.command.out - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV (BVT_FFPE_TRNA_bst_02_A23WKFTLT4_2)

File Info

Filename: .command.out
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d1/837ee7b0fc7d7c59f582b9017fe751/.command.out
Size: 73.5 KB
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV (BVT_FFPE_TRNA_bst_02_A23WKFTLT4_2)
Attempt
Content

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: 6479
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 6479
=> 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:6479
  => 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: 
AC092807.3--DDAH1	HAVANA	gene	13647	23704	.	+	.	FI_gene_label "DDAH1^ENSG00000153904.21"  ; ID "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21"  ; ccdsid "CCDS705.1"  ; exon_id "ENSE00001013010.7"  ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21"  ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3"  ; havana_transcript "OTTHUMT00000029189.3"  ; hgnc_id "HGNC:2715"  ; level 2 ; orig_coord_info "chr1,85464743,85465045,-"  ; protein_id "ENSP00000284031.8"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13"  ; transcript_name "DDAH1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
AC092807.3--DDAH1	HAVANA	mRNA	13647	23704	.	+	.	FI_gene_label "DDAH1^ENSG00000153904.21"  ; ID "AC092807.3--DDAH1^ENST00000284031.13"  ; Parent "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21"  ; ccdsid "CCDS705.1"  ; exon_id "ENSE00001013010.7"  ; exon_number 1 ; gene_id "AC092807.3--DDAH1^DDAH1^ENSG00000153904.21"  ; gene_name DDAH1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191181.3"  ; havana_transcript "OTTHUMT00000029189.3"  ; hgnc_id "HGNC:2715"  ; level 2 ; orig_coord_info "chr1,85464743,85465045,-"  ; protein_id "ENSP00000284031.8"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092807.3--DDAH1^ENST00000284031.13"  ; transcript_name "DDAH1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
AC092821.3--PZP	HAVANA	gene	17719	49085	.	+	.	FI_gene_label "PZP^ENSG00000126838.10"  ; ID "AC092821.3--PZP^PZP^ENSG00000126838.10"  ; ccdsid "CCDS8600.1"  ; exon_id "ENSE00001161550.4"  ; exon_number 1 ; gene_id "AC092821.3--PZP^PZP^ENSG00000126838.10"  ; gene_name PZP ; gene_type protein_coding ; havana_gene "OTTHUMG00000154915.3"  ; havana_transcript "OTTHUMT00000337624.2"  ; hgnc_id "HGNC:9750"  ; level 2 ; orig_coord_info "chr12,9208259,9208341,-"  ; protein_id "ENSP00000261336.2"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092821.3--PZP^ENST00000261336.7"  ; transcript_name "PZP-201"  ; transcript_support_level 1 ; transcript_type protein_coding
AC092821.3--PZP	HAVANA	mRNA	17719	49085	.	+	.	FI_gene_label "PZP^ENSG00000126838.10"  ; ID "AC092821.3--PZP^ENST00000261336.7"  ; Parent "AC092821.3--PZP^PZP^ENSG00000126838.10"  ; ccdsid "CCDS8600.1"  ; exon_id "ENSE00001161550.4"  ; exon_number 1 ; gene_id "AC092821.3--PZP^PZP^ENSG00000126838.10"  ; gene_name PZP ; gene_type protein_coding ; havana_gene "OTTHUMG00000154915.3"  ; havana_transcript "OTTHUMT00000337624.2"  ; hgnc_id "HGNC:9750"  ; level 2 ; orig_coord_info "chr12,9208259,9208341,-"  ; protein_id "ENSP00000261336.2"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC092821.3--PZP^ENST00000261336.7"  ; transcript_name "PZP-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
AC138035.1--SEPTIN14	HAVANA	gene	11970	25517	.	+	.	FI_gene_label "SEPTIN14^ENSG00000154997.9"  ; ID "AC138035.1--SEPTIN14^SEPTIN14^ENSG00000154997.9"  ; ccdsid "CCDS5519.2"  ; exon_id "ENSE00003671928.1"  ; exon_number 2 ; gene_id "AC138035.1--SEPTIN14^SEPTIN14^ENSG00000154997.9"  ; gene_name SEPTIN14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129341.4"  ; havana_transcript "OTTHUMT00000251489.3"  ; hgnc_id "HGNC:33280"  ; level 2 ; orig_coord_info "chr7,55861943,55861996,-"  ; protein_id "ENSP00000373627.3"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC138035.1--SEPTIN14^ENST00000388975.4"  ; transcript_name "SEPTIN14-201"  ; transcript_support_level 2 ; transcript_type protein_coding
AC138035.1--SEPTIN14	HAVANA	mRNA	11970	25517	.	+	.	FI_gene_label "SEPTIN14^ENSG00000154997.9"  ; ID "AC138035.1--SEPTIN14^ENST00000388975.4"  ; Parent "AC138035.1--SEPTIN14^SEPTIN14^ENSG00000154997.9"  ; ccdsid "CCDS5519.2"  ; exon_id "ENSE00003671928.1"  ; exon_number 2 ; gene_id "AC138035.1--SEPTIN14^SEPTIN14^ENSG00000154997.9"  ; gene_name SEPTIN14 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129341.4"  ; havana_transcript "OTTHUMT00000251489.3"  ; hgnc_id "HGNC:33280"  ; level 2 ; orig_coord_info "chr7,55861943,55861996,-"  ; protein_id "ENSP00000373627.3"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "AC138035.1--SEPTIN14^ENST00000388975.4"  ; transcript_name "SEPTIN14-201"  ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created: 
AGAP4--FRMPD2	HAVANA	gene	16607	51608	.	+	.	FI_gene_label "FRMPD2^ENSG00000170324.21"  ; ID "AGAP4--FRMPD2^FRMPD2^ENSG00000170324.21"  ; ccdsid "CCDS81460.1"  ; exon_id "ENSE00001390154.1"  ; exon_number 1 ; gene_id "AGAP4--FRMPD2^FRMPD2^ENSG00000170324.21"  ; gene_name FRMPD2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018171.7"  ; havana_transcript "OTTHUMT00000277029.1"  ; hgnc_id "HGNC:28572"  ; level 2 ; orig_coord_info "chr10,48251566,48251710,-"  ; protein_id "ENSP00000307079.3"  ; tag basic appris_alternative_2 CCDS ; transcript_id "AGAP4--FRMPD2^ENST00000305531.3"  ; transcript_name "FRMPD2-201"  ; transcript_support_level 5 ; transcript_type protein_coding
AGAP4--FRMPD2	HAVANA	mRNA	16607	51608	.	+	.	FI_gene_label "FRMPD2^ENSG00000170324.21"  ; ID "AGAP4--FRMPD2^ENST00000305531.3"  ; Parent "AGAP4--FRMPD2^FRMPD2^ENSG00000170324.21"  ; ccdsid "CCDS81460.1"  ; exon_id "ENSE00001390154.1"  ; exon_number 1 ; gene_id "AGAP4--FRMPD2^FRMPD2^ENSG00000170324.21"  ; gene_name FRMPD2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018171.7"  ; havana_transcript "OTTHUMT00000277029.1"  ; hgnc_id "HGNC:28572"  ; level 2 ; orig_coord_info "chr10,48251566,48251710,-"  ; protein_id "ENSP00000307079.3"  ; tag basic appris_alternative_2 CCDS ; transcript_id "AGAP4--FRMPD2^ENST00000305531.3"  ; transcript_name "FRMPD2-201"  ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created: 
AGAP4--FRMPD2	HAVANA	gene	3661	12452	.	+	.	FI_gene_label "AGAP4^ENSG00000188234.14"  ; ID "AGAP4--FRMPD2^AGAP4^ENSG00000188234.14"  ; ccdsid "CCDS7215.1"  ; exon_id "ENSE00002443810.1"  ; exon_number 1 ; gene_id "AGAP4--FRMPD2^AGAP4^ENSG00000188234.14"  ; gene_name AGAP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018088.2"  ; havana_transcript "OTTHUMT00000047799.1"  ; hgnc_id "HGNC:23459"  ; level 2 ; orig_coord_info "chr10,45847125,45847347,-"  ; protein_id "ENSP00000392513.2"  ; tag basic appris_principal_2 CCDS ; transcript_id "AGAP4--FRMPD2^ENST00000448048.7"  ; transcript_name "AGAP4-202"  ; transcript_support_level 1 ; transcript_type protein_coding
AGAP4--FRMPD2	HAVANA	mRNA	3661	12452	.	+	.	FI_gene_label "AGAP4^ENSG00000188234.14"  ; ID "AGAP4--FRMPD2^ENST00000448048.7"  ; Parent "AGAP4--FRMPD2^AGAP4^ENSG00000188234.14"  ; ccdsid "CCDS7215.1"  ; exon_id "ENSE00002443810.1"  ; exon_number 1 ; gene_id "AGAP4--FRMPD2^AGAP4^ENSG00000188234.14"  ; gene_name AGAP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018088.2"  ; havana_transcript "OTTHUMT00000047799.1"  ; hgnc_id "HGNC:23459"  ; level 2 ; orig_coord_info "chr10,45847125,45847347,-"  ; protein_id "ENSP00000392513.2"  ; tag basic appris_principal_2 CCDS ; transcript_id "AGAP4--FRMPD2^ENST00000448048.7"  ; transcript_name "AGAP4-202"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
ANXA7--VN1R54P	HAVANA	gene	1010	15103	.	+	.	FI_gene_label "ANXA7^ENSG00000138279.16"  ; ID "ANXA7--VN1R54P^ANXA7^ENSG00000138279.16"  ; ccdsid "CCDS7326.1"  ; exon_id "ENSE00001459061.1"  ; exon_number 2 ; gene_id "ANXA7--VN1R54P^ANXA7^ENSG00000138279.16"  ; gene_name ANXA7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018463.6"  ; havana_transcript "OTTHUMT00000048647.4"  ; hgnc_id "HGNC:545"  ; level 2 ; orig_coord_info "chr10,73400803,73400856,-"  ; protein_id "ENSP00000362010.4"  ; tag mRNA_end_NF appris_principal_4 CCDS ; transcript_id "ANXA7--VN1R54P^ENST00000372919.8"  ; transcript_name "ANXA7-201"  ; transcript_support_level 1 ; transcript_type protein_coding
ANXA7--VN1R54P	HAVANA	mRNA	1010	15103	.	+	.	FI_gene_label "ANXA7^ENSG00000138279.16"  ; ID "ANXA7--VN1R54P^ENST00000372919.8"  ; Parent "ANXA7--VN1R54P^ANXA7^ENSG00000138279.16"  ; ccdsid "CCDS7326.1"  ; exon_id "ENSE00001459061.1"  ; exon_number 2 ; gene_id "ANXA7--VN1R54P^ANXA7^ENSG00000138279.16"  ; gene_name ANXA7 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018463.6"  ; havana_transcript "OTTHUMT00000048647.4"  ; hgnc_id "HGNC:545"  ; level 2 ; orig_coord_info "chr10,73400803,73400856,-"  ; protein_id "ENSP00000362010.4"  ; tag mRNA_end_NF appris_principal_4 CCDS ; transcript_id "ANXA7--VN1R54P^ENST00000372919.8"  ; transcript_name "ANXA7-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
DAAM1--DHRS4	HAVANA	gene	37493	44437	.	+	.	FI_gene_label "DHRS4^ENSG00000157326.19"  ; ID "DAAM1--DHRS4^DHRS4^ENSG00000157326.19"  ; ccdsid "CCDS9605.1"  ; exon_id "ENSE00001527204.2"  ; exon_number 1 ; gene_id "DAAM1--DHRS4^DHRS4^ENSG00000157326.19"  ; gene_name DHRS4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000028777.6"  ; havana_transcript "OTTHUMT00000071857.4"  ; hgnc_id "HGNC:16985"  ; level 2 ; orig_coord_info "chr14,23953789,23953916,+"  ; protein_id "ENSP00000326219.5"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DAAM1--DHRS4^ENST00000313250.10"  ; transcript_name "DHRS4-201"  ; transcript_support_level 1 ; transcript_type protein_coding
DAAM1--DHRS4	HAVANA	mRNA	37493	44437	.	+	.	FI_gene_label "DHRS4^ENSG00000157326.19"  ; ID "DAAM1--DHRS4^ENST00000313250.10"  ; Parent "DAAM1--DHRS4^DHRS4^ENSG00000157326.19"  ; ccdsid "CCDS9605.1"  ; exon_id "ENSE00001527204.2"  ; exon_number 1 ; gene_id "DAAM1--DHRS4^DHRS4^ENSG00000157326.19"  ; gene_name DHRS4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000028777.6"  ; havana_transcript "OTTHUMT00000071857.4"  ; hgnc_id "HGNC:16985"  ; level 2 ; orig_coord_info "chr14,23953789,23953916,+"  ; protein_id "ENSP00000326219.5"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DAAM1--DHRS4^ENST00000313250.10"  ; transcript_name "DHRS4-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
DAAM1--DHRS4	HAVANA	gene	1022	34454	.	+	.	FI_gene_label "DAAM1^ENSG00000100592.16"  ; ID "DAAM1--DHRS4^DAAM1^ENSG00000100592.16"  ; ccdsid "CCDS58323.1"  ; exon_id "ENSE00001275479.3"  ; exon_number 2 ; gene_id "DAAM1--DHRS4^DAAM1^ENSG00000100592.16"  ; gene_name DAAM1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140326.3"  ; havana_transcript "OTTHUMT00000411418.1"  ; hgnc_id "HGNC:18142"  ; level 2 ; orig_coord_info "chr14,59263478,59263660,+"  ; protein_id "ENSP00000354162.3"  ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "DAAM1--DHRS4^ENST00000360909.8"  ; transcript_name "DAAM1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
DAAM1--DHRS4	HAVANA	mRNA	1022	34454	.	+	.	FI_gene_label "DAAM1^ENSG00000100592.16"  ; ID "DAAM1--DHRS4^ENST00000360909.8"  ; Parent "DAAM1--DHRS4^DAAM1^ENSG00000100592.16"  ; ccdsid "CCDS58323.1"  ; exon_id "ENSE00001275479.3"  ; exon_number 2 ; gene_id "DAAM1--DHRS4^DAAM1^ENSG00000100592.16"  ; gene_name DAAM1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140326.3"  ; havana_transcript "OTTHUMT00000411418.1"  ; hgnc_id "HGNC:18142"  ; level 2 ; orig_coord_info "chr14,59263478,59263660,+"  ; protein_id "ENSP00000354162.3"  ; tag basic MANE_Select appris_principal_4 CCDS ; transcript_id "DAAM1--DHRS4^ENST00000360909.8"  ; transcript_name "DAAM1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
DERL1--AC091096.1	HAVANA	gene	1001	14480	.	+	.	FI_gene_label "DERL1^ENSG00000136986.10"  ; ID "DERL1--AC091096.1^DERL1^ENSG00000136986.10"  ; ccdsid "CCDS6337.1"  ; exon_id "ENSE00002100614.1"  ; exon_number 1 ; gene_id "DERL1--AC091096.1^DERL1^ENSG00000136986.10"  ; gene_name DERL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165080.4"  ; havana_transcript "OTTHUMT00000381714.3"  ; hgnc_id "HGNC:28454"  ; level 2 ; orig_coord_info "chr8,123041970,123042122,-"  ; protein_id "ENSP00000259512.3"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DERL1--AC091096.1^ENST00000259512.9"  ; transcript_name "DERL1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
DERL1--AC091096.1	HAVANA	mRNA	1001	14480	.	+	.	FI_gene_label "DERL1^ENSG00000136986.10"  ; ID "DERL1--AC091096.1^ENST00000259512.9"  ; Parent "DERL1--AC091096.1^DERL1^ENSG00000136986.10"  ; ccdsid "CCDS6337.1"  ; exon_id "ENSE00002100614.1"  ; exon_number 1 ; gene_id "DERL1--AC091096.1^DERL1^ENSG00000136986.10"  ; gene_name DERL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000165080.4"  ; havana_transcript "OTTHUMT00000381714.3"  ; hgnc_id "HGNC:28454"  ; level 2 ; orig_coord_info "chr8,123041970,123042122,-"  ; protein_id "ENSP00000259512.3"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "DERL1--AC091096.1^ENST00000259512.9"  ; transcript_name "DERL1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
ERLIN2--AC068672.1	HAVANA	gene	1085	8020	.	+	.	FI_gene_label "ERLIN2^ENSG00000147475.17"  ; ID "ERLIN2--AC068672.1^ERLIN2^ENSG00000147475.17"  ; ccdsid "CCDS34879.1"  ; exon_id "ENSE00003516997.1"  ; exon_number 2 ; gene_id "ERLIN2--AC068672.1^ERLIN2^ENSG00000147475.17"  ; gene_name ERLIN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164005.9"  ; havana_transcript "OTTHUMT00000376714.1"  ; hgnc_id "HGNC:1356"  ; level 2 ; orig_coord_info "chr8,37737923,37738029,+"  ; protein_id "ENSP00000335220.6"  ; tag alternative_5_UTR basic CCDS ; transcript_id "ERLIN2--AC068672.1^ENST00000335171.10"  ; transcript_name "ERLIN2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
ERLIN2--AC068672.1	HAVANA	mRNA	1085	8020	.	+	.	FI_gene_label "ERLIN2^ENSG00000147475.17"  ; ID "ERLIN2--AC068672.1^ENST00000335171.10"  ; Parent "ERLIN2--AC068672.1^ERLIN2^ENSG00000147475.17"  ; ccdsid "CCDS34879.1"  ; exon_id "ENSE00003516997.1"  ; exon_number 2 ; gene_id "ERLIN2--AC068672.1^ERLIN2^ENSG00000147475.17"  ; gene_name ERLIN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164005.9"  ; havana_transcript "OTTHUMT00000376714.1"  ; hgnc_id "HGNC:1356"  ; level 2 ; orig_coord_info "chr8,37737923,37738029,+"  ; protein_id "ENSP00000335220.6"  ; tag alternative_5_UTR basic CCDS ; transcript_id "ERLIN2--AC068672.1^ENST00000335171.10"  ; transcript_name "ERLIN2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
ERLIN2--AC068672.2	HAVANA	gene	1085	8020	.	+	.	FI_gene_label "ERLIN2^ENSG00000147475.17"  ; ID "ERLIN2--AC068672.2^ERLIN2^ENSG00000147475.17"  ; ccdsid "CCDS34879.1"  ; exon_id "ENSE00003516997.1"  ; exon_number 2 ; gene_id "ERLIN2--AC068672.2^ERLIN2^ENSG00000147475.17"  ; gene_name ERLIN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164005.9"  ; havana_transcript "OTTHUMT00000376714.1"  ; hgnc_id "HGNC:1356"  ; level 2 ; orig_coord_info "chr8,37737923,37738029,+"  ; protein_id "ENSP00000335220.6"  ; tag alternative_5_UTR basic CCDS ; transcript_id "ERLIN2--AC068672.2^ENST00000335171.10"  ; transcript_name "ERLIN2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
ERLIN2--AC068672.2	HAVANA	mRNA	1085	8020	.	+	.	FI_gene_label "ERLIN2^ENSG00000147475.17"  ; ID "ERLIN2--AC068672.2^ENST00000335171.10"  ; Parent "ERLIN2--AC068672.2^ERLIN2^ENSG00000147475.17"  ; ccdsid "CCDS34879.1"  ; exon_id "ENSE00003516997.1"  ; exon_number 2 ; gene_id "ERLIN2--AC068672.2^ERLIN2^ENSG00000147475.17"  ; gene_name ERLIN2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000164005.9"  ; havana_transcript "OTTHUMT00000376714.1"  ; hgnc_id "HGNC:1356"  ; level 2 ; orig_coord_info "chr8,37737923,37738029,+"  ; protein_id "ENSP00000335220.6"  ; tag alternative_5_UTR basic CCDS ; transcript_id "ERLIN2--AC068672.2^ENST00000335171.10"  ; transcript_name "ERLIN2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
FSIP1--AC013652.1	HAVANA	gene	1001	15962	.	+	.	FI_gene_label "FSIP1^ENSG00000150667.8"  ; ID "FSIP1--AC013652.1^FSIP1^ENSG00000150667.8"  ; ccdsid "CCDS10050.1"  ; exon_id "ENSE00003574039.1"  ; exon_number 2 ; gene_id "FSIP1--AC013652.1^FSIP1^ENSG00000150667.8"  ; gene_name FSIP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000172456.3"  ; havana_transcript "OTTHUMT00000252118.4"  ; hgnc_id "HGNC:21674"  ; level 2 ; orig_coord_info "chr15,39776399,39776524,-"  ; protein_id "ENSP00000280236.3"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "FSIP1--AC013652.1^ENST00000350221.4"  ; transcript_name "FSIP1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
FSIP1--AC013652.1	HAVANA	mRNA	1001	15962	.	+	.	FI_gene_label "FSIP1^ENSG00000150667.8"  ; ID "FSIP1--AC013652.1^ENST00000350221.4"  ; Parent "FSIP1--AC013652.1^FSIP1^ENSG00000150667.8"  ; ccdsid "CCDS10050.1"  ; exon_id "ENSE00003574039.1"  ; exon_number 2 ; gene_id "FSIP1--AC013652.1^FSIP1^ENSG00000150667.8"  ; gene_name FSIP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000172456.3"  ; havana_transcript "OTTHUMT00000252118.4"  ; hgnc_id "HGNC:21674"  ; level 2 ; orig_coord_info "chr15,39776399,39776524,-"  ; protein_id "ENSP00000280236.3"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "FSIP1--AC013652.1^ENST00000350221.4"  ; transcript_name "FSIP1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
GUCY1B1--SH3D19	HAVANA	gene	1030	18503	.	+	.	FI_gene_label "GUCY1B1^ENSG00000061918.14"  ; ID "GUCY1B1--SH3D19^GUCY1B1^ENSG00000061918.14"  ; ccdsid "CCDS47154.1"  ; exon_id "ENSE00002034801.1"  ; exon_number 1 ; gene_id "GUCY1B1--SH3D19^GUCY1B1^ENSG00000061918.14"  ; gene_name GUCY1B1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000161698.19"  ; havana_transcript "OTTHUMT00000365770.2"  ; hgnc_id "HGNC:4687"  ; level 2 ; orig_coord_info "chr4,155759141,155759143,+"  ; protein_id "ENSP00000264424.8"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GUCY1B1--SH3D19^ENST00000264424.13"  ; transcript_name "GUCY1B1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
GUCY1B1--SH3D19	HAVANA	mRNA	1030	18503	.	+	.	FI_gene_label "GUCY1B1^ENSG00000061918.14"  ; ID "GUCY1B1--SH3D19^ENST00000264424.13"  ; Parent "GUCY1B1--SH3D19^GUCY1B1^ENSG00000061918.14"  ; ccdsid "CCDS47154.1"  ; exon_id "ENSE00002034801.1"  ; exon_number 1 ; gene_id "GUCY1B1--SH3D19^GUCY1B1^ENSG00000061918.14"  ; gene_name GUCY1B1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000161698.19"  ; havana_transcript "OTTHUMT00000365770.2"  ; hgnc_id "HGNC:4687"  ; level 2 ; orig_coord_info "chr4,155759141,155759143,+"  ; protein_id "ENSP00000264424.8"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GUCY1B1--SH3D19^ENST00000264424.13"  ; transcript_name "GUCY1B1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
GUCY1B1--SH3D19	ENSEMBL	gene	25391	50024	.	+	.	FI_gene_label "SH3D19^ENSG00000109686.19"  ; ID "GUCY1B1--SH3D19^SH3D19^ENSG00000109686.19"  ; ccdsid "CCDS34077.2"  ; exon_id "ENSE00001152554.4"  ; exon_number 7 ; gene_id "GUCY1B1--SH3D19^SH3D19^ENSG00000109686.19"  ; gene_name SH3D19 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154051.8"  ; hgnc_id "HGNC:30418"  ; level 3 ; orig_coord_info "chr4,151174670,151175363,-"  ; protein_id "ENSP00000302913.4"  ; tag basic appris_principal_4 CCDS ; transcript_id "GUCY1B1--SH3D19^ENST00000304527.8"  ; transcript_name "SH3D19-201"  ; transcript_support_level 2 ; transcript_type protein_coding
GUCY1B1--SH3D19	ENSEMBL	mRNA	25391	50024	.	+	.	FI_gene_label "SH3D19^ENSG00000109686.19"  ; ID "GUCY1B1--SH3D19^ENST00000304527.8"  ; Parent "GUCY1B1--SH3D19^SH3D19^ENSG00000109686.19"  ; ccdsid "CCDS34077.2"  ; exon_id "ENSE00001152554.4"  ; exon_number 7 ; gene_id "GUCY1B1--SH3D19^SH3D19^ENSG00000109686.19"  ; gene_name SH3D19 ; gene_type protein_coding ; havana_gene "OTTHUMG00000154051.8"  ; hgnc_id "HGNC:30418"  ; level 3 ; orig_coord_info "chr4,151174670,151175363,-"  ; protein_id "ENSP00000302913.4"  ; tag basic appris_principal_4 CCDS ; transcript_id "GUCY1B1--SH3D19^ENST00000304527.8"  ; transcript_name "SH3D19-201"  ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created: 
HECTD1--PRKD1	HAVANA	gene	49947	78369	.	+	.	FI_gene_label "PRKD1^ENSG00000184304.16"  ; ID "HECTD1--PRKD1^PRKD1^ENSG00000184304.16"  ; ccdsid "CCDS9637.1"  ; exon_id "ENSE00001525893.3"  ; exon_number 1 ; gene_id "HECTD1--PRKD1^PRKD1^ENSG00000184304.16"  ; gene_name PRKD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140203.8"  ; havana_transcript "OTTHUMT00000276611.3"  ; hgnc_id "HGNC:9407"  ; level 2 ; orig_coord_info "chr14,29927249,29927512,-"  ; protein_id "ENSP00000333568.6"  ; tag CAGE_supported_TSS basic MANE_Select appris_principal_3 CCDS ; transcript_id "HECTD1--PRKD1^ENST00000331968.11"  ; transcript_name "PRKD1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
HECTD1--PRKD1	HAVANA	mRNA	49947	78369	.	+	.	FI_gene_label "PRKD1^ENSG00000184304.16"  ; ID "HECTD1--PRKD1^ENST00000331968.11"  ; Parent "HECTD1--PRKD1^PRKD1^ENSG00000184304.16"  ; ccdsid "CCDS9637.1"  ; exon_id "ENSE00001525893.3"  ; exon_number 1 ; gene_id "HECTD1--PRKD1^PRKD1^ENSG00000184304.16"  ; gene_name PRKD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000140203.8"  ; havana_transcript "OTTHUMT00000276611.3"  ; hgnc_id "HGNC:9407"  ; level 2 ; orig_coord_info "chr14,29927249,29927512,-"  ; protein_id "ENSP00000333568.6"  ; tag CAGE_supported_TSS basic MANE_Select appris_principal_3 CCDS ; transcript_id "HECTD1--PRKD1^ENST00000331968.11"  ; transcript_name "PRKD1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
HECTD1--PRKD1	HAVANA	gene	1012	44263	.	+	.	FI_gene_label "HECTD1^ENSG00000092148.13"  ; ID "HECTD1--PRKD1^HECTD1^ENSG00000092148.13"  ; ccdsid "CCDS41939.1"  ; exon_id "ENSE00003637840.1"  ; exon_number 2 ; gene_id "HECTD1--PRKD1^HECTD1^ENSG00000092148.13"  ; gene_name HECTD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000170670.6"  ; havana_transcript "OTTHUMT00000504190.2"  ; hgnc_id "HGNC:20157"  ; level 2 ; orig_coord_info "chr14,31205797,31205936,-"  ; protein_id "ENSP00000382269.1"  ; tag RNA_Seq_supported_only basic MANE_Select appris_principal_1 CCDS ; transcript_id "HECTD1--PRKD1^ENST00000399332.6"  ; transcript_name "HECTD1-201"  ; transcript_support_level 5 ; transcript_type protein_coding
HECTD1--PRKD1	HAVANA	mRNA	1012	44263	.	+	.	FI_gene_label "HECTD1^ENSG00000092148.13"  ; ID "HECTD1--PRKD1^ENST00000399332.6"  ; Parent "HECTD1--PRKD1^HECTD1^ENSG00000092148.13"  ; ccdsid "CCDS41939.1"  ; exon_id "ENSE00003637840.1"  ; exon_number 2 ; gene_id "HECTD1--PRKD1^HECTD1^ENSG00000092148.13"  ; gene_name HECTD1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000170670.6"  ; havana_transcript "OTTHUMT00000504190.2"  ; hgnc_id "HGNC:20157"  ; level 2 ; orig_coord_info "chr14,31205797,31205936,-"  ; protein_id "ENSP00000382269.1"  ; tag RNA_Seq_supported_only basic MANE_Select appris_principal_1 CCDS ; transcript_id "HECTD1--PRKD1^ENST00000399332.6"  ; transcript_name "HECTD1-201"  ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created: 
IPMK--CACNB2	HAVANA	gene	15628	43979	.	+	.	FI_gene_label "CACNB2^ENSG00000165995.22"  ; ID "IPMK--CACNB2^CACNB2^ENSG00000165995.22"  ; ccdsid "CCDS7127.1"  ; exon_id "ENSE00001563168.1"  ; exon_number 1 ; gene_id "IPMK--CACNB2^CACNB2^ENSG00000165995.22"  ; gene_name CACNB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017764.9"  ; havana_transcript "OTTHUMT00000047073.2"  ; hgnc_id "HGNC:1402"  ; level 2 ; orig_coord_info "chr10,18141180,18141215,+"  ; protein_id "ENSP00000282343.8"  ; tag basic CCDS ; transcript_id "IPMK--CACNB2^ENST00000282343.13"  ; transcript_name "CACNB2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
IPMK--CACNB2	HAVANA	mRNA	15628	43979	.	+	.	FI_gene_label "CACNB2^ENSG00000165995.22"  ; ID "IPMK--CACNB2^ENST00000282343.13"  ; Parent "IPMK--CACNB2^CACNB2^ENSG00000165995.22"  ; ccdsid "CCDS7127.1"  ; exon_id "ENSE00001563168.1"  ; exon_number 1 ; gene_id "IPMK--CACNB2^CACNB2^ENSG00000165995.22"  ; gene_name CACNB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000017764.9"  ; havana_transcript "OTTHUMT00000047073.2"  ; hgnc_id "HGNC:1402"  ; level 2 ; orig_coord_info "chr10,18141180,18141215,+"  ; protein_id "ENSP00000282343.8"  ; tag basic CCDS ; transcript_id "IPMK--CACNB2^ENST00000282343.13"  ; transcript_name "CACNB2-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
IPMK--CACNB2	HAVANA	gene	1001	12093	.	+	.	FI_gene_label "IPMK^ENSG00000151151.6"  ; ID "IPMK--CACNB2^IPMK^ENSG00000151151.6"  ; ccdsid "CCDS7250.1"  ; exon_id "ENSE00001461963.2"  ; exon_number 1 ; gene_id "IPMK--CACNB2^IPMK^ENSG00000151151.6"  ; gene_name IPMK ; gene_type protein_coding ; havana_gene "OTTHUMG00000018268.2"  ; havana_transcript "OTTHUMT00000048142.2"  ; hgnc_id "HGNC:20739"  ; level 2 ; orig_coord_info "chr10,58267422,58267611,-"  ; protein_id "ENSP00000363046.3"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "IPMK--CACNB2^ENST00000373935.4"  ; transcript_name "IPMK-201"  ; transcript_support_level 1 ; transcript_type protein_coding
IPMK--CACNB2	HAVANA	mRNA	1001	12093	.	+	.	FI_gene_label "IPMK^ENSG00000151151.6"  ; ID "IPMK--CACNB2^ENST00000373935.4"  ; Parent "IPMK--CACNB2^IPMK^ENSG00000151151.6"  ; ccdsid "CCDS7250.1"  ; exon_id "ENSE00001461963.2"  ; exon_number 1 ; gene_id "IPMK--CACNB2^IPMK^ENSG00000151151.6"  ; gene_name IPMK ; gene_type protein_coding ; havana_gene "OTTHUMG00000018268.2"  ; havana_transcript "OTTHUMT00000048142.2"  ; hgnc_id "HGNC:20739"  ; level 2 ; orig_coord_info "chr10,58267422,58267611,-"  ; protein_id "ENSP00000363046.3"  ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "IPMK--CACNB2^ENST00000373935.4"  ; transcript_name "IPMK-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
KCNIP4--RPGRIP1	ENSEMBL	gene	11834	19841	.	+	.	FI_gene_label "KCNIP4^ENSG00000185774.16"  ; ID "KCNIP4--RPGRIP1^KCNIP4^ENSG00000185774.16"  ; ccdsid "CCDS47035.1"  ; exon_id "ENSE00003722684.1"  ; exon_number 1 ; gene_id "KCNIP4--RPGRIP1^KCNIP4^ENSG00000185774.16"  ; gene_name KCNIP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128557.12"  ; hgnc_id "HGNC:30083"  ; level 3 ; orig_coord_info "chr4,20850543,20850644,-"  ; protein_id "ENSP00000351892.5"  ; tag basic CCDS ; transcript_id "KCNIP4--RPGRIP1^ENST00000359001.9"  ; transcript_name "KCNIP4-201"  ; transcript_support_level 1 ; transcript_type protein_coding
KCNIP4--RPGRIP1	ENSEMBL	mRNA	11834	19841	.	+	.	FI_gene_label "KCNIP4^ENSG00000185774.16"  ; ID "KCNIP4--RPGRIP1^ENST00000359001.9"  ; Parent "KCNIP4--RPGRIP1^KCNIP4^ENSG00000185774.16"  ; ccdsid "CCDS47035.1"  ; exon_id "ENSE00003722684.1"  ; exon_number 1 ; gene_id "KCNIP4--RPGRIP1^KCNIP4^ENSG00000185774.16"  ; gene_name KCNIP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128557.12"  ; hgnc_id "HGNC:30083"  ; level 3 ; orig_coord_info "chr4,20850543,20850644,-"  ; protein_id "ENSP00000351892.5"  ; tag basic CCDS ; transcript_id "KCNIP4--RPGRIP1^ENST00000359001.9"  ; transcript_name "KCNIP4-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
KCNIP4--RPGRIP1	HAVANA	gene	33326	49000	.	+	.	FI_gene_label "RPGRIP1^ENSG00000092200.13"  ; ID "KCNIP4--RPGRIP1^RPGRIP1^ENSG00000092200.13"  ; exon_id "ENSE00001493918.3"  ; exon_number 1 ; gene_id "KCNIP4--RPGRIP1^RPGRIP1^ENSG00000092200.13"  ; gene_name RPGRIP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000170758.2"  ; havana_transcript "OTTHUMT00000410260.1"  ; hgnc_id "HGNC:13436"  ; level 2 ; orig_coord_info "chr14,21317619,21317850,+"  ; protein_id "ENSP00000372391.4"  ; tag basic ; transcript_id "KCNIP4--RPGRIP1^ENST00000382933.8"  ; transcript_name "RPGRIP1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
KCNIP4--RPGRIP1	HAVANA	mRNA	33326	49000	.	+	.	FI_gene_label "RPGRIP1^ENSG00000092200.13"  ; ID "KCNIP4--RPGRIP1^ENST00000382933.8"  ; Parent "KCNIP4--RPGRIP1^RPGRIP1^ENSG00000092200.13"  ; exon_id "ENSE00001493918.3"  ; exon_number 1 ; gene_id "KCNIP4--RPGRIP1^RPGRIP1^ENSG00000092200.13"  ; gene_name RPGRIP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000170758.2"  ; havana_transcript "OTTHUMT00000410260.1"  ; hgnc_id "HGNC:13436"  ; level 2 ; orig_coord_info "chr14,21317619,21317850,+"  ; protein_id "ENSP00000372391.4"  ; tag basic ; transcript_id "KCNIP4--RPGRIP1^ENST00000382933.8"  ; transcript_name "RPGRIP1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
PIEZO2--AC096719.1	HAVANA	gene	1982	68118	.	+	.	FI_gene_label "PIEZO2^ENSG00000154864.13"  ; ID "PIEZO2--AC096719.1^PIEZO2^ENSG00000154864.13"  ; exon_id "ENSE00002236501.2"  ; exon_number 1 ; gene_id "PIEZO2--AC096719.1^PIEZO2^ENSG00000154864.13"  ; gene_name PIEZO2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178507.14"  ; havana_transcript "OTTHUMT00000254528.5"  ; hgnc_id "HGNC:26270"  ; level 2 ; orig_coord_info "chr18,11148525,11148588,-"  ; protein_id "ENSP00000303316.6"  ; tag basic ; transcript_id "PIEZO2--AC096719.1^ENST00000302079.10"  ; transcript_name "PIEZO2-201"  ; transcript_support_level 5 ; transcript_type protein_coding
PIEZO2--AC096719.1	HAVANA	mRNA	1982	68118	.	+	.	FI_gene_label "PIEZO2^ENSG00000154864.13"  ; ID "PIEZO2--AC096719.1^ENST00000302079.10"  ; Parent "PIEZO2--AC096719.1^PIEZO2^ENSG00000154864.13"  ; exon_id "ENSE00002236501.2"  ; exon_number 1 ; gene_id "PIEZO2--AC096719.1^PIEZO2^ENSG00000154864.13"  ; gene_name PIEZO2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178507.14"  ; havana_transcript "OTTHUMT00000254528.5"  ; hgnc_id "HGNC:26270"  ; level 2 ; orig_coord_info "chr18,11148525,11148588,-"  ; protein_id "ENSP00000303316.6"  ; tag basic ; transcript_id "PIEZO2--AC096719.1^ENST00000302079.10"  ; transcript_name "PIEZO2-201"  ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created: 
PIEZO2--KCNIP4	HAVANA	gene	1982	68118	.	+	.	FI_gene_label "PIEZO2^ENSG00000154864.13"  ; ID "PIEZO2--KCNIP4^PIEZO2^ENSG00000154864.13"  ; exon_id "ENSE00002236501.2"  ; exon_number 1 ; gene_id "PIEZO2--KCNIP4^PIEZO2^ENSG00000154864.13"  ; gene_name PIEZO2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178507.14"  ; havana_transcript "OTTHUMT00000254528.5"  ; hgnc_id "HGNC:26270"  ; level 2 ; orig_coord_info "chr18,11148525,11148588,-"  ; protein_id "ENSP00000303316.6"  ; tag basic ; transcript_id "PIEZO2--KCNIP4^ENST00000302079.10"  ; transcript_name "PIEZO2-201"  ; transcript_support_level 5 ; transcript_type protein_coding
PIEZO2--KCNIP4	HAVANA	mRNA	1982	68118	.	+	.	FI_gene_label "PIEZO2^ENSG00000154864.13"  ; ID "PIEZO2--KCNIP4^ENST00000302079.10"  ; Parent "PIEZO2--KCNIP4^PIEZO2^ENSG00000154864.13"  ; exon_id "ENSE00002236501.2"  ; exon_number 1 ; gene_id "PIEZO2--KCNIP4^PIEZO2^ENSG00000154864.13"  ; gene_name PIEZO2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178507.14"  ; havana_transcript "OTTHUMT00000254528.5"  ; hgnc_id "HGNC:26270"  ; level 2 ; orig_coord_info "chr18,11148525,11148588,-"  ; protein_id "ENSP00000303316.6"  ; tag basic ; transcript_id "PIEZO2--KCNIP4^ENST00000302079.10"  ; transcript_name "PIEZO2-201"  ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created: 
PIEZO2--KCNIP4	ENSEMBL	gene	83283	91290	.	+	.	FI_gene_label "KCNIP4^ENSG00000185774.16"  ; ID "PIEZO2--KCNIP4^KCNIP4^ENSG00000185774.16"  ; ccdsid "CCDS47035.1"  ; exon_id "ENSE00003722684.1"  ; exon_number 1 ; gene_id "PIEZO2--KCNIP4^KCNIP4^ENSG00000185774.16"  ; gene_name KCNIP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128557.12"  ; hgnc_id "HGNC:30083"  ; level 3 ; orig_coord_info "chr4,20850543,20850644,-"  ; protein_id "ENSP00000351892.5"  ; tag basic CCDS ; transcript_id "PIEZO2--KCNIP4^ENST00000359001.9"  ; transcript_name "KCNIP4-201"  ; transcript_support_level 1 ; transcript_type protein_coding
PIEZO2--KCNIP4	ENSEMBL	mRNA	83283	91290	.	+	.	FI_gene_label "KCNIP4^ENSG00000185774.16"  ; ID "PIEZO2--KCNIP4^ENST00000359001.9"  ; Parent "PIEZO2--KCNIP4^KCNIP4^ENSG00000185774.16"  ; ccdsid "CCDS47035.1"  ; exon_id "ENSE00003722684.1"  ; exon_number 1 ; gene_id "PIEZO2--KCNIP4^KCNIP4^ENSG00000185774.16"  ; gene_name KCNIP4 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128557.12"  ; hgnc_id "HGNC:30083"  ; level 3 ; orig_coord_info "chr4,20850543,20850644,-"  ; protein_id "ENSP00000351892.5"  ; tag basic CCDS ; transcript_id "PIEZO2--KCNIP4^ENST00000359001.9"  ; transcript_name "KCNIP4-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
STAM--AC069545.1	HAVANA	gene	1058	10351	.	+	.	FI_gene_label "STAM^ENSG00000136738.15"  ; ID "STAM--AC069545.1^STAM^ENSG00000136738.15"  ; exon_id "ENSE00003536682.1"  ; exon_number 2 ; gene_id "STAM--AC069545.1^STAM^ENSG00000136738.15"  ; gene_name STAM ; gene_type protein_coding ; havana_gene "OTTHUMG00000017749.4"  ; havana_transcript "OTTHUMT00000047041.3"  ; hgnc_id "HGNC:11357"  ; level 2 ; orig_coord_info "chr10,17688063,17688173,+"  ; protein_id "ENSP00000366721.1"  ; tag mRNA_end_NF cds_end_NF ; transcript_id "STAM--AC069545.1^ENST00000377500.1"  ; transcript_name "STAM-201"  ; transcript_support_level 5 ; transcript_type protein_coding
STAM--AC069545.1	HAVANA	mRNA	1058	10351	.	+	.	FI_gene_label "STAM^ENSG00000136738.15"  ; ID "STAM--AC069545.1^ENST00000377500.1"  ; Parent "STAM--AC069545.1^STAM^ENSG00000136738.15"  ; exon_id "ENSE00003536682.1"  ; exon_number 2 ; gene_id "STAM--AC069545.1^STAM^ENSG00000136738.15"  ; gene_name STAM ; gene_type protein_coding ; havana_gene "OTTHUMG00000017749.4"  ; havana_transcript "OTTHUMT00000047041.3"  ; hgnc_id "HGNC:11357"  ; level 2 ; orig_coord_info "chr10,17688063,17688173,+"  ; protein_id "ENSP00000366721.1"  ; tag mRNA_end_NF cds_end_NF ; transcript_id "STAM--AC069545.1^ENST00000377500.1"  ; transcript_name "STAM-201"  ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created: 
STAM--ZWINT	HAVANA	gene	21694	24007	.	+	.	FI_gene_label "ZWINT^ENSG00000122952.17"  ; ID "STAM--ZWINT^ZWINT^ENSG00000122952.17"  ; exon_id "ENSE00001435429.2"  ; exon_number 1 ; gene_id "STAM--ZWINT^ZWINT^ENSG00000122952.17"  ; gene_name ZWINT ; gene_type protein_coding ; havana_gene "OTTHUMG00000018261.3"  ; havana_transcript "OTTHUMT00000048125.1"  ; hgnc_id "HGNC:13195"  ; level 2 ; orig_coord_info "chr10,56359687,56359749,-"  ; protein_id "ENSP00000322850.2"  ; tag basic ; transcript_id "STAM--ZWINT^ENST00000318387.6"  ; transcript_name "ZWINT-201"  ; transcript_support_level 1 ; transcript_type protein_coding
STAM--ZWINT	HAVANA	mRNA	21694	24007	.	+	.	FI_gene_label "ZWINT^ENSG00000122952.17"  ; ID "STAM--ZWINT^ENST00000318387.6"  ; Parent "STAM--ZWINT^ZWINT^ENSG00000122952.17"  ; exon_id "ENSE00001435429.2"  ; exon_number 1 ; gene_id "STAM--ZWINT^ZWINT^ENSG00000122952.17"  ; gene_name ZWINT ; gene_type protein_coding ; havana_gene "OTTHUMG00000018261.3"  ; havana_transcript "OTTHUMT00000048125.1"  ; hgnc_id "HGNC:13195"  ; level 2 ; orig_coord_info "chr10,56359687,56359749,-"  ; protein_id "ENSP00000322850.2"  ; tag basic ; transcript_id "STAM--ZWINT^ENST00000318387.6"  ; transcript_name "ZWINT-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
STAM--ZWINT	HAVANA	gene	1058	10351	.	+	.	FI_gene_label "STAM^ENSG00000136738.15"  ; ID "STAM--ZWINT^STAM^ENSG00000136738.15"  ; exon_id "ENSE00003536682.1"  ; exon_number 2 ; gene_id "STAM--ZWINT^STAM^ENSG00000136738.15"  ; gene_name STAM ; gene_type protein_coding ; havana_gene "OTTHUMG00000017749.4"  ; havana_transcript "OTTHUMT00000047041.3"  ; hgnc_id "HGNC:11357"  ; level 2 ; orig_coord_info "chr10,17688063,17688173,+"  ; protein_id "ENSP00000366721.1"  ; tag mRNA_end_NF cds_end_NF ; transcript_id "STAM--ZWINT^ENST00000377500.1"  ; transcript_name "STAM-201"  ; transcript_support_level 5 ; transcript_type protein_coding
STAM--ZWINT	HAVANA	mRNA	1058	10351	.	+	.	FI_gene_label "STAM^ENSG00000136738.15"  ; ID "STAM--ZWINT^ENST00000377500.1"  ; Parent "STAM--ZWINT^STAM^ENSG00000136738.15"  ; exon_id "ENSE00003536682.1"  ; exon_number 2 ; gene_id "STAM--ZWINT^STAM^ENSG00000136738.15"  ; gene_name STAM ; gene_type protein_coding ; havana_gene "OTTHUMG00000017749.4"  ; havana_transcript "OTTHUMT00000047041.3"  ; hgnc_id "HGNC:11357"  ; level 2 ; orig_coord_info "chr10,17688063,17688173,+"  ; protein_id "ENSP00000366721.1"  ; tag mRNA_end_NF cds_end_NF ; transcript_id "STAM--ZWINT^ENST00000377500.1"  ; transcript_name "STAM-201"  ; transcript_support_level 5 ; 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: 
XPNPEP1--AL590623.1	ENSEMBL	gene	1001	25257	.	+	.	FI_gene_label "XPNPEP1^ENSG00000108039.18"  ; ID "XPNPEP1--AL590623.1^XPNPEP1^ENSG00000108039.18"  ; ccdsid "CCDS53576.1"  ; exon_id "ENSE00003520587.1"  ; exon_number 1 ; gene_id "XPNPEP1--AL590623.1^XPNPEP1^ENSG00000108039.18"  ; gene_name XPNPEP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019029.5"  ; hgnc_id "HGNC:12822"  ; level 3 ; orig_coord_info "chr10,109923402,109923433,-"  ; protein_id "ENSP00000324011.8"  ; tag basic CCDS ; transcript_id "XPNPEP1--AL590623.1^ENST00000322238.12"  ; transcript_name "XPNPEP1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
XPNPEP1--AL590623.1	ENSEMBL	mRNA	1001	25257	.	+	.	FI_gene_label "XPNPEP1^ENSG00000108039.18"  ; ID "XPNPEP1--AL590623.1^ENST00000322238.12"  ; Parent "XPNPEP1--AL590623.1^XPNPEP1^ENSG00000108039.18"  ; ccdsid "CCDS53576.1"  ; exon_id "ENSE00003520587.1"  ; exon_number 1 ; gene_id "XPNPEP1--AL590623.1^XPNPEP1^ENSG00000108039.18"  ; gene_name XPNPEP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019029.5"  ; hgnc_id "HGNC:12822"  ; level 3 ; orig_coord_info "chr10,109923402,109923433,-"  ; protein_id "ENSP00000324011.8"  ; tag basic CCDS ; transcript_id "XPNPEP1--AL590623.1^ENST00000322238.12"  ; transcript_name "XPNPEP1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
XPNPEP1--KSR1P1	ENSEMBL	gene	1001	25257	.	+	.	FI_gene_label "XPNPEP1^ENSG00000108039.18"  ; ID "XPNPEP1--KSR1P1^XPNPEP1^ENSG00000108039.18"  ; ccdsid "CCDS53576.1"  ; exon_id "ENSE00003520587.1"  ; exon_number 1 ; gene_id "XPNPEP1--KSR1P1^XPNPEP1^ENSG00000108039.18"  ; gene_name XPNPEP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019029.5"  ; hgnc_id "HGNC:12822"  ; level 3 ; orig_coord_info "chr10,109923402,109923433,-"  ; protein_id "ENSP00000324011.8"  ; tag basic CCDS ; transcript_id "XPNPEP1--KSR1P1^ENST00000322238.12"  ; transcript_name "XPNPEP1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
XPNPEP1--KSR1P1	ENSEMBL	mRNA	1001	25257	.	+	.	FI_gene_label "XPNPEP1^ENSG00000108039.18"  ; ID "XPNPEP1--KSR1P1^ENST00000322238.12"  ; Parent "XPNPEP1--KSR1P1^XPNPEP1^ENSG00000108039.18"  ; ccdsid "CCDS53576.1"  ; exon_id "ENSE00003520587.1"  ; exon_number 1 ; gene_id "XPNPEP1--KSR1P1^XPNPEP1^ENSG00000108039.18"  ; gene_name XPNPEP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000019029.5"  ; hgnc_id "HGNC:12822"  ; level 3 ; orig_coord_info "chr10,109923402,109923433,-"  ; protein_id "ENSP00000324011.8"  ; tag basic CCDS ; transcript_id "XPNPEP1--KSR1P1^ENST00000322238.12"  ; transcript_name "XPNPEP1-201"  ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created: 
AC092807.3--DDAH1	HAVANA	gene	1101	8302	.	+	.	FI_gene_label "AC092807.3^ENSG00000282057.1"  ; ID "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1"  ; exon_id "ENSE00001891111.1"  ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1"  ; gene_name "AC092807.3"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6"  ; havana_transcript "OTTHUMT00000029193.2"  ; level 2 ; orig_coord_info "chr1,85577984,85578150,-"  ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5"  ; transcript_name "AC092807.3-203"  ; transcript_support_level 2 ; transcript_type lncRNA
AC092807.3--DDAH1	HAVANA	RNA	1101	8302	.	+	.	FI_gene_label "AC092807.3^ENSG00000282057.1"  ; ID "AC092807.3--DDAH1^ENST00000467530.5"  ; Parent "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1"  ; exon_id "ENSE00001891111.1"  ; exon_number 1 ; gene_id "AC092807.3--DDAH1^AC092807.3^ENSG00000282057.1"  ; gene_name "AC092807.3"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000010578.6"  ; havana_transcript "OTTHUMT00000029193.2"  ; level 2 ; orig_coord_info "chr1,85577984,85578150,-"  ; tag basic ; transcript_id "AC092807.3--DDAH1^ENST00000467530.5"  ; transcript_name "AC092807.3-203"  ; transcript_support_level 2 ; transcript_type lncRNA
L1 and L2 created: 
AC092821.3--PZP	HAVANA	gene	10171	14579	.	+	.	FI_gene_label "AC092821.3^ENSG00000284634.1"  ; ID "AC092821.3--PZP^AC092821.3^ENSG00000284634.1"  ; exon_id "ENSE00002679132.1"  ; exon_number 1 ; gene_id "AC092821.3--PZP^AC092821.3^ENSG00000284634.1"  ; gene_name "AC092821.3"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000164997.5"  ; havana_transcript "OTTHUMT00000439143.1"  ; level 2 ; orig_coord_info "chr12,9634592,9634696,+"  ; tag basic ; transcript_id "AC092821.3--PZP^ENST00000576948.5"  ; transcript_name "AC092821.3-206"  ; transcript_support_level 3 ; transcript_type lncRNA
AC092821.3--PZP	HAVANA	RNA	10171	14579	.	+	.	FI_gene_label "AC092821.3^ENSG00000284634.1"  ; ID "AC092821.3--PZP^ENST00000576948.5"  ; Parent "AC092821.3--PZP^AC092821.3^ENSG00000284634.1"  ; exon_id "ENSE00002679132.1"  ; exon_number 1 ; gene_id "AC092821.3--PZP^AC092821.3^ENSG00000284634.1"  ; gene_name "AC092821.3"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000164997.5"  ; havana_transcript "OTTHUMT00000439143.1"  ; level 2 ; orig_coord_info "chr12,9634592,9634696,+"  ; tag basic ; transcript_id "AC092821.3--PZP^ENST00000576948.5"  ; transcript_name "AC092821.3-206"  ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created: 
AC138035.1--SEPTIN14	HAVANA	gene	1001	8411	.	+	.	FI_gene_label "AC138035.1^ENSG00000238035.8"  ; ID "AC138035.1--SEPTIN14^AC138035.1^ENSG00000238035.8"  ; exon_id "ENSE00003471589.1"  ; exon_number 1 ; gene_id "AC138035.1--SEPTIN14^AC138035.1^ENSG00000238035.8"  ; gene_name "AC138035.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000184458.1"  ; havana_transcript "OTTHUMT00000468768.1"  ; level 2 ; orig_coord_info "chr5,181306502,181306652,+"  ; tag non_canonical_TEC not_best_in_genome_evidence basic ; transcript_id "AC138035.1--SEPTIN14^ENST00000499986.8"  ; transcript_name "AC138035.1-201"  ; transcript_support_level 5 ; transcript_type lncRNA
AC138035.1--SEPTIN14	HAVANA	RNA	1001	8411	.	+	.	FI_gene_label "AC138035.1^ENSG00000238035.8"  ; ID "AC138035.1--SEPTIN14^ENST00000499986.8"  ; Parent "AC138035.1--SEPTIN14^AC138035.1^ENSG00000238035.8"  ; exon_id "ENSE00003471589.1"  ; exon_number 1 ; gene_id "AC138035.1--SEPTIN14^AC138035.1^ENSG00000238035.8"  ; gene_name "AC138035.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000184458.1"  ; havana_transcript "OTTHUMT00000468768.1"  ; level 2 ; orig_coord_info "chr5,181306502,181306652,+"  ; tag non_canonical_TEC not_best_in_genome_evidence basic ; transcript_id "AC138035.1--SEPTIN14^ENST00000499986.8"  ; transcript_name "AC138035.1-201"  ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created: 
ANXA7--VN1R54P	HAVANA	gene	18448	19496	.	+	.	FI_gene_label "VN1R54P^ENSG00000232109.1"  ; ID "ANXA7--VN1R54P^VN1R54P^ENSG00000232109.1"  ; exon_id "ENSE00001724389.1"  ; exon_number 1 ; gene_id "ANXA7--VN1R54P^VN1R54P^ENSG00000232109.1"  ; gene_name VN1R54P ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018015.1"  ; havana_transcript "OTTHUMT00000047685.1"  ; hgnc_id "HGNC:37374"  ; level 2 ; ont "PGO:0000004"  ; orig_coord_info "chr10,42660728,42661776,+"  ; tag basic ; transcript_id "ANXA7--VN1R54P^ENST00000435210.1"  ; transcript_name "VN1R54P-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
ANXA7--VN1R54P	HAVANA	RNA	18448	19496	.	+	.	FI_gene_label "VN1R54P^ENSG00000232109.1"  ; ID "ANXA7--VN1R54P^ENST00000435210.1"  ; Parent "ANXA7--VN1R54P^VN1R54P^ENSG00000232109.1"  ; exon_id "ENSE00001724389.1"  ; exon_number 1 ; gene_id "ANXA7--VN1R54P^VN1R54P^ENSG00000232109.1"  ; gene_name VN1R54P ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018015.1"  ; havana_transcript "OTTHUMT00000047685.1"  ; hgnc_id "HGNC:37374"  ; level 2 ; ont "PGO:0000004"  ; orig_coord_info "chr10,42660728,42661776,+"  ; tag basic ; transcript_id "ANXA7--VN1R54P^ENST00000435210.1"  ; transcript_name "VN1R54P-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created: 
DERL1--AC091096.1	HAVANA	gene	17481	23459	.	+	.	FI_gene_label "AC091096.1^ENSG00000253634.3"  ; ID "DERL1--AC091096.1^AC091096.1^ENSG00000253634.3"  ; exon_id "ENSE00002135651.2"  ; exon_number 1 ; gene_id "DERL1--AC091096.1^AC091096.1^ENSG00000253634.3"  ; gene_name "AC091096.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000164157.5"  ; havana_transcript "OTTHUMT00000377512.2"  ; level 2 ; orig_coord_info "chr8,92655443,92655576,-"  ; tag TAGENE ; transcript_id "DERL1--AC091096.1^ENST00000523284.2"  ; transcript_name "AC091096.1-202"  ; transcript_support_level 3 ; transcript_type lncRNA
DERL1--AC091096.1	HAVANA	RNA	17481	23459	.	+	.	FI_gene_label "AC091096.1^ENSG00000253634.3"  ; ID "DERL1--AC091096.1^ENST00000523284.2"  ; Parent "DERL1--AC091096.1^AC091096.1^ENSG00000253634.3"  ; exon_id "ENSE00002135651.2"  ; exon_number 1 ; gene_id "DERL1--AC091096.1^AC091096.1^ENSG00000253634.3"  ; gene_name "AC091096.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000164157.5"  ; havana_transcript "OTTHUMT00000377512.2"  ; level 2 ; orig_coord_info "chr8,92655443,92655576,-"  ; tag TAGENE ; transcript_id "DERL1--AC091096.1^ENST00000523284.2"  ; transcript_name "AC091096.1-202"  ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created: 
ERLIN2--AC068672.1	HAVANA	gene	20017	21206	.	+	.	FI_gene_label "AC068672.1^ENSG00000253275.1"  ; ID "ERLIN2--AC068672.1^AC068672.1^ENSG00000253275.1"  ; exon_id "ENSE00002135002.1"  ; exon_number 1 ; gene_id "ERLIN2--AC068672.1^AC068672.1^ENSG00000253275.1"  ; gene_name "AC068672.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000163914.1"  ; havana_transcript "OTTHUMT00000376377.1"  ; level 2 ; orig_coord_info "chr8,31497423,31497556,+"  ; tag basic ; transcript_id "ERLIN2--AC068672.1^ENST00000520391.1"  ; transcript_name "AC068672.1-201"  ; transcript_support_level 3 ; transcript_type lncRNA
ERLIN2--AC068672.1	HAVANA	RNA	20017	21206	.	+	.	FI_gene_label "AC068672.1^ENSG00000253275.1"  ; ID "ERLIN2--AC068672.1^ENST00000520391.1"  ; Parent "ERLIN2--AC068672.1^AC068672.1^ENSG00000253275.1"  ; exon_id "ENSE00002135002.1"  ; exon_number 1 ; gene_id "ERLIN2--AC068672.1^AC068672.1^ENSG00000253275.1"  ; gene_name "AC068672.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000163914.1"  ; havana_transcript "OTTHUMT00000376377.1"  ; level 2 ; orig_coord_info "chr8,31497423,31497556,+"  ; tag basic ; transcript_id "ERLIN2--AC068672.1^ENST00000520391.1"  ; transcript_name "AC068672.1-201"  ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created: 
ERLIN2--AC068672.2	HAVANA	gene	20071	22490	.	+	.	FI_gene_label "AC068672.2^ENSG00000253377.2"  ; ID "ERLIN2--AC068672.2^AC068672.2^ENSG00000253377.2"  ; exon_id "ENSE00002091619.1"  ; exon_number 1 ; gene_id "ERLIN2--AC068672.2^AC068672.2^ENSG00000253377.2"  ; gene_name "AC068672.2"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000163916.3"  ; havana_transcript "OTTHUMT00000376384.1"  ; level 2 ; orig_coord_info "chr8,31275596,31275808,+"  ; transcript_id "ERLIN2--AC068672.2^ENST00000524022.1"  ; transcript_name "AC068672.2-201"  ; transcript_support_level 3 ; transcript_type lncRNA
ERLIN2--AC068672.2	HAVANA	RNA	20071	22490	.	+	.	FI_gene_label "AC068672.2^ENSG00000253377.2"  ; ID "ERLIN2--AC068672.2^ENST00000524022.1"  ; Parent "ERLIN2--AC068672.2^AC068672.2^ENSG00000253377.2"  ; exon_id "ENSE00002091619.1"  ; exon_number 1 ; gene_id "ERLIN2--AC068672.2^AC068672.2^ENSG00000253377.2"  ; gene_name "AC068672.2"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000163916.3"  ; havana_transcript "OTTHUMT00000376384.1"  ; level 2 ; orig_coord_info "chr8,31275596,31275808,+"  ; transcript_id "ERLIN2--AC068672.2^ENST00000524022.1"  ; transcript_name "AC068672.2-201"  ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created: 
FSIP1--AC013652.1	HAVANA	gene	21835	37275	.	+	.	FI_gene_label "AC013652.1^ENSG00000259345.7"  ; ID "FSIP1--AC013652.1^AC013652.1^ENSG00000259345.7"  ; exon_id "ENSE00002558629.1"  ; exon_number 1 ; gene_id "FSIP1--AC013652.1^AC013652.1^ENSG00000259345.7"  ; gene_name "AC013652.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000172466.4"  ; havana_transcript "OTTHUMT00000418683.1"  ; level 2 ; orig_coord_info "chr15,39427098,39427195,-"  ; tag basic ; transcript_id "FSIP1--AC013652.1^ENST00000558209.1"  ; transcript_name "AC013652.1-205"  ; transcript_support_level 3 ; transcript_type lncRNA
FSIP1--AC013652.1	HAVANA	RNA	21835	37275	.	+	.	FI_gene_label "AC013652.1^ENSG00000259345.7"  ; ID "FSIP1--AC013652.1^ENST00000558209.1"  ; Parent "FSIP1--AC013652.1^AC013652.1^ENSG00000259345.7"  ; exon_id "ENSE00002558629.1"  ; exon_number 1 ; gene_id "FSIP1--AC013652.1^AC013652.1^ENSG00000259345.7"  ; gene_name "AC013652.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000172466.4"  ; havana_transcript "OTTHUMT00000418683.1"  ; level 2 ; orig_coord_info "chr15,39427098,39427195,-"  ; tag basic ; transcript_id "FSIP1--AC013652.1^ENST00000558209.1"  ; transcript_name "AC013652.1-205"  ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created: 
LINC00993--LINC02636	HAVANA	gene	1001	8596	.	+	.	FI_gene_label "LINC00993^ENSG00000235687.9"  ; ID "LINC00993--LINC02636^LINC00993^ENSG00000235687.9"  ; exon_id "ENSE00001685927.1"  ; exon_number 1 ; gene_id "LINC00993--LINC02636^LINC00993^ENSG00000235687.9"  ; gene_name LINC00993 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000017970.2"  ; havana_transcript "OTTHUMT00000047594.1"  ; hgnc_id "HGNC:48948"  ; level 2 ; ont "PGO:0000005"  "PGO:0000019"  ; orig_coord_info "chr10,37248118,37248240,+"  ; tag basic ; transcript_id "LINC00993--LINC02636^ENST00000420453.1"  ; transcript_name "LINC00993-201"  ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
LINC00993--LINC02636	HAVANA	RNA	1001	8596	.	+	.	FI_gene_label "LINC00993^ENSG00000235687.9"  ; ID "LINC00993--LINC02636^ENST00000420453.1"  ; Parent "LINC00993--LINC02636^LINC00993^ENSG00000235687.9"  ; exon_id "ENSE00001685927.1"  ; exon_number 1 ; gene_id "LINC00993--LINC02636^LINC00993^ENSG00000235687.9"  ; gene_name LINC00993 ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000017970.2"  ; havana_transcript "OTTHUMT00000047594.1"  ; hgnc_id "HGNC:48948"  ; level 2 ; ont "PGO:0000005"  "PGO:0000019"  ; orig_coord_info "chr10,37248118,37248240,+"  ; tag basic ; transcript_id "LINC00993--LINC02636^ENST00000420453.1"  ; transcript_name "LINC00993-201"  ; transcript_support_level NA ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created: 
LINC00993--LINC02636	HAVANA	gene	15775	18491	.	+	.	FI_gene_label "LINC02636^ENSG00000224222.2"  ; ID "LINC00993--LINC02636^LINC02636^ENSG00000224222.2"  ; exon_id "ENSE00001660604.1"  ; exon_number 1 ; gene_id "LINC00993--LINC02636^LINC02636^ENSG00000224222.2"  ; gene_name LINC02636 ; gene_type lncRNA ; havana_gene "OTTHUMG00000018395.5"  ; havana_transcript "OTTHUMT00000048479.1"  ; hgnc_id "HGNC:54119"  ; level 1 ; orig_coord_info "chr10,70007755,70007836,-"  ; tag exp_conf ; transcript_id "LINC00993--LINC02636^ENST00000427247.1"  ; transcript_name "LINC02636-201"  ; transcript_support_level 3 ; transcript_type lncRNA
LINC00993--LINC02636	HAVANA	RNA	15775	18491	.	+	.	FI_gene_label "LINC02636^ENSG00000224222.2"  ; ID "LINC00993--LINC02636^ENST00000427247.1"  ; Parent "LINC00993--LINC02636^LINC02636^ENSG00000224222.2"  ; exon_id "ENSE00001660604.1"  ; exon_number 1 ; gene_id "LINC00993--LINC02636^LINC02636^ENSG00000224222.2"  ; gene_name LINC02636 ; gene_type lncRNA ; havana_gene "OTTHUMG00000018395.5"  ; havana_transcript "OTTHUMT00000048479.1"  ; hgnc_id "HGNC:54119"  ; level 1 ; orig_coord_info "chr10,70007755,70007836,-"  ; tag exp_conf ; transcript_id "LINC00993--LINC02636^ENST00000427247.1"  ; transcript_name "LINC02636-201"  ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created: 
PIEZO2--AC096719.1	HAVANA	gene	72450	82839	.	+	.	FI_gene_label "AC096719.1^ENSG00000250039.4"  ; ID "PIEZO2--AC096719.1^AC096719.1^ENSG00000250039.4"  ; exon_id "ENSE00002056735.2"  ; exon_number 1 ; gene_id "PIEZO2--AC096719.1^AC096719.1^ENSG00000250039.4"  ; gene_name "AC096719.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000162099.5"  ; havana_transcript "OTTHUMT00000367308.4"  ; level 2 ; orig_coord_info "chr4,21949015,21949459,+"  ; tag dotter_confirmed not_organism_supported basic ; transcript_id "PIEZO2--AC096719.1^ENST00000510705.3"  ; transcript_name "AC096719.1-201"  ; transcript_support_level 5 ; transcript_type lncRNA
PIEZO2--AC096719.1	HAVANA	RNA	72450	82839	.	+	.	FI_gene_label "AC096719.1^ENSG00000250039.4"  ; ID "PIEZO2--AC096719.1^ENST00000510705.3"  ; Parent "PIEZO2--AC096719.1^AC096719.1^ENSG00000250039.4"  ; exon_id "ENSE00002056735.2"  ; exon_number 1 ; gene_id "PIEZO2--AC096719.1^AC096719.1^ENSG00000250039.4"  ; gene_name "AC096719.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000162099.5"  ; havana_transcript "OTTHUMT00000367308.4"  ; level 2 ; orig_coord_info "chr4,21949015,21949459,+"  ; tag dotter_confirmed not_organism_supported basic ; transcript_id "PIEZO2--AC096719.1^ENST00000510705.3"  ; transcript_name "AC096719.1-201"  ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created: 
STAM--AC069545.1	HAVANA	gene	20179	20536	.	+	.	FI_gene_label "AC069545.1^ENSG00000270541.1"  ; ID "STAM--AC069545.1^AC069545.1^ENSG00000270541.1"  ; exon_id "ENSE00003637135.1"  ; exon_number 1 ; gene_id "STAM--AC069545.1^AC069545.1^ENSG00000270541.1"  ; gene_name "AC069545.1"  ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000184650.1"  ; havana_transcript "OTTHUMT00000469026.1"  ; level 1 ; ont "PGO:0000004"  ; orig_coord_info "chr10,55746551,55746908,+"  ; tag pseudo_consens basic ; transcript_id "STAM--AC069545.1^ENST00000605671.1"  ; transcript_name "AC069545.1-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
STAM--AC069545.1	HAVANA	RNA	20179	20536	.	+	.	FI_gene_label "AC069545.1^ENSG00000270541.1"  ; ID "STAM--AC069545.1^ENST00000605671.1"  ; Parent "STAM--AC069545.1^AC069545.1^ENSG00000270541.1"  ; exon_id "ENSE00003637135.1"  ; exon_number 1 ; gene_id "STAM--AC069545.1^AC069545.1^ENSG00000270541.1"  ; gene_name "AC069545.1"  ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000184650.1"  ; havana_transcript "OTTHUMT00000469026.1"  ; level 1 ; ont "PGO:0000004"  ; orig_coord_info "chr10,55746551,55746908,+"  ; tag pseudo_consens basic ; transcript_id "STAM--AC069545.1^ENST00000605671.1"  ; transcript_name "AC069545.1-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created: 
TLK2--AC240565.1	HAVANA	gene	40046	48301	.	+	.	FI_gene_label "AC240565.1^ENSG00000280136.2"  ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2"  ; exon_id "ENSE00003756821.1"  ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2"  ; gene_name "AC240565.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2"  ; havana_transcript "OTTHUMT00000479189.2"  ; level 2 ; orig_coord_info "chr17,118383,118578,-"  ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2"  ; transcript_name "AC240565.1-201"  ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1	HAVANA	RNA	40046	48301	.	+	.	FI_gene_label "AC240565.1^ENSG00000280136.2"  ; ID "TLK2--AC240565.1^ENST00000624936.2"  ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2"  ; exon_id "ENSE00003756821.1"  ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2"  ; gene_name "AC240565.1"  ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2"  ; havana_transcript "OTTHUMT00000479189.2"  ; level 2 ; orig_coord_info "chr17,118383,118578,-"  ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2"  ; transcript_name "AC240565.1-201"  ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created: 
TLK2P1--AC110079.1	HAVANA	gene	1001	4192	.	+	.	FI_gene_label "TLK2P1^ENSG00000226049.3"  ; ID "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3"  ; exon_id "ENSE00002174619.1"  ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3"  ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1"  ; havana_transcript "OTTHUMT00000389700.1"  ; hgnc_id "HGNC:18048"  ; level 1 ; ont "PGO:0000004"  ; orig_coord_info "chr17,34036681,34039872,-"  ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1"  ; transcript_name "TLK2P1-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
TLK2P1--AC110079.1	HAVANA	RNA	1001	4192	.	+	.	FI_gene_label "TLK2P1^ENSG00000226049.3"  ; ID "TLK2P1--AC110079.1^ENST00000530992.1"  ; Parent "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3"  ; exon_id "ENSE00002174619.1"  ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3"  ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1"  ; havana_transcript "OTTHUMT00000389700.1"  ; hgnc_id "HGNC:18048"  ; level 1 ; ont "PGO:0000004"  ; orig_coord_info "chr17,34036681,34039872,-"  ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1"  ; transcript_name "TLK2P1-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created: 
TLK2P1--AC110079.1	HAVANA	gene	7193	19707	.	+	.	FI_gene_label "AC110079.1^ENSG00000260404.3"  ; ID "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3"  ; exon_id "ENSE00002625896.1"  ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3"  ; gene_name "AC110079.1"  ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4"  ; havana_transcript "OTTHUMT00000364170.2"  ; level 2 ; orig_coord_info "chr4,118591773,118591895,+"  ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2"  ; transcript_name "AC110079.1-201"  ; transcript_support_level 5 ; transcript_type processed_transcript
TLK2P1--AC110079.1	HAVANA	RNA	7193	19707	.	+	.	FI_gene_label "AC110079.1^ENSG00000260404.3"  ; ID "TLK2P1--AC110079.1^ENST00000567913.2"  ; Parent "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3"  ; exon_id "ENSE00002625896.1"  ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3"  ; gene_name "AC110079.1"  ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4"  ; havana_transcript "OTTHUMT00000364170.2"  ; level 2 ; orig_coord_info "chr4,118591773,118591895,+"  ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2"  ; transcript_name "AC110079.1-201"  ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created: 
XPNPEP1--AL590623.1	HAVANA	gene	28258	28362	.	+	.	FI_gene_label "AL590623.1^ENSG00000233832.1"  ; ID "XPNPEP1--AL590623.1^AL590623.1^ENSG00000233832.1"  ; exon_id "ENSE00001689096.1"  ; exon_number 1 ; gene_id "XPNPEP1--AL590623.1^AL590623.1^ENSG00000233832.1"  ; gene_name "AL590623.1"  ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018004.1"  ; havana_transcript "OTTHUMT00000047664.1"  ; level 2 ; ont "PGO:0000004"  ; orig_coord_info "chr10,38783004,38783108,+"  ; tag basic ; transcript_id "XPNPEP1--AL590623.1^ENST00000427864.1"  ; transcript_name "AL590623.1-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
XPNPEP1--AL590623.1	HAVANA	RNA	28258	28362	.	+	.	FI_gene_label "AL590623.1^ENSG00000233832.1"  ; ID "XPNPEP1--AL590623.1^ENST00000427864.1"  ; Parent "XPNPEP1--AL590623.1^AL590623.1^ENSG00000233832.1"  ; exon_id "ENSE00001689096.1"  ; exon_number 1 ; gene_id "XPNPEP1--AL590623.1^AL590623.1^ENSG00000233832.1"  ; gene_name "AL590623.1"  ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018004.1"  ; havana_transcript "OTTHUMT00000047664.1"  ; level 2 ; ont "PGO:0000004"  ; orig_coord_info "chr10,38783004,38783108,+"  ; tag basic ; transcript_id "XPNPEP1--AL590623.1^ENST00000427864.1"  ; transcript_name "AL590623.1-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created: 
XPNPEP1--KSR1P1	HAVANA	gene	28258	28497	.	+	.	FI_gene_label "KSR1P1^ENSG00000229485.1"  ; ID "XPNPEP1--KSR1P1^KSR1P1^ENSG00000229485.1"  ; exon_id "ENSE00001668437.1"  ; exon_number 1 ; gene_id "XPNPEP1--KSR1P1^KSR1P1^ENSG00000229485.1"  ; gene_name KSR1P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018006.1"  ; havana_transcript "OTTHUMT00000047666.1"  ; hgnc_id "HGNC:44977"  ; level 2 ; ont "PGO:0000004"  ; orig_coord_info "chr10,42149310,42149549,-"  ; tag basic ; transcript_id "XPNPEP1--KSR1P1^ENST00000446298.1"  ; transcript_name "KSR1P1-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
XPNPEP1--KSR1P1	HAVANA	RNA	28258	28497	.	+	.	FI_gene_label "KSR1P1^ENSG00000229485.1"  ; ID "XPNPEP1--KSR1P1^ENST00000446298.1"  ; Parent "XPNPEP1--KSR1P1^KSR1P1^ENSG00000229485.1"  ; exon_id "ENSE00001668437.1"  ; exon_number 1 ; gene_id "XPNPEP1--KSR1P1^KSR1P1^ENSG00000229485.1"  ; gene_name KSR1P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018006.1"  ; havana_transcript "OTTHUMT00000047666.1"  ; hgnc_id "HGNC:44977"  ; level 2 ; ont "PGO:0000004"  ; orig_coord_info "chr10,42149310,42149549,-"  ; tag basic ; transcript_id "XPNPEP1--KSR1P1^ENST00000446298.1"  ; transcript_name "KSR1P1-201"  ; transcript_support_level NA ; transcript_type processed_pseudogene
420 cases fixed where L3 features have parent feature(s) missing
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--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
------------------------------ done in 0 seconds -------------------------------

--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
------------------------------ 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
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----------------------------- Check10: check utrs ------------------------------
748 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 35 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