_transcript "OTTHUMT00000349148.2" ; hgnc_id "HGNC:30646" ; level 2 ; orig_coord_info "chr7,127652374,127652451,+" ; protein_id "ENSP00000346762.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "BRAF--SND1^ENST00000354725.8" ; transcript_name "SND1-201" ; transcript_support_level 1 ; transcript_type protein_coding
BRAF--SND1 HAVANA mRNA 50082 86677 . + . FI_gene_label "SND1^ENSG00000197157.11" ; ID "BRAF--SND1^ENST00000354725.8" ; Parent "BRAF--SND1^SND1^ENSG00000197157.11" ; ccdsid "CCDS34747.1" ; exon_id "ENSE00001903029.2" ; exon_number 1 ; gene_id "BRAF--SND1^SND1^ENSG00000197157.11" ; gene_name SND1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157560.3" ; havana_transcript "OTTHUMT00000349148.2" ; hgnc_id "HGNC:30646" ; level 2 ; orig_coord_info "chr7,127652374,127652451,+" ; protein_id "ENSP00000346762.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "BRAF--SND1^ENST00000354725.8" ; transcript_name "SND1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CAST--LIX1-AS1 HAVANA gene 11898 48389 . + . FI_gene_label "CAST^ENSG00000153113.24" ; ID "CAST--LIX1-AS1^CAST^ENSG00000153113.24" ; ccdsid "CCDS4082.1" ; exon_id "ENSE00003566890.1" ; exon_number 2 ; gene_id "CAST--LIX1-AS1^CAST^ENSG00000153113.24" ; gene_name CAST ; gene_type protein_coding ; havana_gene "OTTHUMG00000128413.11" ; havana_transcript "OTTHUMT00000250198.2" ; hgnc_id "HGNC:1515" ; level 2 ; orig_coord_info "chr5,96722678,96722698,+" ; protein_id "ENSP00000312523.5" ; tag basic appris_alternative_2 CCDS ; transcript_id "CAST--LIX1-AS1^ENST00000309190.9" ; transcript_name "CAST-201" ; transcript_support_level 1 ; transcript_type protein_coding
CAST--LIX1-AS1 HAVANA mRNA 11898 48389 . + . FI_gene_label "CAST^ENSG00000153113.24" ; ID "CAST--LIX1-AS1^ENST00000309190.9" ; Parent "CAST--LIX1-AS1^CAST^ENSG00000153113.24" ; ccdsid "CCDS4082.1" ; exon_id "ENSE00003566890.1" ; exon_number 2 ; gene_id "CAST--LIX1-AS1^CAST^ENSG00000153113.24" ; gene_name CAST ; gene_type protein_coding ; havana_gene "OTTHUMG00000128413.11" ; havana_transcript "OTTHUMT00000250198.2" ; hgnc_id "HGNC:1515" ; level 2 ; orig_coord_info "chr5,96722678,96722698,+" ; protein_id "ENSP00000312523.5" ; tag basic appris_alternative_2 CCDS ; transcript_id "CAST--LIX1-AS1^ENST00000309190.9" ; transcript_name "CAST-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CRYZL2P--SEC16B HAVANA gene 18631 44079 . + . FI_gene_label "SEC16B^ENSG00000120341.18" ; ID "CRYZL2P--SEC16B^SEC16B^ENSG00000120341.18" ; ccdsid "CCDS44281.1" ; exon_id "ENSE00003707644.1" ; exon_number 2 ; gene_id "CRYZL2P--SEC16B^SEC16B^ENSG00000120341.18" ; gene_name SEC16B ; gene_type protein_coding ; havana_gene "OTTHUMG00000167206.20" ; havana_transcript "OTTHUMT00000084773.22" ; hgnc_id "HGNC:30301" ; level 2 ; orig_coord_info "chr1,177967683,177967981,-" ; protein_id "ENSP00000308339.6" ; tag basic appris_principal_2 CCDS ; transcript_id "CRYZL2P--SEC16B^ENST00000308284.10" ; transcript_name "SEC16B-201" ; transcript_support_level 1 ; transcript_type protein_coding
CRYZL2P--SEC16B HAVANA mRNA 18631 44079 . + . FI_gene_label "SEC16B^ENSG00000120341.18" ; ID "CRYZL2P--SEC16B^ENST00000308284.10" ; Parent "CRYZL2P--SEC16B^SEC16B^ENSG00000120341.18" ; ccdsid "CCDS44281.1" ; exon_id "ENSE00003707644.1" ; exon_number 2 ; gene_id "CRYZL2P--SEC16B^SEC16B^ENSG00000120341.18" ; gene_name SEC16B ; gene_type protein_coding ; havana_gene "OTTHUMG00000167206.20" ; havana_transcript "OTTHUMT00000084773.22" ; hgnc_id "HGNC:30301" ; level 2 ; orig_coord_info "chr1,177967683,177967981,-" ; protein_id "ENSP00000308339.6" ; tag basic appris_principal_2 CCDS ; transcript_id "CRYZL2P--SEC16B^ENST00000308284.10" ; transcript_name "SEC16B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GGA2--PET100 HAVANA gene 3257 23940 . + . FI_gene_label "GGA2^ENSG00000103365.15" ; ID "GGA2--PET100^GGA2^ENSG00000103365.15" ; ccdsid "CCDS10611.1" ; exon_id "ENSE00003495136.1" ; exon_number 1 ; gene_id "GGA2--PET100^GGA2^ENSG00000103365.15" ; gene_name GGA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000096957.5" ; havana_transcript "OTTHUMT00000214019.1" ; hgnc_id "HGNC:16064" ; level 2 ; orig_coord_info "chr16,23510321,23510411,-" ; protein_id "ENSP00000311962.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GGA2--PET100^ENST00000309859.8" ; transcript_name "GGA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
GGA2--PET100 HAVANA mRNA 3257 23940 . + . FI_gene_label "GGA2^ENSG00000103365.15" ; ID "GGA2--PET100^ENST00000309859.8" ; Parent "GGA2--PET100^GGA2^ENSG00000103365.15" ; ccdsid "CCDS10611.1" ; exon_id "ENSE00003495136.1" ; exon_number 1 ; gene_id "GGA2--PET100^GGA2^ENSG00000103365.15" ; gene_name GGA2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000096957.5" ; havana_transcript "OTTHUMT00000214019.1" ; hgnc_id "HGNC:16064" ; level 2 ; orig_coord_info "chr16,23510321,23510411,-" ; protein_id "ENSP00000311962.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GGA2--PET100^ENST00000309859.8" ; transcript_name "GGA2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
GGA2--PET100 HAVANA gene 26962 28768 . + . FI_gene_label "PET100^ENSG00000229833.10" ; ID "GGA2--PET100^PET100^ENSG00000229833.10" ; exon_id "ENSE00003101510.1" ; exon_number 1 ; gene_id "GGA2--PET100^PET100^ENSG00000229833.10" ; gene_name PET100 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182394.4" ; havana_transcript "OTTHUMT00000460949.1" ; hgnc_id "HGNC:40038" ; level 2 ; orig_coord_info "chr19,7629834,7629860,+" ; protein_id "ENSP00000392303.3" ; tag basic ; transcript_id "GGA2--PET100^ENST00000456958.7" ; transcript_name "PET100-201" ; transcript_support_level 2 ; transcript_type protein_coding
GGA2--PET100 HAVANA mRNA 26962 28768 . + . FI_gene_label "PET100^ENSG00000229833.10" ; ID "GGA2--PET100^ENST00000456958.7" ; Parent "GGA2--PET100^PET100^ENSG00000229833.10" ; exon_id "ENSE00003101510.1" ; exon_number 1 ; gene_id "GGA2--PET100^PET100^ENSG00000229833.10" ; gene_name PET100 ; gene_type protein_coding ; havana_gene "OTTHUMG00000182394.4" ; havana_transcript "OTTHUMT00000460949.1" ; hgnc_id "HGNC:40038" ; level 2 ; orig_coord_info "chr19,7629834,7629860,+" ; protein_id "ENSP00000392303.3" ; tag basic ; transcript_id "GGA2--PET100^ENST00000456958.7" ; transcript_name "PET100-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
KLRC4--KLRK1 HAVANA gene 7417 15704 . + . FI_gene_label "KLRK1^ENSG00000213809.9" ; ID "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; ccdsid "CCDS8623.1" ; exon_id "ENSE00003640305.1" ; exon_number 2 ; gene_id "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; gene_name KLRK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168574.3" ; havana_transcript "OTTHUMT00000400269.2" ; hgnc_id "HGNC:18788" ; level 2 ; orig_coord_info "chr12,10388771,10388810,-" ; protein_id "ENSP00000240618.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000240618.11" ; transcript_name "KLRK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
KLRC4--KLRK1 HAVANA mRNA 7417 15704 . + . FI_gene_label "KLRK1^ENSG00000213809.9" ; ID "KLRC4--KLRK1^ENST00000240618.11" ; Parent "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; ccdsid "CCDS8623.1" ; exon_id "ENSE00003640305.1" ; exon_number 2 ; gene_id "KLRC4--KLRK1^KLRK1^ENSG00000213809.9" ; gene_name KLRK1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168574.3" ; havana_transcript "OTTHUMT00000400269.2" ; hgnc_id "HGNC:18788" ; level 2 ; orig_coord_info "chr12,10388771,10388810,-" ; protein_id "ENSP00000240618.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000240618.11" ; transcript_name "KLRK1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
KLRC4--KLRK1 HAVANA gene 1001 3376 . + . FI_gene_label "KLRC4^ENSG00000183542.5" ; ID "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; ccdsid "CCDS8624.1" ; exon_id "ENSE00001145174.1" ; exon_number 1 ; gene_id "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; gene_name KLRC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168575.2" ; havana_transcript "OTTHUMT00000400108.2" ; hgnc_id "HGNC:6377" ; level 2 ; orig_coord_info "chr12,10409389,10409575,-" ; protein_id "ENSP00000310216.1" ; tag basic appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000309384.2" ; transcript_name "KLRC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
KLRC4--KLRK1 HAVANA mRNA 1001 3376 . + . FI_gene_label "KLRC4^ENSG00000183542.5" ; ID "KLRC4--KLRK1^ENST00000309384.2" ; Parent "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; ccdsid "CCDS8624.1" ; exon_id "ENSE00001145174.1" ; exon_number 1 ; gene_id "KLRC4--KLRK1^KLRC4^ENSG00000183542.5" ; gene_name KLRC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168575.2" ; havana_transcript "OTTHUMT00000400108.2" ; hgnc_id "HGNC:6377" ; level 2 ; orig_coord_info "chr12,10409389,10409575,-" ; protein_id "ENSP00000310216.1" ; tag basic appris_principal_1 CCDS ; transcript_id "KLRC4--KLRK1^ENST00000309384.2" ; transcript_name "KLRC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHB14--PCDHB15 HAVANA gene 8418 12388 . + . FI_gene_label "PCDHB15^ENSG00000113248.6" ; ID "PCDHB14--PCDHB15^PCDHB15^ENSG00000113248.6" ; ccdsid "CCDS4257.1" ; exon_id "ENSE00000766437.10" ; exon_number 1 ; gene_id "PCDHB14--PCDHB15^PCDHB15^ENSG00000113248.6" ; gene_name PCDHB15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129609.6" ; havana_transcript "OTTHUMT00000251804.5" ; hgnc_id "HGNC:8686" ; level 2 ; orig_coord_info "chr5,141245579,141247939,+" ; protein_id "ENSP00000231173.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHB14--PCDHB15^ENST00000231173.6" ; transcript_name "PCDHB15-201" ; transcript_support_level NA ; transcript_type protein_coding
PCDHB14--PCDHB15 HAVANA mRNA 8418 12388 . + . FI_gene_label "PCDHB15^ENSG00000113248.6" ; ID "PCDHB14--PCDHB15^ENST00000231173.6" ; Parent "PCDHB14--PCDHB15^PCDHB15^ENSG00000113248.6" ; ccdsid "CCDS4257.1" ; exon_id "ENSE00000766437.10" ; exon_number 1 ; gene_id "PCDHB14--PCDHB15^PCDHB15^ENSG00000113248.6" ; gene_name PCDHB15 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129609.6" ; havana_transcript "OTTHUMT00000251804.5" ; hgnc_id "HGNC:8686" ; level 2 ; orig_coord_info "chr5,141245579,141247939,+" ; protein_id "ENSP00000231173.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHB14--PCDHB15^ENST00000231173.6" ; transcript_name "PCDHB15-201" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHB14--PCDHB15 HAVANA gene 1001 5417 . + . FI_gene_label "PCDHB14^ENSG00000120327.7" ; ID "PCDHB14--PCDHB15^PCDHB14^ENSG00000120327.7" ; ccdsid "CCDS4256.1" ; exon_id "ENSE00001430609.6" ; exon_number 1 ; gene_id "PCDHB14--PCDHB15^PCDHB14^ENSG00000120327.7" ; gene_name PCDHB14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129619.4" ; havana_transcript "OTTHUMT00000251814.3" ; hgnc_id "HGNC:8685" ; level 2 ; orig_coord_info "chr5,141223506,141225899,+" ; protein_id "ENSP00000239449.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHB14--PCDHB15^ENST00000239449.7" ; transcript_name "PCDHB14-201" ; transcript_support_level NA ; transcript_type protein_coding
PCDHB14--PCDHB15 HAVANA mRNA 1001 5417 . + . FI_gene_label "PCDHB14^ENSG00000120327.7" ; ID "PCDHB14--PCDHB15^ENST00000239449.7" ; Parent "PCDHB14--PCDHB15^PCDHB14^ENSG00000120327.7" ; ccdsid "CCDS4256.1" ; exon_id "ENSE00001430609.6" ; exon_number 1 ; gene_id "PCDHB14--PCDHB15^PCDHB14^ENSG00000120327.7" ; gene_name PCDHB14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129619.4" ; havana_transcript "OTTHUMT00000251814.3" ; hgnc_id "HGNC:8685" ; level 2 ; orig_coord_info "chr5,141223506,141225899,+" ; protein_id "ENSP00000239449.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHB14--PCDHB15^ENST00000239449.7" ; transcript_name "PCDHB14-201" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA10 HAVANA gene 6778 16231 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; gene_name PCDHGA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163688.2" ; havana_transcript "OTTHUMT00000374747.1" ; hgnc_id "HGNC:8697" ; level 2 ; orig_coord_info "chr5,141413176,141415611,+" ; protein_id "ENSP00000381611.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA10 HAVANA mRNA 6778 16231 . + . FI_gene_label "PCDHGA10^ENSG00000253846.2" ; ID "PCDHGB2--PCDHGA10^ENST00000398610.2" ; Parent "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; ccdsid "CCDS47292.1" ; exon_id "ENSE00001792208.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGA10^ENSG00000253846.2" ; gene_name PCDHGA10 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163688.2" ; havana_transcript "OTTHUMT00000374747.1" ; hgnc_id "HGNC:8697" ; level 2 ; orig_coord_info "chr5,141413176,141415611,+" ; protein_id "ENSP00000381611.2" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000398610.2" ; transcript_name "PCDHGA10-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA10 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA10 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA10^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA10^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA10^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA11 HAVANA gene 6593 15398 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; gene_name PCDHGA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164055.3" ; havana_transcript "OTTHUMT00000376974.3" ; hgnc_id "HGNC:8698" ; level 2 ; orig_coord_info "chr5,141421228,141423660,+" ; protein_id "ENSP00000381589.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA11 HAVANA mRNA 6593 15398 . + . FI_gene_label "PCDHGA11^ENSG00000253873.6" ; ID "PCDHGB2--PCDHGA11^ENST00000398587.7" ; Parent "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; ccdsid "CCDS47294.1" ; exon_id "ENSE00001533810.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGA11^ENSG00000253873.6" ; gene_name PCDHGA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164055.3" ; havana_transcript "OTTHUMT00000376974.3" ; hgnc_id "HGNC:8698" ; level 2 ; orig_coord_info "chr5,141421228,141423660,+" ; protein_id "ENSP00000381589.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000398587.7" ; transcript_name "PCDHGA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA11 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA11 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA11^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA11^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA11^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA12 HAVANA gene 6589 14481 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; gene_name PCDHGA12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129611.6" ; havana_transcript "OTTHUMT00000251806.3" ; hgnc_id "HGNC:8699" ; level 2 ; orig_coord_info "chr5,141430760,141433183,+" ; protein_id "ENSP00000252085.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA12 HAVANA mRNA 6589 14481 . + . FI_gene_label "PCDHGA12^ENSG00000253159.3" ; ID "PCDHGB2--PCDHGA12^ENST00000252085.4" ; Parent "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; ccdsid "CCDS4260.1" ; exon_id "ENSE00000814269.5" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGA12^ENSG00000253159.3" ; gene_name PCDHGA12 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129611.6" ; havana_transcript "OTTHUMT00000251806.3" ; hgnc_id "HGNC:8699" ; level 2 ; orig_coord_info "chr5,141430760,141433183,+" ; protein_id "ENSP00000252085.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000252085.4" ; transcript_name "PCDHGA12-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA12 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA12 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA12^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA12^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA12^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA8 HAVANA gene 9065 18245 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; gene_name PCDHGA8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164053.2" ; havana_transcript "OTTHUMT00000376972.1" ; hgnc_id "HGNC:8706" ; level 2 ; orig_coord_info "chr5,141392814,141395237,+" ; protein_id "ENSP00000381605.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA8 HAVANA mRNA 9065 18245 . + . FI_gene_label "PCDHGA8^ENSG00000253767.3" ; ID "PCDHGB2--PCDHGA8^ENST00000398604.3" ; Parent "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; ccdsid "CCDS47291.1" ; exon_id "ENSE00001533882.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGA8^ENSG00000253767.3" ; gene_name PCDHGA8 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164053.2" ; havana_transcript "OTTHUMT00000376972.1" ; hgnc_id "HGNC:8706" ; level 2 ; orig_coord_info "chr5,141392814,141395237,+" ; protein_id "ENSP00000381605.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000398604.3" ; transcript_name "PCDHGA8-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA8 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA8 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA8^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA8^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA8^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA9 HAVANA gene 6610 14337 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; gene_name PCDHGA9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177473.2" ; havana_transcript "OTTHUMT00000437105.1" ; hgnc_id "HGNC:8707" ; level 2 ; orig_coord_info "chr5,141402953,141405376,+" ; protein_id "ENSP00000460274.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGA9 HAVANA mRNA 6610 14337 . + . FI_gene_label "PCDHGA9^ENSG00000261934.2" ; ID "PCDHGB2--PCDHGA9^ENST00000573521.1" ; Parent "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; ccdsid "CCDS58981.1" ; exon_id "ENSE00002639131.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGA9^ENSG00000261934.2" ; gene_name PCDHGA9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177473.2" ; havana_transcript "OTTHUMT00000437105.1" ; hgnc_id "HGNC:8707" ; level 2 ; orig_coord_info "chr5,141402953,141405376,+" ; protein_id "ENSP00000460274.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000573521.1" ; transcript_name "PCDHGA9-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGA9 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGA9 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGA9^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGA9^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGA9^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB6 HAVANA gene 6771 16370 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; gene_name PCDHGB6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163687.2" ; havana_transcript "OTTHUMT00000374746.1" ; hgnc_id "HGNC:8713" ; level 2 ; orig_coord_info "chr5,141408203,141410620,+" ; protein_id "ENSP00000428603.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGB6 HAVANA mRNA 6771 16370 . + . FI_gene_label "PCDHGB6^ENSG00000253305.2" ; ID "PCDHGB2--PCDHGB6^ENST00000520790.1" ; Parent "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; ccdsid "CCDS54929.1" ; exon_id "ENSE00002122685.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB6^ENSG00000253305.2" ; gene_name PCDHGB6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163687.2" ; havana_transcript "OTTHUMT00000374746.1" ; hgnc_id "HGNC:8713" ; level 2 ; orig_coord_info "chr5,141408203,141410620,+" ; protein_id "ENSP00000428603.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000520790.1" ; transcript_name "PCDHGB6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB6 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGB6 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB6^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB6^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB6^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB7 HAVANA gene 6621 14550 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; gene_name PCDHGB7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164054.2" ; havana_transcript "OTTHUMT00000376973.2" ; hgnc_id "HGNC:8714" ; level 2 ; orig_coord_info "chr5,141417860,141420274,+" ; protein_id "ENSP00000381594.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGB7 HAVANA mRNA 6621 14550 . + . FI_gene_label "PCDHGB7^ENSG00000254122.3" ; ID "PCDHGB2--PCDHGB7^ENST00000398594.4" ; Parent "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; ccdsid "CCDS47293.1" ; exon_id "ENSE00001533845.4" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB7^ENSG00000254122.3" ; gene_name PCDHGB7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164054.2" ; havana_transcript "OTTHUMT00000376973.2" ; hgnc_id "HGNC:8714" ; level 2 ; orig_coord_info "chr5,141417860,141420274,+" ; protein_id "ENSP00000381594.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000398594.4" ; transcript_name "PCDHGB7-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGB7 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGB7 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGB7^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGB7^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGB7^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC3 HAVANA gene 6608 16794 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; gene_name PCDHGC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129613.8" ; havana_transcript "OTTHUMT00000251808.5" ; hgnc_id "HGNC:8716" ; level 2 ; orig_coord_info "chr5,141476117,141478546,+" ; protein_id "ENSP00000312070.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC3 HAVANA mRNA 6608 16794 . + . FI_gene_label "PCDHGC3^ENSG00000240184.7" ; ID "PCDHGB2--PCDHGC3^ENST00000308177.5" ; Parent "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; ccdsid "CCDS4261.1" ; exon_id "ENSE00001199459.7" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGC3^ENSG00000240184.7" ; gene_name PCDHGC3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129613.8" ; havana_transcript "OTTHUMT00000251808.5" ; hgnc_id "HGNC:8716" ; level 2 ; orig_coord_info "chr5,141476117,141478546,+" ; protein_id "ENSP00000312070.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000308177.5" ; transcript_name "PCDHGC3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC3 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC3 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC3^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC3^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC3^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC4 HAVANA gene 6766 14562 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; gene_name PCDHGC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129625.4" ; havana_transcript "OTTHUMT00000251820.2" ; hgnc_id "HGNC:8717" ; level 2 ; orig_coord_info "chr5,141485174,141487615,+" ; protein_id "ENSP00000306918.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC4 HAVANA mRNA 6766 14562 . + . FI_gene_label "PCDHGC4^ENSG00000242419.5" ; ID "PCDHGB2--PCDHGC4^ENST00000306593.1" ; Parent "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; ccdsid "CCDS4262.1" ; exon_id "ENSE00001162305.2" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGC4^ENSG00000242419.5" ; gene_name PCDHGC4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129625.4" ; havana_transcript "OTTHUMT00000251820.2" ; hgnc_id "HGNC:8717" ; level 2 ; orig_coord_info "chr5,141485174,141487615,+" ; protein_id "ENSP00000306918.1" ; tag basic appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000306593.1" ; transcript_name "PCDHGC4-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC4 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC4 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC4^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC4^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC4^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC5 HAVANA gene 6589 14614 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; gene_name PCDHGC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129624.2" ; havana_transcript "OTTHUMT00000251819.2" ; hgnc_id "HGNC:8718" ; level 2 ; orig_coord_info "chr5,141489241,141491700,+" ; protein_id "ENSP00000252087.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
PCDHGB2--PCDHGC5 HAVANA mRNA 6589 14614 . + . FI_gene_label "PCDHGC5^ENSG00000240764.4" ; ID "PCDHGB2--PCDHGC5^ENST00000252087.3" ; Parent "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; ccdsid "CCDS4263.1" ; exon_id "ENSE00000766474.3" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGC5^ENSG00000240764.4" ; gene_name PCDHGC5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129624.2" ; havana_transcript "OTTHUMT00000251819.2" ; hgnc_id "HGNC:8718" ; level 2 ; orig_coord_info "chr5,141489241,141491700,+" ; protein_id "ENSP00000252087.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000252087.3" ; transcript_name "PCDHGC5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PCDHGB2--PCDHGC5 HAVANA gene 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
PCDHGB2--PCDHGC5 HAVANA mRNA 1001 3588 . + . FI_gene_label "PCDHGB2^ENSG00000253910.2" ; ID "PCDHGB2--PCDHGC5^ENST00000622527.1" ; Parent "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; ccdsid "CCDS75332.1" ; exon_id "ENSE00003749890.1" ; exon_number 1 ; gene_id "PCDHGB2--PCDHGC5^PCDHGB2^ENSG00000253910.2" ; gene_name PCDHGB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163682.2" ; havana_transcript "OTTHUMT00000476685.1" ; hgnc_id "HGNC:8709" ; level 2 ; orig_coord_info "chr5,141360136,141362568,+" ; protein_id "ENSP00000481512.1" ; tag basic CCDS ; transcript_id "PCDHGB2--PCDHGC5^ENST00000622527.1" ; transcript_name "PCDHGB2-202" ; transcript_support_level NA ; transcript_type protein_coding
L1 and L2 created:
PRKDC--UCN3 HAVANA gene 1043 85737 . + . FI_gene_label "PRKDC^ENSG00000253729.8" ; ID "PRKDC--UCN3^PRKDC^ENSG00000253729.8" ; ccdsid "CCDS75735.1" ; exon_id "ENSE00003570797.2" ; exon_number 1 ; gene_id "PRKDC--UCN3^PRKDC^ENSG00000253729.8" ; gene_name PRKDC ; gene_type protein_coding ; havana_gene "OTTHUMG00000164239.7" ; havana_transcript "OTTHUMT00000377896.4" ; hgnc_id "HGNC:9413" ; level 2 ; orig_coord_info "chr8,47959973,47960126,-" ; protein_id "ENSP00000313420.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRKDC--UCN3^ENST00000314191.7" ; transcript_name "PRKDC-201" ; transcript_support_level 1 ; transcript_type protein_coding
PRKDC--UCN3 HAVANA mRNA 1043 85737 . + . FI_gene_label "PRKDC^ENSG00000253729.8" ; ID "PRKDC--UCN3^ENST00000314191.7" ; Parent "PRKDC--UCN3^PRKDC^ENSG00000253729.8" ; ccdsid "CCDS75735.1" ; exon_id "ENSE00003570797.2" ; exon_number 1 ; gene_id "PRKDC--UCN3^PRKDC^ENSG00000253729.8" ; gene_name PRKDC ; gene_type protein_coding ; havana_gene "OTTHUMG00000164239.7" ; havana_transcript "OTTHUMT00000377896.4" ; hgnc_id "HGNC:9413" ; level 2 ; orig_coord_info "chr8,47959973,47960126,-" ; protein_id "ENSP00000313420.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRKDC--UCN3^ENST00000314191.7" ; transcript_name "PRKDC-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PRKDC--UCN3 HAVANA gene 88738 90980 . + . FI_gene_label "UCN3^ENSG00000178473.7" ; ID "PRKDC--UCN3^UCN3^ENSG00000178473.7" ; ccdsid "CCDS7065.1" ; exon_id "ENSE00001484954.2" ; exon_number 2 ; gene_id "PRKDC--UCN3^UCN3^ENSG00000178473.7" ; gene_name UCN3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017594.3" ; havana_transcript "OTTHUMT00000046547.3" ; hgnc_id "HGNC:17781" ; level 2 ; orig_coord_info "chr10,5373721,5374203,+" ; protein_id "ENSP00000369798.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRKDC--UCN3^ENST00000380433.5" ; transcript_name "UCN3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PRKDC--UCN3 HAVANA mRNA 88738 90980 . + . FI_gene_label "UCN3^ENSG00000178473.7" ; ID "PRKDC--UCN3^ENST00000380433.5" ; Parent "PRKDC--UCN3^UCN3^ENSG00000178473.7" ; ccdsid "CCDS7065.1" ; exon_id "ENSE00001484954.2" ; exon_number 2 ; gene_id "PRKDC--UCN3^UCN3^ENSG00000178473.7" ; gene_name UCN3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017594.3" ; havana_transcript "OTTHUMT00000046547.3" ; hgnc_id "HGNC:17781" ; level 2 ; orig_coord_info "chr10,5373721,5374203,+" ; protein_id "ENSP00000369798.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRKDC--UCN3^ENST00000380433.5" ; transcript_name "UCN3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SGSM2--SMG6 HAVANA gene 22623 58158 . + . FI_gene_label "SMG6^ENSG00000070366.14" ; ID "SGSM2--SMG6^SMG6^ENSG00000070366.14" ; ccdsid "CCDS11016.1" ; exon_id "ENSE00001133693.6" ; exon_number 1 ; gene_id "SGSM2--SMG6^SMG6^ENSG00000070366.14" ; gene_name SMG6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177578.15" ; havana_transcript "OTTHUMT00000437826.4" ; hgnc_id "HGNC:17809" ; level 2 ; orig_coord_info "chr17,2303633,2303720,-" ; protein_id "ENSP00000263073.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SGSM2--SMG6^ENST00000263073.11" ; transcript_name "SMG6-201" ; transcript_support_level 1 ; transcript_type protein_coding
SGSM2--SMG6 HAVANA mRNA 22623 58158 . + . FI_gene_label "SMG6^ENSG00000070366.14" ; ID "SGSM2--SMG6^ENST00000263073.11" ; Parent "SGSM2--SMG6^SMG6^ENSG00000070366.14" ; ccdsid "CCDS11016.1" ; exon_id "ENSE00001133693.6" ; exon_number 1 ; gene_id "SGSM2--SMG6^SMG6^ENSG00000070366.14" ; gene_name SMG6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177578.15" ; havana_transcript "OTTHUMT00000437826.4" ; hgnc_id "HGNC:17809" ; level 2 ; orig_coord_info "chr17,2303633,2303720,-" ; protein_id "ENSP00000263073.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SGSM2--SMG6^ENST00000263073.11" ; transcript_name "SMG6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SGSM2--SMG6 HAVANA gene 1004 19618 . + . FI_gene_label "SGSM2^ENSG00000141258.13" ; ID "SGSM2--SMG6^SGSM2^ENSG00000141258.13" ; ccdsid "CCDS32526.1" ; exon_id "ENSE00002267698.2" ; exon_number 1 ; gene_id "SGSM2--SMG6^SGSM2^ENSG00000141258.13" ; gene_name SGSM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177637.12" ; havana_transcript "OTTHUMT00000438185.4" ; hgnc_id "HGNC:29026" ; level 2 ; orig_coord_info "chr17,2337689,2337745,+" ; protein_id "ENSP00000268989.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "SGSM2--SMG6^ENST00000268989.8" ; transcript_name "SGSM2-201" ; transcript_support_level 1 ; transcript_type protein_coding
SGSM2--SMG6 HAVANA mRNA 1004 19618 . + . FI_gene_label "SGSM2^ENSG00000141258.13" ; ID "SGSM2--SMG6^ENST00000268989.8" ; Parent "SGSM2--SMG6^SGSM2^ENSG00000141258.13" ; ccdsid "CCDS32526.1" ; exon_id "ENSE00002267698.2" ; exon_number 1 ; gene_id "SGSM2--SMG6^SGSM2^ENSG00000141258.13" ; gene_name SGSM2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177637.12" ; havana_transcript "OTTHUMT00000438185.4" ; hgnc_id "HGNC:29026" ; level 2 ; orig_coord_info "chr17,2337689,2337745,+" ; protein_id "ENSP00000268989.3" ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "SGSM2--SMG6^ENST00000268989.8" ; transcript_name "SGSM2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SMG6--AC006435.2 HAVANA gene 1001 36536 . + . FI_gene_label "SMG6^ENSG00000070366.14" ; ID "SMG6--AC006435.2^SMG6^ENSG00000070366.14" ; ccdsid "CCDS11016.1" ; exon_id "ENSE00001133693.6" ; exon_number 1 ; gene_id "SMG6--AC006435.2^SMG6^ENSG00000070366.14" ; gene_name SMG6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177578.15" ; havana_transcript "OTTHUMT00000437826.4" ; hgnc_id "HGNC:17809" ; level 2 ; orig_coord_info "chr17,2303633,2303720,-" ; protein_id "ENSP00000263073.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SMG6--AC006435.2^ENST00000263073.11" ; transcript_name "SMG6-201" ; transcript_support_level 1 ; transcript_type protein_coding
SMG6--AC006435.2 HAVANA mRNA 1001 36536 . + . FI_gene_label "SMG6^ENSG00000070366.14" ; ID "SMG6--AC006435.2^ENST00000263073.11" ; Parent "SMG6--AC006435.2^SMG6^ENSG00000070366.14" ; ccdsid "CCDS11016.1" ; exon_id "ENSE00001133693.6" ; exon_number 1 ; gene_id "SMG6--AC006435.2^SMG6^ENSG00000070366.14" ; gene_name SMG6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000177578.15" ; havana_transcript "OTTHUMT00000437826.4" ; hgnc_id "HGNC:17809" ; level 2 ; orig_coord_info "chr17,2303633,2303720,-" ; protein_id "ENSP00000263073.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SMG6--AC006435.2^ENST00000263073.11" ; transcript_name "SMG6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SND1--BRAF HAVANA gene 40810 74682 . + . FI_gene_label "BRAF^ENSG00000157764.14" ; ID "SND1--BRAF^BRAF^ENSG00000157764.14" ; exon_id "ENSE00003826734.1" ; exon_number 1 ; gene_id "SND1--BRAF^BRAF^ENSG00000157764.14" ; gene_name BRAF ; gene_type protein_coding ; havana_gene "OTTHUMG00000157457.6" ; havana_transcript "OTTHUMT00000496651.1" ; hgnc_id "HGNC:1097" ; level 2 ; orig_coord_info "chr7,140924566,140924703,-" ; protein_id "ENSP00000288602.7" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "SND1--BRAF^ENST00000288602.11" ; transcript_name "BRAF-201" ; transcript_support_level 1 ; transcript_type protein_coding
SND1--BRAF HAVANA mRNA 40810 74682 . + . FI_gene_label "BRAF^ENSG00000157764.14" ; ID "SND1--BRAF^ENST00000288602.11" ; Parent "SND1--BRAF^BRAF^ENSG00000157764.14" ; exon_id "ENSE00003826734.1" ; exon_number 1 ; gene_id "SND1--BRAF^BRAF^ENSG00000157764.14" ; gene_name BRAF ; gene_type protein_coding ; havana_gene "OTTHUMG00000157457.6" ; havana_transcript "OTTHUMT00000496651.1" ; hgnc_id "HGNC:1097" ; level 2 ; orig_coord_info "chr7,140924566,140924703,-" ; protein_id "ENSP00000288602.7" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "SND1--BRAF^ENST00000288602.11" ; transcript_name "BRAF-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SND1--BRAF HAVANA gene 1001 37596 . + . FI_gene_label "SND1^ENSG00000197157.11" ; ID "SND1--BRAF^SND1^ENSG00000197157.11" ; ccdsid "CCDS34747.1" ; exon_id "ENSE00001903029.2" ; exon_number 1 ; gene_id "SND1--BRAF^SND1^ENSG00000197157.11" ; gene_name SND1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157560.3" ; havana_transcript "OTTHUMT00000349148.2" ; hgnc_id "HGNC:30646" ; level 2 ; orig_coord_info "chr7,127652374,127652451,+" ; protein_id "ENSP00000346762.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SND1--BRAF^ENST00000354725.8" ; transcript_name "SND1-201" ; transcript_support_level 1 ; transcript_type protein_coding
SND1--BRAF HAVANA mRNA 1001 37596 . + . FI_gene_label "SND1^ENSG00000197157.11" ; ID "SND1--BRAF^ENST00000354725.8" ; Parent "SND1--BRAF^SND1^ENSG00000197157.11" ; ccdsid "CCDS34747.1" ; exon_id "ENSE00001903029.2" ; exon_number 1 ; gene_id "SND1--BRAF^SND1^ENSG00000197157.11" ; gene_name SND1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000157560.3" ; havana_transcript "OTTHUMT00000349148.2" ; hgnc_id "HGNC:30646" ; level 2 ; orig_coord_info "chr7,127652374,127652451,+" ; protein_id "ENSP00000346762.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SND1--BRAF^ENST00000354725.8" ; transcript_name "SND1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
STX16--NPEPL1 HAVANA gene 1021 7754 . + . FI_gene_label "STX16^ENSG00000124222.22" ; ID "STX16--NPEPL1^STX16^ENSG00000124222.22" ; exon_id "ENSE00003459479.1" ; exon_number 3 ; gene_id "STX16--NPEPL1^STX16^ENSG00000124222.22" ; gene_name STX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033084.8" ; havana_transcript "OTTHUMT00000267911.2" ; hgnc_id "HGNC:11431" ; level 2 ; orig_coord_info "chr20,58667505,58667597,+" ; protein_id "ENSP00000312086.8" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "STX16--NPEPL1^ENST00000312283.12" ; transcript_name "STX16-201" ; transcript_support_level 3 ; transcript_type protein_coding
STX16--NPEPL1 HAVANA mRNA 1021 7754 . + . FI_gene_label "STX16^ENSG00000124222.22" ; ID "STX16--NPEPL1^ENST00000312283.12" ; Parent "STX16--NPEPL1^STX16^ENSG00000124222.22" ; exon_id "ENSE00003459479.1" ; exon_number 3 ; gene_id "STX16--NPEPL1^STX16^ENSG00000124222.22" ; gene_name STX16 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033084.8" ; havana_transcript "OTTHUMT00000267911.2" ; hgnc_id "HGNC:11431" ; level 2 ; orig_coord_info "chr20,58667505,58667597,+" ; protein_id "ENSP00000312086.8" ; tag alternative_5_UTR mRNA_end_NF cds_end_NF ; transcript_id "STX16--NPEPL1^ENST00000312283.12" ; transcript_name "STX16-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
STX16--NPEPL1 HAVANA gene 18353 29399 . + . FI_gene_label "NPEPL1^ENSG00000215440.12" ; ID "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; ccdsid "CCDS46621.1" ; exon_id "ENSE00001408052.7" ; exon_number 1 ; gene_id "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; gene_name NPEPL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033060.8" ; havana_transcript "OTTHUMT00000080402.7" ; hgnc_id "HGNC:16244" ; level 2 ; orig_coord_info "chr20,58692901,58693050,+" ; protein_id "ENSP00000348395.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX16--NPEPL1^ENST00000356091.11" ; transcript_name "NPEPL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
STX16--NPEPL1 HAVANA mRNA 18353 29399 . + . FI_gene_label "NPEPL1^ENSG00000215440.12" ; ID "STX16--NPEPL1^ENST00000356091.11" ; Parent "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; ccdsid "CCDS46621.1" ; exon_id "ENSE00001408052.7" ; exon_number 1 ; gene_id "STX16--NPEPL1^NPEPL1^ENSG00000215440.12" ; gene_name NPEPL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000033060.8" ; havana_transcript "OTTHUMT00000080402.7" ; hgnc_id "HGNC:16244" ; level 2 ; orig_coord_info "chr20,58692901,58693050,+" ; protein_id "ENSP00000348395.6" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "STX16--NPEPL1^ENST00000356091.11" ; transcript_name "NPEPL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
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:
AC136431.1--PKD1P5 HAVANA gene 9015 30646 . + . FI_gene_label "PKD1P5^ENSG00000254681.6" ; ID "AC136431.1--PKD1P5^PKD1P5^ENSG00000254681.6" ; exon_id "ENSE00002185250.1" ; exon_number 1 ; gene_id "AC136431.1--PKD1P5^PKD1P5^ENSG00000254681.6" ; gene_name PKD1P5 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000166287.2" ; havana_transcript "OTTHUMT00000388923.1" ; hgnc_id "HGNC:30069" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr16,18401584,18401940,-" ; tag basic ; transcript_id "AC136431.1--PKD1P5^ENST00000532415.5" ; transcript_name "PKD1P5-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
AC136431.1--PKD1P5 HAVANA RNA 9015 30646 . + . FI_gene_label "PKD1P5^ENSG00000254681.6" ; ID "AC136431.1--PKD1P5^ENST00000532415.5" ; Parent "AC136431.1--PKD1P5^PKD1P5^ENSG00000254681.6" ; exon_id "ENSE00002185250.1" ; exon_number 1 ; gene_id "AC136431.1--PKD1P5^PKD1P5^ENSG00000254681.6" ; gene_name PKD1P5 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000166287.2" ; havana_transcript "OTTHUMT00000388923.1" ; hgnc_id "HGNC:30069" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr16,18401584,18401940,-" ; tag basic ; transcript_id "AC136431.1--PKD1P5^ENST00000532415.5" ; transcript_name "PKD1P5-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
AC136431.1--PKD1P5 HAVANA gene 1001 6014 . + . FI_gene_label "AC136431.1^ENSG00000260126.2" ; ID "AC136431.1--PKD1P5^AC136431.1^ENSG00000260126.2" ; exon_id "ENSE00003856180.1" ; exon_number 1 ; gene_id "AC136431.1--PKD1P5^AC136431.1^ENSG00000260126.2" ; gene_name "AC136431.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000177276.2" ; havana_transcript "OTTHUMT00000436080.2" ; level 2 ; orig_coord_info "chr16,16499533,16499619,+" ; tag basic TAGENE ; transcript_id "AC136431.1--PKD1P5^ENST00000567465.2" ; transcript_name "AC136431.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
AC136431.1--PKD1P5 HAVANA RNA 1001 6014 . + . FI_gene_label "AC136431.1^ENSG00000260126.2" ; ID "AC136431.1--PKD1P5^ENST00000567465.2" ; Parent "AC136431.1--PKD1P5^AC136431.1^ENSG00000260126.2" ; exon_id "ENSE00003856180.1" ; exon_number 1 ; gene_id "AC136431.1--PKD1P5^AC136431.1^ENSG00000260126.2" ; gene_name "AC136431.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000177276.2" ; havana_transcript "OTTHUMT00000436080.2" ; level 2 ; orig_coord_info "chr16,16499533,16499619,+" ; tag basic TAGENE ; transcript_id "AC136431.1--PKD1P5^ENST00000567465.2" ; transcript_name "AC136431.1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
BMS1P7--AGAP13P HAVANA gene 10576 13938 . + . FI_gene_label "AGAP13P^ENSG00000243289.1" ; ID "BMS1P7--AGAP13P^AGAP13P^ENSG00000243289.1" ; exon_id "ENSE00002475142.1" ; exon_number 1 ; gene_id "BMS1P7--AGAP13P^AGAP13P^ENSG00000243289.1" ; gene_name AGAP13P ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000018095.2" ; havana_transcript "OTTHUMT00000047819.2" ; hgnc_id "HGNC:23499" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr10,46816516,46816738,+" ; tag basic ; transcript_id "BMS1P7--AGAP13P^ENST00000417888.1" ; transcript_name "AGAP13P-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
BMS1P7--AGAP13P HAVANA RNA 10576 13938 . + . FI_gene_label "AGAP13P^ENSG00000243289.1" ; ID "BMS1P7--AGAP13P^ENST00000417888.1" ; Parent "BMS1P7--AGAP13P^AGAP13P^ENSG00000243289.1" ; exon_id "ENSE00002475142.1" ; exon_number 1 ; gene_id "BMS1P7--AGAP13P^AGAP13P^ENSG00000243289.1" ; gene_name AGAP13P ; gene_type unprocessed_pseudogene ; havana_gene "OTTHUMG00000018095.2" ; havana_transcript "OTTHUMT00000047819.2" ; hgnc_id "HGNC:23499" ; level 2 ; ont "PGO:0000005" ; orig_coord_info "chr10,46816516,46816738,+" ; tag basic ; transcript_id "BMS1P7--AGAP13P^ENST00000417888.1" ; transcript_name "AGAP13P-201" ; transcript_support_level NA ; transcript_type unprocessed_pseudogene
L1 and L2 created:
BMS1P7--AGAP13P HAVANA gene 1001 7575 . + . FI_gene_label "BMS1P7^ENSG00000270025.2" ; ID "BMS1P7--AGAP13P^BMS1P7^ENSG00000270025.2" ; exon_id "ENSE00001675840.2" ; exon_number 1 ; gene_id "BMS1P7--AGAP13P^BMS1P7^ENSG00000270025.2" ; gene_name BMS1P7 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000018163.3" ; havana_transcript "OTTHUMT00000047911.2" ; hgnc_id "HGNC:23655" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr10,48059827,48060016,-" ; tag basic ; transcript_id "BMS1P7--AGAP13P^ENST00000602440.2" ; transcript_name "BMS1P7-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
BMS1P7--AGAP13P HAVANA RNA 1001 7575 . + . FI_gene_label "BMS1P7^ENSG00000270025.2" ; ID "BMS1P7--AGAP13P^ENST00000602440.2" ; Parent "BMS1P7--AGAP13P^BMS1P7^ENSG00000270025.2" ; exon_id "ENSE00001675840.2" ; exon_number 1 ; gene_id "BMS1P7--AGAP13P^BMS1P7^ENSG00000270025.2" ; gene_name BMS1P7 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000018163.3" ; havana_transcript "OTTHUMT00000047911.2" ; hgnc_id "HGNC:23655" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr10,48059827,48060016,-" ; tag basic ; transcript_id "BMS1P7--AGAP13P^ENST00000602440.2" ; transcript_name "BMS1P7-201" ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
CAST--LIX1-AS1 HAVANA gene 53751 60700 . + . FI_gene_label "LIX1-AS1^ENSG00000251513.2" ; ID "CAST--LIX1-AS1^LIX1-AS1^ENSG00000251513.2" ; exon_id "ENSE00002075795.1" ; exon_number 1 ; gene_id "CAST--LIX1-AS1^LIX1-AS1^ENSG00000251513.2" ; gene_name "LIX1-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000162866.2" ; havana_transcript "OTTHUMT00000370857.2" ; hgnc_id "HGNC:52976" ; level 1 ; orig_coord_info "chr5,97089075,97089204,+" ; tag basic exp_conf ; transcript_id "CAST--LIX1-AS1^ENST00000504578.2" ; transcript_name "LIX1-AS1-201" ; transcript_support_level 5 ; transcript_type lncRNA
CAST--LIX1-AS1 HAVANA RNA 53751 60700 . + . FI_gene_label "LIX1-AS1^ENSG00000251513.2" ; ID "CAST--LIX1-AS1^ENST00000504578.2" ; Parent "CAST--LIX1-AS1^LIX1-AS1^ENSG00000251513.2" ; exon_id "ENSE00002075795.1" ; exon_number 1 ; gene_id "CAST--LIX1-AS1^LIX1-AS1^ENSG00000251513.2" ; gene_name "LIX1-AS1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000162866.2" ; havana_transcript "OTTHUMT00000370857.2" ; hgnc_id "HGNC:52976" ; level 1 ; orig_coord_info "chr5,97089075,97089204,+" ; tag basic exp_conf ; transcript_id "CAST--LIX1-AS1^ENST00000504578.2" ; transcript_name "LIX1-AS1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
CRYZL2P--SEC16B HAVANA gene 1005 12289 . + . FI_gene_label "CRYZL2P^ENSG00000242193.11" ; ID "CRYZL2P--SEC16B^CRYZL2P^ENSG00000242193.11" ; exon_id "ENSE00001918901.2" ; exon_number 1 ; gene_id "CRYZL2P--SEC16B^CRYZL2P^ENSG00000242193.11" ; gene_name CRYZL2P ; gene_type transcribed_unitary_pseudogene ; havana_gene "OTTHUMG00000154878.4" ; havana_transcript "OTTHUMT00000337460.2" ; hgnc_id "HGNC:52164" ; level 2 ; orig_coord_info "chr1,178037897,178037946,-" ; tag basic ; transcript_id "CRYZL2P--SEC16B^ENST00000462729.2" ; transcript_name "CRYZL2P-201" ; transcript_support_level NA ; transcript_type transcribed_unitary_pseudogene
CRYZL2P--SEC16B HAVANA RNA 1005 12289 . + . FI_gene_label "CRYZL2P^ENSG00000242193.11" ; ID "CRYZL2P--SEC16B^ENST00000462729.2" ; Parent "CRYZL2P--SEC16B^CRYZL2P^ENSG00000242193.11" ; exon_id "ENSE00001918901.2" ; exon_number 1 ; gene_id "CRYZL2P--SEC16B^CRYZL2P^ENSG00000242193.11" ; gene_name CRYZL2P ; gene_type transcribed_unitary_pseudogene ; havana_gene "OTTHUMG00000154878.4" ; havana_transcript "OTTHUMT00000337460.2" ; hgnc_id "HGNC:52164" ; level 2 ; orig_coord_info "chr1,178037897,178037946,-" ; tag basic ; transcript_id "CRYZL2P--SEC16B^ENST00000462729.2" ; transcript_name "CRYZL2P-201" ; transcript_support_level NA ; transcript_type transcribed_unitary_pseudogene
L1 and L2 created:
SMG6--AC006435.2 HAVANA gene 40702 41649 . + . FI_gene_label "AC006435.2^ENSG00000263345.1" ; ID "SMG6--AC006435.2^AC006435.2^ENSG00000263345.1" ; exon_id "ENSE00002658067.1" ; exon_number 1 ; gene_id "SMG6--AC006435.2^AC006435.2^ENSG00000263345.1" ; gene_name "AC006435.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000177761.3" ; havana_transcript "OTTHUMT00000438873.2" ; level 2 ; orig_coord_info "chr17,2377359,2377746,-" ; tag basic ; transcript_id "SMG6--AC006435.2^ENST00000573007.1" ; transcript_name "AC006435.2-202" ; transcript_support_level 3 ; transcript_type lncRNA
SMG6--AC006435.2 HAVANA RNA 40702 41649 . + . FI_gene_label "AC006435.2^ENSG00000263345.1" ; ID "SMG6--AC006435.2^ENST00000573007.1" ; Parent "SMG6--AC006435.2^AC006435.2^ENSG00000263345.1" ; exon_id "ENSE00002658067.1" ; exon_number 1 ; gene_id "SMG6--AC006435.2^AC006435.2^ENSG00000263345.1" ; gene_name "AC006435.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000177761.3" ; havana_transcript "OTTHUMT00000438873.2" ; level 2 ; orig_coord_info "chr17,2377359,2377746,-" ; tag basic ; transcript_id "SMG6--AC006435.2^ENST00000573007.1" ; transcript_name "AC006435.2-202" ; transcript_support_level 3 ; 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
360 cases fixed where L3 features have parent feature(s) missing
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--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
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--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
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------------------------- Check7: all level3 locations -------------------------
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------------------------------ Check8: check cds -------------------------------
No problem found
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----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
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----------------------------- Check10: check utrs ------------------------------
679 UTRs created that were missing
No UTRs locations modified
No supernumerary UTRs removed
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------------------------ Check11: all level2 locations -------------------------
No problem found
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------------------------ Check12: all level1 locations -------------------------
We fixed 28 wrong level1 location cases
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---------------------- Check13: remove identical isoforms ----------------------
None found
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------ End checks (done in 0 second) ------
GFF3 file parsed