File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1b/a9eca437597a0ffbd968e7aaa3f879/.command.log
Size
78.1 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV (KG1_FFPE_01_RNA_0003_B23LG7FLT4_3)
Attempt

Content

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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e6/4940f846f3d5b5aa2231c17340dcaf/fi_workdir/KG1_FFPE_01_RNA_0003_B23LG7FLT4_3.gtf
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1b/a9eca437597a0ffbd968e7aaa3f879/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1b/a9eca437597a0ffbd968e7aaa3f879/.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: 4488
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 4488
=> Number of feature type (3rd column): 2
	* Level1: 0 => 
	* level2: 0 => 
	* level3: 2 => exon CDS
	* unknown: 0 => 
=>Check because only level3 features:
 * Number of feature with Parent attribute:0
 * Number of feature with a common attribute:4488
  => 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: 
AMN1--WIF1	HAVANA	gene	1101	12834	.	+	.	FI_gene_label "AMN1^ENSG00000151743.11"  ; ID "AMN1--WIF1^AMN1^ENSG00000151743.11"  ; ccdsid "CCDS44858.1"  ; exon_id "ENSE00001323312.4"  ; exon_number 1 ; gene_id "AMN1--WIF1^AMN1^ENSG00000151743.11"  ; gene_name AMN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169192.4"  ; havana_transcript "OTTHUMT00000402807.3"  ; hgnc_id "HGNC:27281"  ; level 2 ; orig_coord_info "chr12,31728971,31729008,-"  ; protein_id "ENSP00000281471.6"  ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "AMN1--WIF1^ENST00000281471.11"  ; transcript_name "AMN1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
AMN1--WIF1	HAVANA	mRNA	1101	12834	.	+	.	FI_gene_label "AMN1^ENSG00000151743.11"  ; ID "AMN1--WIF1^ENST00000281471.11"  ; Parent "AMN1--WIF1^AMN1^ENSG00000151743.11"  ; ccdsid "CCDS44858.1"  ; exon_id "ENSE00001323312.4"  ; exon_number 1 ; gene_id "AMN1--WIF1^AMN1^ENSG00000151743.11"  ; gene_name AMN1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169192.4"  ; havana_transcript "OTTHUMT00000402807.3"  ; hgnc_id "HGNC:27281"  ; level 2 ; orig_coord_info "chr12,31728971,31729008,-"  ; protein_id "ENSP00000281471.6"  ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "AMN1--WIF1^ENST00000281471.11"  ; transcript_name "AMN1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
AMN1--WIF1	HAVANA	gene	15835	26046	.	+	.	FI_gene_label "WIF1^ENSG00000156076.10"  ; ID "AMN1--WIF1^WIF1^ENSG00000156076.10"  ; ccdsid "CCDS8971.1"  ; exon_id "ENSE00001313678.5"  ; exon_number 1 ; gene_id "AMN1--WIF1^WIF1^ENSG00000156076.10"  ; gene_name WIF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168832.5"  ; havana_transcript "OTTHUMT00000401258.3"  ; hgnc_id "HGNC:18081"  ; level 2 ; orig_coord_info "chr12,65121044,65121191,-"  ; protein_id "ENSP00000286574.4"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AMN1--WIF1^ENST00000286574.9"  ; transcript_name "WIF1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
AMN1--WIF1	HAVANA	mRNA	15835	26046	.	+	.	FI_gene_label "WIF1^ENSG00000156076.10"  ; ID "AMN1--WIF1^ENST00000286574.9"  ; Parent "AMN1--WIF1^WIF1^ENSG00000156076.10"  ; ccdsid "CCDS8971.1"  ; exon_id "ENSE00001313678.5"  ; exon_number 1 ; gene_id "AMN1--WIF1^WIF1^ENSG00000156076.10"  ; gene_name WIF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000168832.5"  ; havana_transcript "OTTHUMT00000401258.3"  ; hgnc_id "HGNC:18081"  ; level 2 ; orig_coord_info "chr12,65121044,65121191,-"  ; protein_id "ENSP00000286574.4"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AMN1--WIF1^ENST00000286574.9"  ; transcript_name "WIF1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
BCAT1--AC023796.2	HAVANA	gene	1001	25329	.	+	.	FI_gene_label "BCAT1^ENSG00000060982.15"  ; ID "BCAT1--AC023796.2^BCAT1^ENSG00000060982.15"  ; ccdsid "CCDS44845.1"  ; exon_id "ENSE00001535251.4"  ; exon_number 1 ; gene_id "BCAT1--AC023796.2^BCAT1^ENSG00000060982.15"  ; gene_name BCAT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169053.5"  ; havana_transcript "OTTHUMT00000402080.3"  ; hgnc_id "HGNC:976"  ; level 2 ; orig_coord_info "chr12,24948927,24948932,-"  ; protein_id "ENSP00000261192.7"  ; tag upstream_uORF basic MANE_Select appris_principal_4 CCDS ; transcript_id "BCAT1--AC023796.2^ENST00000261192.12"  ; transcript_name "BCAT1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
BCAT1--AC023796.2	HAVANA	mRNA	1001	25329	.	+	.	FI_gene_label "BCAT1^ENSG00000060982.15"  ; ID "BCAT1--AC023796.2^ENST00000261192.12"  ; Parent "BCAT1--AC023796.2^BCAT1^ENSG00000060982.15"  ; ccdsid "CCDS44845.1"  ; exon_id "ENSE00001535251.4"  ; exon_number 1 ; gene_id "BCAT1--AC023796.2^BCAT1^ENSG00000060982.15"  ; gene_name BCAT1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169053.5"  ; havana_transcript "OTTHUMT00000402080.3"  ; hgnc_id "HGNC:976"  ; level 2 ; orig_coord_info "chr12,24948927,24948932,-"  ; protein_id "ENSP00000261192.7"  ; tag upstream_uORF basic MANE_Select appris_principal_4 CCDS ; transcript_id "BCAT1--AC023796.2^ENST00000261192.12"  ; transcript_name "BCAT1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
CCDC169--SOHLH2	HAVANA	gene	1027	13795	.	+	.	FI_gene_label "CCDC169^ENSG00000242715.8"  ; ID "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8"  ; ccdsid "CCDS45028.1"  ; exon_id "ENSE00003461130.2"  ; exon_number 1 ; gene_id "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8"  ; gene_name CCDC169 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016731.4"  ; havana_transcript "OTTHUMT00000368255.2"  ; hgnc_id "HGNC:34361"  ; level 2 ; orig_coord_info "chr13,36297637,36297719,-"  ; protein_id "ENSP00000239859.7"  ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000239859.8"  ; transcript_name "CCDC169-201"  ; transcript_support_level 5 ; transcript_type protein_coding
CCDC169--SOHLH2	HAVANA	mRNA	1027	13795	.	+	.	FI_gene_label "CCDC169^ENSG00000242715.8"  ; ID "CCDC169--SOHLH2^ENST00000239859.8"  ; Parent "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8"  ; ccdsid "CCDS45028.1"  ; exon_id "ENSE00003461130.2"  ; exon_number 1 ; gene_id "CCDC169--SOHLH2^CCDC169^ENSG00000242715.8"  ; gene_name CCDC169 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016731.4"  ; havana_transcript "OTTHUMT00000368255.2"  ; hgnc_id "HGNC:34361"  ; level 2 ; orig_coord_info "chr13,36297637,36297719,-"  ; protein_id "ENSP00000239859.7"  ; tag basic MANE_Select appris_alternative_2 CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000239859.8"  ; transcript_name "CCDC169-201"  ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created: 
CCDC169--SOHLH2	HAVANA	gene	23170	30158	.	+	.	FI_gene_label "SOHLH2^ENSG00000120669.16"  ; ID "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16"  ; ccdsid "CCDS61309.1"  ; exon_id "ENSE00001482819.2"  ; exon_number 1 ; gene_id "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16"  ; gene_name SOHLH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016728.4"  ; havana_transcript "OTTHUMT00000368257.1"  ; hgnc_id "HGNC:26026"  ; level 1 ; orig_coord_info "chr13,36214479,36214526,-"  ; protein_id "ENSP00000326838.6"  ; tag basic exp_conf CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000317764.6"  ; transcript_name "SOHLH2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
CCDC169--SOHLH2	HAVANA	mRNA	23170	30158	.	+	.	FI_gene_label "SOHLH2^ENSG00000120669.16"  ; ID "CCDC169--SOHLH2^ENST00000317764.6"  ; Parent "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16"  ; ccdsid "CCDS61309.1"  ; exon_id "ENSE00001482819.2"  ; exon_number 1 ; gene_id "CCDC169--SOHLH2^SOHLH2^ENSG00000120669.16"  ; gene_name SOHLH2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016728.4"  ; havana_transcript "OTTHUMT00000368257.1"  ; hgnc_id "HGNC:26026"  ; level 1 ; orig_coord_info "chr13,36214479,36214526,-"  ; protein_id "ENSP00000326838.6"  ; tag basic exp_conf CCDS ; transcript_id "CCDC169--SOHLH2^ENST00000317764.6"  ; transcript_name "SOHLH2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
FGFR1OP2--FGFR1	HAVANA	gene	1001	12409	.	+	.	FI_gene_label "FGFR1OP2^ENSG00000111790.14"  ; ID "FGFR1OP2--FGFR1^FGFR1OP2^ENSG00000111790.14"  ; ccdsid "CCDS8709.1"  ; exon_id "ENSE00003510128.1"  ; exon_number 2 ; gene_id "FGFR1OP2--FGFR1^FGFR1OP2^ENSG00000111790.14"  ; gene_name FGFR1OP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169231.3"  ; havana_transcript "OTTHUMT00000402961.2"  ; hgnc_id "HGNC:23098"  ; level 2 ; orig_coord_info "chr12,26954159,26954293,+"  ; protein_id "ENSP00000229395.3"  ; tag basic MANE_Select CCDS ; transcript_id "FGFR1OP2--FGFR1^ENST00000229395.8"  ; transcript_name "FGFR1OP2-201"  ; transcript_support_level 2 ; transcript_type protein_coding
FGFR1OP2--FGFR1	HAVANA	mRNA	1001	12409	.	+	.	FI_gene_label "FGFR1OP2^ENSG00000111790.14"  ; ID "FGFR1OP2--FGFR1^ENST00000229395.8"  ; Parent "FGFR1OP2--FGFR1^FGFR1OP2^ENSG00000111790.14"  ; ccdsid "CCDS8709.1"  ; exon_id "ENSE00003510128.1"  ; exon_number 2 ; gene_id "FGFR1OP2--FGFR1^FGFR1OP2^ENSG00000111790.14"  ; gene_name FGFR1OP2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169231.3"  ; havana_transcript "OTTHUMT00000402961.2"  ; hgnc_id "HGNC:23098"  ; level 2 ; orig_coord_info "chr12,26954159,26954293,+"  ; protein_id "ENSP00000229395.3"  ; tag basic MANE_Select CCDS ; transcript_id "FGFR1OP2--FGFR1^ENST00000229395.8"  ; transcript_name "FGFR1OP2-201"  ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created: 
FGFR1OP2--FGFR1	HAVANA	gene	15630	43160	.	+	.	FI_gene_label "FGFR1^ENSG00000077782.21"  ; ID "FGFR1OP2--FGFR1^FGFR1^ENSG00000077782.21"  ; ccdsid "CCDS43731.1"  ; exon_id "ENSE00003610788.1"  ; exon_number 2 ; gene_id "FGFR1OP2--FGFR1^FGFR1^ENSG00000077782.21"  ; gene_name FGFR1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000147366.18"  ; havana_transcript "OTTHUMT00000304017.2"  ; hgnc_id "HGNC:3688"  ; level 2 ; orig_coord_info "chr8,38457356,38457446,-"  ; protein_id "ENSP00000327229.6"  ; tag non_canonical_conserved basic CCDS ; transcript_id "FGFR1OP2--FGFR1^ENST00000326324.10"  ; transcript_name "FGFR1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
FGFR1OP2--FGFR1	HAVANA	mRNA	15630	43160	.	+	.	FI_gene_label "FGFR1^ENSG00000077782.21"  ; ID "FGFR1OP2--FGFR1^ENST00000326324.10"  ; Parent "FGFR1OP2--FGFR1^FGFR1^ENSG00000077782.21"  ; ccdsid "CCDS43731.1"  ; exon_id "ENSE00003610788.1"  ; exon_number 2 ; gene_id "FGFR1OP2--FGFR1^FGFR1^ENSG00000077782.21"  ; gene_name FGFR1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000147366.18"  ; havana_transcript "OTTHUMT00000304017.2"  ; hgnc_id "HGNC:3688"  ; level 2 ; orig_coord_info "chr8,38457356,38457446,-"  ; protein_id "ENSP00000327229.6"  ; tag non_canonical_conserved basic CCDS ; transcript_id "FGFR1OP2--FGFR1^ENST00000326324.10"  ; transcript_name "FGFR1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
GRIA3--STAG2	HAVANA	gene	29774	68172	.	+	.	FI_gene_label "STAG2^ENSG00000101972.19"  ; ID "GRIA3--STAG2^STAG2^ENSG00000101972.19"  ; ccdsid "CCDS43990.1"  ; exon_id "ENSE00003645286.1"  ; exon_number 3 ; gene_id "GRIA3--STAG2^STAG2^ENSG00000101972.19"  ; gene_name STAG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022725.13"  ; havana_transcript "OTTHUMT00000106726.2"  ; hgnc_id "HGNC:11355"  ; level 2 ; orig_coord_info "chrX,124022628,124022671,+"  ; protein_id "ENSP00000218089.9"  ; tag basic appris_alternative_1 CCDS ; transcript_id "GRIA3--STAG2^ENST00000218089.13"  ; transcript_name "STAG2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
GRIA3--STAG2	HAVANA	mRNA	29774	68172	.	+	.	FI_gene_label "STAG2^ENSG00000101972.19"  ; ID "GRIA3--STAG2^ENST00000218089.13"  ; Parent "GRIA3--STAG2^STAG2^ENSG00000101972.19"  ; ccdsid "CCDS43990.1"  ; exon_id "ENSE00003645286.1"  ; exon_number 3 ; gene_id "GRIA3--STAG2^STAG2^ENSG00000101972.19"  ; gene_name STAG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022725.13"  ; havana_transcript "OTTHUMT00000106726.2"  ; hgnc_id "HGNC:11355"  ; level 2 ; orig_coord_info "chrX,124022628,124022671,+"  ; protein_id "ENSP00000218089.9"  ; tag basic appris_alternative_1 CCDS ; transcript_id "GRIA3--STAG2^ENST00000218089.13"  ; transcript_name "STAG2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
GRIA3--STAG2	HAVANA	gene	1331	23263	.	+	.	FI_gene_label "GRIA3^ENSG00000125675.19"  ; ID "GRIA3--STAG2^GRIA3^ENSG00000125675.19"  ; ccdsid "CCDS14604.1"  ; exon_id "ENSE00003715111.1"  ; exon_number 1 ; gene_id "GRIA3--STAG2^GRIA3^ENSG00000125675.19"  ; gene_name GRIA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022685.4"  ; havana_transcript "OTTHUMT00000058854.3"  ; hgnc_id "HGNC:4573"  ; level 2 ; orig_coord_info "chrX,123184536,123184644,+"  ; protein_id "ENSP00000446440.2"  ; tag basic appris_alternative_1 CCDS ; transcript_id "GRIA3--STAG2^ENST00000541091.5"  ; transcript_name "GRIA3-204"  ; transcript_support_level 1 ; transcript_type protein_coding
GRIA3--STAG2	HAVANA	mRNA	1331	23263	.	+	.	FI_gene_label "GRIA3^ENSG00000125675.19"  ; ID "GRIA3--STAG2^ENST00000541091.5"  ; Parent "GRIA3--STAG2^GRIA3^ENSG00000125675.19"  ; ccdsid "CCDS14604.1"  ; exon_id "ENSE00003715111.1"  ; exon_number 1 ; gene_id "GRIA3--STAG2^GRIA3^ENSG00000125675.19"  ; gene_name GRIA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022685.4"  ; havana_transcript "OTTHUMT00000058854.3"  ; hgnc_id "HGNC:4573"  ; level 2 ; orig_coord_info "chrX,123184536,123184644,+"  ; protein_id "ENSP00000446440.2"  ; tag basic appris_alternative_1 CCDS ; transcript_id "GRIA3--STAG2^ENST00000541091.5"  ; transcript_name "GRIA3-204"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
GUSBP2--NAIP	ENSEMBL	gene	16596	37775	.	+	.	FI_gene_label "NAIP^ENSG00000249437.8"  ; ID "GUSBP2--NAIP^NAIP^ENSG00000249437.8"  ; ccdsid "CCDS4009.1"  ; exon_id "ENSE00002284906.1"  ; exon_number 2 ; gene_id "GUSBP2--NAIP^NAIP^ENSG00000249437.8"  ; gene_name NAIP ; gene_type protein_coding ; havana_gene "OTTHUMG00000163318.7"  ; hgnc_id "HGNC:7634"  ; level 3 ; orig_coord_info "chr5,71012348,71012915,-"  ; protein_id "ENSP00000443944.1"  ; tag basic appris_principal_2 CCDS ; transcript_id "GUSBP2--NAIP^ENST00000194097.8"  ; transcript_name "NAIP-201"  ; transcript_support_level 1 ; transcript_type protein_coding
GUSBP2--NAIP	ENSEMBL	mRNA	16596	37775	.	+	.	FI_gene_label "NAIP^ENSG00000249437.8"  ; ID "GUSBP2--NAIP^ENST00000194097.8"  ; Parent "GUSBP2--NAIP^NAIP^ENSG00000249437.8"  ; ccdsid "CCDS4009.1"  ; exon_id "ENSE00002284906.1"  ; exon_number 2 ; gene_id "GUSBP2--NAIP^NAIP^ENSG00000249437.8"  ; gene_name NAIP ; gene_type protein_coding ; havana_gene "OTTHUMG00000163318.7"  ; hgnc_id "HGNC:7634"  ; level 3 ; orig_coord_info "chr5,71012348,71012915,-"  ; protein_id "ENSP00000443944.1"  ; tag basic appris_principal_2 CCDS ; transcript_id "GUSBP2--NAIP^ENST00000194097.8"  ; transcript_name "NAIP-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
NPM1--MT-RNR2	HAVANA	gene	1734	14723	.	+	.	FI_gene_label "NPM1^ENSG00000181163.14"  ; ID "NPM1--MT-RNR2^NPM1^ENSG00000181163.14"  ; ccdsid "CCDS4376.1"  ; exon_id "ENSE00003906984.1"  ; exon_number 1 ; gene_id "NPM1--MT-RNR2^NPM1^ENSG00000181163.14"  ; gene_name NPM1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130465.4"  ; havana_transcript "OTTHUMT00000252858.2"  ; hgnc_id "HGNC:7910"  ; level 2 ; orig_coord_info "chr5,171387949,171388006,+"  ; protein_id "ENSP00000296930.5"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NPM1--MT-RNR2^ENST00000296930.10"  ; transcript_name "NPM1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
NPM1--MT-RNR2	HAVANA	mRNA	1734	14723	.	+	.	FI_gene_label "NPM1^ENSG00000181163.14"  ; ID "NPM1--MT-RNR2^ENST00000296930.10"  ; Parent "NPM1--MT-RNR2^NPM1^ENSG00000181163.14"  ; ccdsid "CCDS4376.1"  ; exon_id "ENSE00003906984.1"  ; exon_number 1 ; gene_id "NPM1--MT-RNR2^NPM1^ENSG00000181163.14"  ; gene_name NPM1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000130465.4"  ; havana_transcript "OTTHUMT00000252858.2"  ; hgnc_id "HGNC:7910"  ; level 2 ; orig_coord_info "chr5,171387949,171388006,+"  ; protein_id "ENSP00000296930.5"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "NPM1--MT-RNR2^ENST00000296930.10"  ; transcript_name "NPM1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
PCDHA4--PCDHA13	HAVANA	gene	14666	23106	.	+	.	FI_gene_label "PCDHA13^ENSG00000239389.8"  ; ID "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8"  ; ccdsid "CCDS4240.1"  ; exon_id "ENSE00001038419.2"  ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8"  ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4"  ; havana_transcript "OTTHUMT00000335000.2"  ; hgnc_id "HGNC:8667"  ; level 2 ; orig_coord_info "chr5,140882269,140884662,+"  ; protein_id "ENSP00000289272.2"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHA13^ENST00000289272.3"  ; transcript_name "PCDHA13-201"  ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHA13	HAVANA	mRNA	14666	23106	.	+	.	FI_gene_label "PCDHA13^ENSG00000239389.8"  ; ID "PCDHA4--PCDHA13^ENST00000289272.3"  ; Parent "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8"  ; ccdsid "CCDS4240.1"  ; exon_id "ENSE00001038419.2"  ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA13^ENSG00000239389.8"  ; gene_name PCDHA13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129614.4"  ; havana_transcript "OTTHUMT00000335000.2"  ; hgnc_id "HGNC:8667"  ; level 2 ; orig_coord_info "chr5,140882269,140884662,+"  ; protein_id "ENSP00000289272.2"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHA13^ENST00000289272.3"  ; transcript_name "PCDHA13-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
PCDHA4--PCDHA13	ENSEMBL	gene	1001	3590	.	+	.	FI_gene_label "PCDHA4^ENSG00000204967.12"  ; ID "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12"  ; exon_id "ENSE00003735925.1"  ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12"  ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5"  ; hgnc_id "HGNC:8670"  ; level 3 ; orig_coord_info "chr5,140806929,140806945,+"  ; protein_id "ENSP00000367365.4"  ; tag basic ; transcript_id "PCDHA4--PCDHA13^ENST00000378125.4"  ; transcript_name "PCDHA4-201"  ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHA13	ENSEMBL	mRNA	1001	3590	.	+	.	FI_gene_label "PCDHA4^ENSG00000204967.12"  ; ID "PCDHA4--PCDHA13^ENST00000378125.4"  ; Parent "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12"  ; exon_id "ENSE00003735925.1"  ; exon_number 1 ; gene_id "PCDHA4--PCDHA13^PCDHA4^ENSG00000204967.12"  ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5"  ; hgnc_id "HGNC:8670"  ; level 3 ; orig_coord_info "chr5,140806929,140806945,+"  ; protein_id "ENSP00000367365.4"  ; tag basic ; transcript_id "PCDHA4--PCDHA13^ENST00000378125.4"  ; transcript_name "PCDHA4-201"  ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created: 
PCDHA4--PCDHAC1	HAVANA	gene	14666	24681	.	+	.	FI_gene_label "PCDHAC1^ENSG00000248383.5"  ; ID "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5"  ; ccdsid "CCDS4241.1"  ; exon_id "ENSE00001085780.5"  ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5"  ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3"  ; havana_transcript "OTTHUMT00000251798.1"  ; hgnc_id "HGNC:8676"  ; level 2 ; orig_coord_info "chr5,140926893,140929325,+"  ; protein_id "ENSP00000253807.2"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC1^ENST00000253807.3"  ; transcript_name "PCDHAC1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHAC1	HAVANA	mRNA	14666	24681	.	+	.	FI_gene_label "PCDHAC1^ENSG00000248383.5"  ; ID "PCDHA4--PCDHAC1^ENST00000253807.3"  ; Parent "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5"  ; ccdsid "CCDS4241.1"  ; exon_id "ENSE00001085780.5"  ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHAC1^ENSG00000248383.5"  ; gene_name PCDHAC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129603.3"  ; havana_transcript "OTTHUMT00000251798.1"  ; hgnc_id "HGNC:8676"  ; level 2 ; orig_coord_info "chr5,140926893,140929325,+"  ; protein_id "ENSP00000253807.2"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC1^ENST00000253807.3"  ; transcript_name "PCDHAC1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
PCDHA4--PCDHAC1	ENSEMBL	gene	1001	3590	.	+	.	FI_gene_label "PCDHA4^ENSG00000204967.12"  ; ID "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12"  ; exon_id "ENSE00003735925.1"  ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12"  ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5"  ; hgnc_id "HGNC:8670"  ; level 3 ; orig_coord_info "chr5,140806929,140806945,+"  ; protein_id "ENSP00000367365.4"  ; tag basic ; transcript_id "PCDHA4--PCDHAC1^ENST00000378125.4"  ; transcript_name "PCDHA4-201"  ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHAC1	ENSEMBL	mRNA	1001	3590	.	+	.	FI_gene_label "PCDHA4^ENSG00000204967.12"  ; ID "PCDHA4--PCDHAC1^ENST00000378125.4"  ; Parent "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12"  ; exon_id "ENSE00003735925.1"  ; exon_number 1 ; gene_id "PCDHA4--PCDHAC1^PCDHA4^ENSG00000204967.12"  ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5"  ; hgnc_id "HGNC:8670"  ; level 3 ; orig_coord_info "chr5,140806929,140806945,+"  ; protein_id "ENSP00000367365.4"  ; tag basic ; transcript_id "PCDHA4--PCDHAC1^ENST00000378125.4"  ; transcript_name "PCDHA4-201"  ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created: 
PCDHA4--PCDHAC2	HAVANA	gene	14672	25407	.	+	.	FI_gene_label "PCDHAC2^ENSG00000243232.6"  ; ID "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6"  ; ccdsid "CCDS4242.1"  ; exon_id "ENSE00001038414.4"  ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6"  ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7"  ; havana_transcript "OTTHUMT00000251802.4"  ; hgnc_id "HGNC:8677"  ; level 2 ; orig_coord_info "chr5,140966767,140969331,+"  ; protein_id "ENSP00000289269.5"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC2^ENST00000289269.7"  ; transcript_name "PCDHAC2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
PCDHA4--PCDHAC2	HAVANA	mRNA	14672	25407	.	+	.	FI_gene_label "PCDHAC2^ENSG00000243232.6"  ; ID "PCDHA4--PCDHAC2^ENST00000289269.7"  ; Parent "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6"  ; ccdsid "CCDS4242.1"  ; exon_id "ENSE00001038414.4"  ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHAC2^ENSG00000243232.6"  ; gene_name PCDHAC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129607.7"  ; havana_transcript "OTTHUMT00000251802.4"  ; hgnc_id "HGNC:8677"  ; level 2 ; orig_coord_info "chr5,140966767,140969331,+"  ; protein_id "ENSP00000289269.5"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PCDHA4--PCDHAC2^ENST00000289269.7"  ; transcript_name "PCDHAC2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
PCDHA4--PCDHAC2	ENSEMBL	gene	1001	3590	.	+	.	FI_gene_label "PCDHA4^ENSG00000204967.12"  ; ID "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12"  ; exon_id "ENSE00003735925.1"  ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12"  ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5"  ; hgnc_id "HGNC:8670"  ; level 3 ; orig_coord_info "chr5,140806929,140806945,+"  ; protein_id "ENSP00000367365.4"  ; tag basic ; transcript_id "PCDHA4--PCDHAC2^ENST00000378125.4"  ; transcript_name "PCDHA4-201"  ; transcript_support_level 5 ; transcript_type protein_coding
PCDHA4--PCDHAC2	ENSEMBL	mRNA	1001	3590	.	+	.	FI_gene_label "PCDHA4^ENSG00000204967.12"  ; ID "PCDHA4--PCDHAC2^ENST00000378125.4"  ; Parent "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12"  ; exon_id "ENSE00003735925.1"  ; exon_number 1 ; gene_id "PCDHA4--PCDHAC2^PCDHA4^ENSG00000204967.12"  ; gene_name PCDHA4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000163360.5"  ; hgnc_id "HGNC:8670"  ; level 3 ; orig_coord_info "chr5,140806929,140806945,+"  ; protein_id "ENSP00000367365.4"  ; tag basic ; transcript_id "PCDHA4--PCDHAC2^ENST00000378125.4"  ; transcript_name "PCDHA4-201"  ; transcript_support_level 5 ; 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: 
PPP1R9A--XRCC2	HAVANA	gene	3579	24300	.	+	.	FI_gene_label "PPP1R9A^ENSG00000158528.12"  ; ID "PPP1R9A--XRCC2^PPP1R9A^ENSG00000158528.12"  ; ccdsid "CCDS55129.1"  ; exon_id "ENSE00003773299.1"  ; exon_number 1 ; gene_id "PPP1R9A--XRCC2^PPP1R9A^ENSG00000158528.12"  ; gene_name PPP1R9A ; gene_type protein_coding ; havana_gene "OTTHUMG00000155566.4"  ; havana_transcript "OTTHUMT00000484450.1"  ; hgnc_id "HGNC:14946"  ; level 2 ; orig_coord_info "chr7,94910114,94911508,+"  ; protein_id "ENSP00000289495.7"  ; tag basic appris_principal_4 CCDS ; transcript_id "PPP1R9A--XRCC2^ENST00000289495.7"  ; transcript_name "PPP1R9A-201"  ; transcript_support_level 1 ; transcript_type protein_coding
PPP1R9A--XRCC2	HAVANA	mRNA	3579	24300	.	+	.	FI_gene_label "PPP1R9A^ENSG00000158528.12"  ; ID "PPP1R9A--XRCC2^ENST00000289495.7"  ; Parent "PPP1R9A--XRCC2^PPP1R9A^ENSG00000158528.12"  ; ccdsid "CCDS55129.1"  ; exon_id "ENSE00003773299.1"  ; exon_number 1 ; gene_id "PPP1R9A--XRCC2^PPP1R9A^ENSG00000158528.12"  ; gene_name PPP1R9A ; gene_type protein_coding ; havana_gene "OTTHUMG00000155566.4"  ; havana_transcript "OTTHUMT00000484450.1"  ; hgnc_id "HGNC:14946"  ; level 2 ; orig_coord_info "chr7,94910114,94911508,+"  ; protein_id "ENSP00000289495.7"  ; tag basic appris_principal_4 CCDS ; transcript_id "PPP1R9A--XRCC2^ENST00000289495.7"  ; transcript_name "PPP1R9A-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
PPP1R9A--XRCC2	HAVANA	gene	33352	41183	.	+	.	FI_gene_label "XRCC2^ENSG00000196584.3"  ; ID "PPP1R9A--XRCC2^XRCC2^ENSG00000196584.3"  ; ccdsid "CCDS5933.1"  ; exon_id "ENSE00001199032.3"  ; exon_number 1 ; gene_id "PPP1R9A--XRCC2^XRCC2^ENSG00000196584.3"  ; gene_name XRCC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151470.2"  ; havana_transcript "OTTHUMT00000322783.2"  ; hgnc_id "HGNC:12829"  ; level 2 ; orig_coord_info "chr7,152676041,152676079,-"  ; protein_id "ENSP00000352271.1"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPP1R9A--XRCC2^ENST00000359321.2"  ; transcript_name "XRCC2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
PPP1R9A--XRCC2	HAVANA	mRNA	33352	41183	.	+	.	FI_gene_label "XRCC2^ENSG00000196584.3"  ; ID "PPP1R9A--XRCC2^ENST00000359321.2"  ; Parent "PPP1R9A--XRCC2^XRCC2^ENSG00000196584.3"  ; ccdsid "CCDS5933.1"  ; exon_id "ENSE00001199032.3"  ; exon_number 1 ; gene_id "PPP1R9A--XRCC2^XRCC2^ENSG00000196584.3"  ; gene_name XRCC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151470.2"  ; havana_transcript "OTTHUMT00000322783.2"  ; hgnc_id "HGNC:12829"  ; level 2 ; orig_coord_info "chr7,152676041,152676079,-"  ; protein_id "ENSP00000352271.1"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PPP1R9A--XRCC2^ENST00000359321.2"  ; transcript_name "XRCC2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
RBM14--RBM4	HAVANA	gene	15043	21268	.	+	.	FI_gene_label "RBM4^ENSG00000173933.21"  ; ID "RBM14--RBM4^RBM4^ENSG00000173933.21"  ; ccdsid "CCDS41676.1"  ; exon_id "ENSE00003513724.1"  ; exon_number 2 ; gene_id "RBM14--RBM4^RBM4^ENSG00000173933.21"  ; gene_name RBM4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154171.7"  ; havana_transcript "OTTHUMT00000334210.2"  ; hgnc_id "HGNC:9901"  ; level 2 ; orig_coord_info "chr11,66639712,66640123,+"  ; protein_id "ENSP00000309166.8"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RBM14--RBM4^ENST00000310092.12"  ; transcript_name "RBM4-201"  ; transcript_support_level 1 ; transcript_type protein_coding
RBM14--RBM4	HAVANA	mRNA	15043	21268	.	+	.	FI_gene_label "RBM4^ENSG00000173933.21"  ; ID "RBM14--RBM4^ENST00000310092.12"  ; Parent "RBM14--RBM4^RBM4^ENSG00000173933.21"  ; ccdsid "CCDS41676.1"  ; exon_id "ENSE00003513724.1"  ; exon_number 2 ; gene_id "RBM14--RBM4^RBM4^ENSG00000173933.21"  ; gene_name RBM4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154171.7"  ; havana_transcript "OTTHUMT00000334210.2"  ; hgnc_id "HGNC:9901"  ; level 2 ; orig_coord_info "chr11,66639712,66640123,+"  ; protein_id "ENSP00000309166.8"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RBM14--RBM4^ENST00000310092.12"  ; transcript_name "RBM4-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
RBM14--RBM4	HAVANA	gene	1005	12006	.	+	.	FI_gene_label "RBM14^ENSG00000239306.5"  ; ID "RBM14--RBM4^RBM14^ENSG00000239306.5"  ; ccdsid "CCDS8147.1"  ; exon_id "ENSE00003902856.1"  ; exon_number 1 ; gene_id "RBM14--RBM4^RBM14^ENSG00000239306.5"  ; gene_name RBM14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140380.5"  ; havana_transcript "OTTHUMT00000277128.1"  ; hgnc_id "HGNC:14219"  ; level 2 ; orig_coord_info "chr11,66616721,66617057,+"  ; protein_id "ENSP00000311747.5"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RBM14--RBM4^ENST00000310137.5"  ; transcript_name "RBM14-201"  ; transcript_support_level 1 ; transcript_type protein_coding
RBM14--RBM4	HAVANA	mRNA	1005	12006	.	+	.	FI_gene_label "RBM14^ENSG00000239306.5"  ; ID "RBM14--RBM4^ENST00000310137.5"  ; Parent "RBM14--RBM4^RBM14^ENSG00000239306.5"  ; ccdsid "CCDS8147.1"  ; exon_id "ENSE00003902856.1"  ; exon_number 1 ; gene_id "RBM14--RBM4^RBM14^ENSG00000239306.5"  ; gene_name RBM14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140380.5"  ; havana_transcript "OTTHUMT00000277128.1"  ; hgnc_id "HGNC:14219"  ; level 2 ; orig_coord_info "chr11,66616721,66617057,+"  ; protein_id "ENSP00000311747.5"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "RBM14--RBM4^ENST00000310137.5"  ; transcript_name "RBM14-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
SMURF2P1--LRRC37B	HAVANA	gene	12005	29164	.	+	.	FI_gene_label "LRRC37B^ENSG00000185158.12"  ; ID "SMURF2P1--LRRC37B^LRRC37B^ENSG00000185158.12"  ; exon_id "ENSE00001894889.2"  ; exon_number 1 ; gene_id "SMURF2P1--LRRC37B^LRRC37B^ENSG00000185158.12"  ; gene_name LRRC37B ; gene_type protein_coding ; havana_gene "OTTHUMG00000132785.3"  ; havana_transcript "OTTHUMT00000256193.2"  ; hgnc_id "HGNC:29070"  ; level 2 ; orig_coord_info "chr17,32021066,32022825,+"  ; protein_id "ENSP00000332536.7"  ; tag basic appris_alternative_2 ; transcript_id "SMURF2P1--LRRC37B^ENST00000327564.11"  ; transcript_name "LRRC37B-201"  ; transcript_support_level 1 ; transcript_type protein_coding
SMURF2P1--LRRC37B	HAVANA	mRNA	12005	29164	.	+	.	FI_gene_label "LRRC37B^ENSG00000185158.12"  ; ID "SMURF2P1--LRRC37B^ENST00000327564.11"  ; Parent "SMURF2P1--LRRC37B^LRRC37B^ENSG00000185158.12"  ; exon_id "ENSE00001894889.2"  ; exon_number 1 ; gene_id "SMURF2P1--LRRC37B^LRRC37B^ENSG00000185158.12"  ; gene_name LRRC37B ; gene_type protein_coding ; havana_gene "OTTHUMG00000132785.3"  ; havana_transcript "OTTHUMT00000256193.2"  ; hgnc_id "HGNC:29070"  ; level 2 ; orig_coord_info "chr17,32021066,32022825,+"  ; protein_id "ENSP00000332536.7"  ; tag basic appris_alternative_2 ; transcript_id "SMURF2P1--LRRC37B^ENST00000327564.11"  ; transcript_name "LRRC37B-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
ST7--TFEC	HAVANA	gene	1090	33031	.	+	.	FI_gene_label "ST7^ENSG00000004866.22"  ; ID "ST7--TFEC^ST7^ENSG00000004866.22"  ; ccdsid "CCDS5770.1"  ; exon_id "ENSE00001226748.3"  ; exon_number 1 ; gene_id "ST7--TFEC^ST7^ENSG00000004866.22"  ; gene_name ST7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023888.24"  ; havana_transcript "OTTHUMT00000141622.1"  ; hgnc_id "HGNC:11351"  ; level 2 ; orig_coord_info "chr7,116953541,116953691,+"  ; protein_id "ENSP00000265437.5"  ; tag basic CCDS ; transcript_id "ST7--TFEC^ENST00000265437.9"  ; transcript_name "ST7-201"  ; transcript_support_level 1 ; transcript_type protein_coding
ST7--TFEC	HAVANA	mRNA	1090	33031	.	+	.	FI_gene_label "ST7^ENSG00000004866.22"  ; ID "ST7--TFEC^ENST00000265437.9"  ; Parent "ST7--TFEC^ST7^ENSG00000004866.22"  ; ccdsid "CCDS5770.1"  ; exon_id "ENSE00001226748.3"  ; exon_number 1 ; gene_id "ST7--TFEC^ST7^ENSG00000004866.22"  ; gene_name ST7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000023888.24"  ; havana_transcript "OTTHUMT00000141622.1"  ; hgnc_id "HGNC:11351"  ; level 2 ; orig_coord_info "chr7,116953541,116953691,+"  ; protein_id "ENSP00000265437.5"  ; tag basic CCDS ; transcript_id "ST7--TFEC^ENST00000265437.9"  ; transcript_name "ST7-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
ST7--TFEC	HAVANA	gene	45346	60081	.	+	.	FI_gene_label "TFEC^ENSG00000105967.16"  ; ID "ST7--TFEC^TFEC^ENSG00000105967.16"  ; ccdsid "CCDS5762.1"  ; exon_id "ENSE00003564412.1"  ; exon_number 2 ; gene_id "ST7--TFEC^TFEC^ENSG00000105967.16"  ; gene_name TFEC ; gene_type protein_coding ; havana_gene "OTTHUMG00000023518.7"  ; havana_transcript "OTTHUMT00000059839.5"  ; hgnc_id "HGNC:11754"  ; level 2 ; orig_coord_info "chr7,115984262,115984441,-"  ; protein_id "ENSP00000265440.7"  ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ST7--TFEC^ENST00000265440.12"  ; transcript_name "TFEC-201"  ; transcript_support_level 1 ; transcript_type protein_coding
ST7--TFEC	HAVANA	mRNA	45346	60081	.	+	.	FI_gene_label "TFEC^ENSG00000105967.16"  ; ID "ST7--TFEC^ENST00000265440.12"  ; Parent "ST7--TFEC^TFEC^ENSG00000105967.16"  ; ccdsid "CCDS5762.1"  ; exon_id "ENSE00003564412.1"  ; exon_number 2 ; gene_id "ST7--TFEC^TFEC^ENSG00000105967.16"  ; gene_name TFEC ; gene_type protein_coding ; havana_gene "OTTHUMG00000023518.7"  ; havana_transcript "OTTHUMT00000059839.5"  ; hgnc_id "HGNC:11754"  ; level 2 ; orig_coord_info "chr7,115984262,115984441,-"  ; protein_id "ENSP00000265440.7"  ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "ST7--TFEC^ENST00000265440.12"  ; transcript_name "TFEC-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
STAG2--GRIA3	HAVANA	gene	1308	39706	.	+	.	FI_gene_label "STAG2^ENSG00000101972.19"  ; ID "STAG2--GRIA3^STAG2^ENSG00000101972.19"  ; ccdsid "CCDS43990.1"  ; exon_id "ENSE00003645286.1"  ; exon_number 3 ; gene_id "STAG2--GRIA3^STAG2^ENSG00000101972.19"  ; gene_name STAG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022725.13"  ; havana_transcript "OTTHUMT00000106726.2"  ; hgnc_id "HGNC:11355"  ; level 2 ; orig_coord_info "chrX,124022628,124022671,+"  ; protein_id "ENSP00000218089.9"  ; tag basic appris_alternative_1 CCDS ; transcript_id "STAG2--GRIA3^ENST00000218089.13"  ; transcript_name "STAG2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
STAG2--GRIA3	HAVANA	mRNA	1308	39706	.	+	.	FI_gene_label "STAG2^ENSG00000101972.19"  ; ID "STAG2--GRIA3^ENST00000218089.13"  ; Parent "STAG2--GRIA3^STAG2^ENSG00000101972.19"  ; ccdsid "CCDS43990.1"  ; exon_id "ENSE00003645286.1"  ; exon_number 3 ; gene_id "STAG2--GRIA3^STAG2^ENSG00000101972.19"  ; gene_name STAG2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022725.13"  ; havana_transcript "OTTHUMT00000106726.2"  ; hgnc_id "HGNC:11355"  ; level 2 ; orig_coord_info "chrX,124022628,124022671,+"  ; protein_id "ENSP00000218089.9"  ; tag basic appris_alternative_1 CCDS ; transcript_id "STAG2--GRIA3^ENST00000218089.13"  ; transcript_name "STAG2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
STAG2--GRIA3	HAVANA	gene	46731	68663	.	+	.	FI_gene_label "GRIA3^ENSG00000125675.19"  ; ID "STAG2--GRIA3^GRIA3^ENSG00000125675.19"  ; ccdsid "CCDS14604.1"  ; exon_id "ENSE00003715111.1"  ; exon_number 1 ; gene_id "STAG2--GRIA3^GRIA3^ENSG00000125675.19"  ; gene_name GRIA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022685.4"  ; havana_transcript "OTTHUMT00000058854.3"  ; hgnc_id "HGNC:4573"  ; level 2 ; orig_coord_info "chrX,123184536,123184644,+"  ; protein_id "ENSP00000446440.2"  ; tag basic appris_alternative_1 CCDS ; transcript_id "STAG2--GRIA3^ENST00000541091.5"  ; transcript_name "GRIA3-204"  ; transcript_support_level 1 ; transcript_type protein_coding
STAG2--GRIA3	HAVANA	mRNA	46731	68663	.	+	.	FI_gene_label "GRIA3^ENSG00000125675.19"  ; ID "STAG2--GRIA3^ENST00000541091.5"  ; Parent "STAG2--GRIA3^GRIA3^ENSG00000125675.19"  ; ccdsid "CCDS14604.1"  ; exon_id "ENSE00003715111.1"  ; exon_number 1 ; gene_id "STAG2--GRIA3^GRIA3^ENSG00000125675.19"  ; gene_name GRIA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000022685.4"  ; havana_transcript "OTTHUMT00000058854.3"  ; hgnc_id "HGNC:4573"  ; level 2 ; orig_coord_info "chrX,123184536,123184644,+"  ; protein_id "ENSP00000446440.2"  ; tag basic appris_alternative_1 CCDS ; transcript_id "STAG2--GRIA3^ENST00000541091.5"  ; transcript_name "GRIA3-204"  ; 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: 
BCAT1--AC023796.2	HAVANA	gene	28330	29780	.	+	.	FI_gene_label "AC023796.2^ENSG00000256482.1"  ; ID "BCAT1--AC023796.2^AC023796.2^ENSG00000256482.1"  ; exon_id "ENSE00002206228.1"  ; exon_number 1 ; gene_id "BCAT1--AC023796.2^AC023796.2^ENSG00000256482.1"  ; gene_name "AC023796.2"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000169054.1"  ; havana_transcript "OTTHUMT00000402089.1"  ; level 2 ; orig_coord_info "chr12,24830421,24830789,+"  ; tag basic ; transcript_id "BCAT1--AC023796.2^ENST00000545410.1"  ; transcript_name "AC023796.2-201"  ; transcript_support_level 3 ; transcript_type lncRNA
BCAT1--AC023796.2	HAVANA	RNA	28330	29780	.	+	.	FI_gene_label "AC023796.2^ENSG00000256482.1"  ; ID "BCAT1--AC023796.2^ENST00000545410.1"  ; Parent "BCAT1--AC023796.2^AC023796.2^ENSG00000256482.1"  ; exon_id "ENSE00002206228.1"  ; exon_number 1 ; gene_id "BCAT1--AC023796.2^AC023796.2^ENSG00000256482.1"  ; gene_name "AC023796.2"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000169054.1"  ; havana_transcript "OTTHUMT00000402089.1"  ; level 2 ; orig_coord_info "chr12,24830421,24830789,+"  ; tag basic ; transcript_id "BCAT1--AC023796.2^ENST00000545410.1"  ; transcript_name "AC023796.2-201"  ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created: 
GUSBP2--NAIP	HAVANA	gene	3303	9806	.	+	.	FI_gene_label "GUSBP2^ENSG00000241549.8"  ; ID "GUSBP2--NAIP^GUSBP2^ENSG00000241549.8"  ; exon_id "ENSE00001819092.1"  ; exon_number 1 ; gene_id "GUSBP2--NAIP^GUSBP2^ENSG00000241549.8"  ; gene_name GUSBP2 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000014462.5"  ; havana_transcript "OTTHUMT00000314060.1"  ; hgnc_id "HGNC:18792"  ; level 2 ; orig_coord_info "chr6,26925120,26925213,-"  ; transcript_id "GUSBP2--NAIP^ENST00000463434.5"  ; transcript_name "GUSBP2-201"  ; transcript_support_level 1 ; transcript_type processed_transcript
GUSBP2--NAIP	HAVANA	RNA	3303	9806	.	+	.	FI_gene_label "GUSBP2^ENSG00000241549.8"  ; ID "GUSBP2--NAIP^ENST00000463434.5"  ; Parent "GUSBP2--NAIP^GUSBP2^ENSG00000241549.8"  ; exon_id "ENSE00001819092.1"  ; exon_number 1 ; gene_id "GUSBP2--NAIP^GUSBP2^ENSG00000241549.8"  ; gene_name GUSBP2 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000014462.5"  ; havana_transcript "OTTHUMT00000314060.1"  ; hgnc_id "HGNC:18792"  ; level 2 ; orig_coord_info "chr6,26925120,26925213,-"  ; transcript_id "GUSBP2--NAIP^ENST00000463434.5"  ; transcript_name "GUSBP2-201"  ; transcript_support_level 1 ; transcript_type processed_transcript
L1 and L2 created: 
NPM1--MT-RNR2	ENSEMBL	gene	18634	20192	.	+	.	FI_gene_label "MT-RNR2^ENSG00000210082.2"  ; ID "NPM1--MT-RNR2^MT-RNR2^ENSG00000210082.2"  ; exon_id "ENSE00001544497.2"  ; exon_number 1 ; gene_id "NPM1--MT-RNR2^MT-RNR2^ENSG00000210082.2"  ; gene_name "MT-RNR2"  ; gene_type Mt_rRNA ; hgnc_id "HGNC:7471"  ; level 3 ; orig_coord_info "chrM,1671,3229,+"  ; tag basic ; transcript_id "NPM1--MT-RNR2^ENST00000387347.2"  ; transcript_name "MT-RNR2-201"  ; transcript_support_level NA ; transcript_type Mt_rRNA
NPM1--MT-RNR2	ENSEMBL	RNA	18634	20192	.	+	.	FI_gene_label "MT-RNR2^ENSG00000210082.2"  ; ID "NPM1--MT-RNR2^ENST00000387347.2"  ; Parent "NPM1--MT-RNR2^MT-RNR2^ENSG00000210082.2"  ; exon_id "ENSE00001544497.2"  ; exon_number 1 ; gene_id "NPM1--MT-RNR2^MT-RNR2^ENSG00000210082.2"  ; gene_name "MT-RNR2"  ; gene_type Mt_rRNA ; hgnc_id "HGNC:7471"  ; level 3 ; orig_coord_info "chrM,1671,3229,+"  ; tag basic ; transcript_id "NPM1--MT-RNR2^ENST00000387347.2"  ; transcript_name "MT-RNR2-201"  ; transcript_support_level NA ; transcript_type Mt_rRNA
L1 and L2 created: 
SMURF2P1--LRRC37B	HAVANA	gene	1070	5305	.	+	.	FI_gene_label "SMURF2P1^ENSG00000248121.8"  ; ID "SMURF2P1--LRRC37B^SMURF2P1^ENSG00000248121.8"  ; exon_id "ENSE00002054081.1"  ; exon_number 1 ; gene_id "SMURF2P1--LRRC37B^SMURF2P1^ENSG00000248121.8"  ; gene_name SMURF2P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000132798.3"  ; havana_transcript "OTTHUMT00000256215.2"  ; hgnc_id "HGNC:44402"  ; level 2 ; ont "PGO:0000005"  "PGO:0000019"  ; orig_coord_info "chr17,30600865,30600916,+"  ; tag basic ; transcript_id "SMURF2P1--LRRC37B^ENST00000514992.2"  ; transcript_name "SMURF2P1-201"  ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
SMURF2P1--LRRC37B	HAVANA	RNA	1070	5305	.	+	.	FI_gene_label "SMURF2P1^ENSG00000248121.8"  ; ID "SMURF2P1--LRRC37B^ENST00000514992.2"  ; Parent "SMURF2P1--LRRC37B^SMURF2P1^ENSG00000248121.8"  ; exon_id "ENSE00002054081.1"  ; exon_number 1 ; gene_id "SMURF2P1--LRRC37B^SMURF2P1^ENSG00000248121.8"  ; gene_name SMURF2P1 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000132798.3"  ; havana_transcript "OTTHUMT00000256215.2"  ; hgnc_id "HGNC:44402"  ; level 2 ; ont "PGO:0000005"  "PGO:0000019"  ; orig_coord_info "chr17,30600865,30600916,+"  ; tag basic ; transcript_id "SMURF2P1--LRRC37B^ENST00000514992.2"  ; transcript_name "SMURF2P1-201"  ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
358 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 ------------------------------
711 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