Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9a/c90e062175d6d87d61b19e4f7ac22c/fi_workdir/659_bIB-T1-TRNA-1_B23MHV2LT4_1.gtf
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e2/876a8493281a6c06729de401ccb9f9/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e2/876a8493281a6c06729de401ccb9f9/.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: 7714
=> Number of comment lines: 0
=> Fasta included: No
=> Number of features lines: 7714
=> Number of feature type (3rd column): 2
* Level1: 0 =>
* level2: 0 =>
* level3: 2 => CDS exon
* unknown: 0 =>
=>Check because only level3 features:
* Number of feature with Parent attribute:0
* Number of feature with a common attribute:7714
=> 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:
AC015911.9--SLFN12L HAVANA gene 4692 11059 . + . FI_gene_label "SLFN12L^ENSG00000205045.11" ; ID "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; exon_id "ENSE00003850559.1" ; exon_number 2 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; gene_name SLFN12L ; gene_type protein_coding ; havana_gene "OTTHUMG00000193506.1" ; havana_transcript "OTTHUMT00000395748.3" ; hgnc_id "HGNC:33920" ; level 2 ; orig_coord_info "chr17,35479117,35480155,-" ; protein_id "ENSP00000437635.2" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "AC015911.9--SLFN12L^ENST00000260908.12" ; transcript_name "SLFN12L-201" ; transcript_support_level 5 ; transcript_type protein_coding
AC015911.9--SLFN12L HAVANA mRNA 4692 11059 . + . FI_gene_label "SLFN12L^ENSG00000205045.11" ; ID "AC015911.9--SLFN12L^ENST00000260908.12" ; Parent "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; exon_id "ENSE00003850559.1" ; exon_number 2 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000205045.11" ; gene_name SLFN12L ; gene_type protein_coding ; havana_gene "OTTHUMG00000193506.1" ; havana_transcript "OTTHUMT00000395748.3" ; hgnc_id "HGNC:33920" ; level 2 ; orig_coord_info "chr17,35479117,35480155,-" ; protein_id "ENSP00000437635.2" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "AC015911.9--SLFN12L^ENST00000260908.12" ; transcript_name "SLFN12L-201" ; transcript_support_level 5 ; transcript_type protein_coding
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:
ALOX5--AC026884.1 HAVANA gene 1041 14596 . + . FI_gene_label "ALOX5^ENSG00000012779.11" ; ID "ALOX5--AC026884.1^ALOX5^ENSG00000012779.11" ; ccdsid "CCDS7212.1" ; exon_id "ENSE00001728506.3" ; exon_number 1 ; gene_id "ALOX5--AC026884.1^ALOX5^ENSG00000012779.11" ; gene_name ALOX5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018081.4" ; havana_transcript "OTTHUMT00000047780.3" ; hgnc_id "HGNC:435" ; level 2 ; orig_coord_info "chr10,45374280,45374429,+" ; protein_id "ENSP00000363512.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ALOX5--AC026884.1^ENST00000374391.7" ; transcript_name "ALOX5-201" ; transcript_support_level 1 ; transcript_type protein_coding
ALOX5--AC026884.1 HAVANA mRNA 1041 14596 . + . FI_gene_label "ALOX5^ENSG00000012779.11" ; ID "ALOX5--AC026884.1^ENST00000374391.7" ; Parent "ALOX5--AC026884.1^ALOX5^ENSG00000012779.11" ; ccdsid "CCDS7212.1" ; exon_id "ENSE00001728506.3" ; exon_number 1 ; gene_id "ALOX5--AC026884.1^ALOX5^ENSG00000012779.11" ; gene_name ALOX5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018081.4" ; havana_transcript "OTTHUMT00000047780.3" ; hgnc_id "HGNC:435" ; level 2 ; orig_coord_info "chr10,45374280,45374429,+" ; protein_id "ENSP00000363512.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ALOX5--AC026884.1^ENST00000374391.7" ; transcript_name "ALOX5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ALOX5--IPMK HAVANA gene 17599 28691 . + . FI_gene_label "IPMK^ENSG00000151151.6" ; ID "ALOX5--IPMK^IPMK^ENSG00000151151.6" ; ccdsid "CCDS7250.1" ; exon_id "ENSE00001461963.2" ; exon_number 1 ; gene_id "ALOX5--IPMK^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 "ALOX5--IPMK^ENST00000373935.4" ; transcript_name "IPMK-201" ; transcript_support_level 1 ; transcript_type protein_coding
ALOX5--IPMK HAVANA mRNA 17599 28691 . + . FI_gene_label "IPMK^ENSG00000151151.6" ; ID "ALOX5--IPMK^ENST00000373935.4" ; Parent "ALOX5--IPMK^IPMK^ENSG00000151151.6" ; ccdsid "CCDS7250.1" ; exon_id "ENSE00001461963.2" ; exon_number 1 ; gene_id "ALOX5--IPMK^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 "ALOX5--IPMK^ENST00000373935.4" ; transcript_name "IPMK-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ALOX5--IPMK HAVANA gene 1041 14596 . + . FI_gene_label "ALOX5^ENSG00000012779.11" ; ID "ALOX5--IPMK^ALOX5^ENSG00000012779.11" ; ccdsid "CCDS7212.1" ; exon_id "ENSE00001728506.3" ; exon_number 1 ; gene_id "ALOX5--IPMK^ALOX5^ENSG00000012779.11" ; gene_name ALOX5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018081.4" ; havana_transcript "OTTHUMT00000047780.3" ; hgnc_id "HGNC:435" ; level 2 ; orig_coord_info "chr10,45374280,45374429,+" ; protein_id "ENSP00000363512.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ALOX5--IPMK^ENST00000374391.7" ; transcript_name "ALOX5-201" ; transcript_support_level 1 ; transcript_type protein_coding
ALOX5--IPMK HAVANA mRNA 1041 14596 . + . FI_gene_label "ALOX5^ENSG00000012779.11" ; ID "ALOX5--IPMK^ENST00000374391.7" ; Parent "ALOX5--IPMK^ALOX5^ENSG00000012779.11" ; ccdsid "CCDS7212.1" ; exon_id "ENSE00001728506.3" ; exon_number 1 ; gene_id "ALOX5--IPMK^ALOX5^ENSG00000012779.11" ; gene_name ALOX5 ; gene_type protein_coding ; havana_gene "OTTHUMG00000018081.4" ; havana_transcript "OTTHUMT00000047780.3" ; hgnc_id "HGNC:435" ; level 2 ; orig_coord_info "chr10,45374280,45374429,+" ; protein_id "ENSP00000363512.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ALOX5--IPMK^ENST00000374391.7" ; transcript_name "ALOX5-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ARFGEF3--AL590652.1 HAVANA gene 1001 46912 . + . FI_gene_label "ARFGEF3^ENSG00000112379.9" ; ID "ARFGEF3--AL590652.1^ARFGEF3^ENSG00000112379.9" ; ccdsid "CCDS5189.2" ; exon_id "ENSE00001813154.2" ; exon_number 1 ; gene_id "ARFGEF3--AL590652.1^ARFGEF3^ENSG00000112379.9" ; gene_name ARFGEF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015670.5" ; havana_transcript "OTTHUMT00000042425.5" ; hgnc_id "HGNC:21213" ; level 2 ; orig_coord_info "chr6,138162087,138162171,+" ; protein_id "ENSP00000251691.4" ; tag not_organism_supported basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARFGEF3--AL590652.1^ENST00000251691.5" ; transcript_name "ARFGEF3-201" ; transcript_support_level 1 ; transcript_type protein_coding
ARFGEF3--AL590652.1 HAVANA mRNA 1001 46912 . + . FI_gene_label "ARFGEF3^ENSG00000112379.9" ; ID "ARFGEF3--AL590652.1^ENST00000251691.5" ; Parent "ARFGEF3--AL590652.1^ARFGEF3^ENSG00000112379.9" ; ccdsid "CCDS5189.2" ; exon_id "ENSE00001813154.2" ; exon_number 1 ; gene_id "ARFGEF3--AL590652.1^ARFGEF3^ENSG00000112379.9" ; gene_name ARFGEF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015670.5" ; havana_transcript "OTTHUMT00000042425.5" ; hgnc_id "HGNC:21213" ; level 2 ; orig_coord_info "chr6,138162087,138162171,+" ; protein_id "ENSP00000251691.4" ; tag not_organism_supported basic MANE_Select appris_principal_1 CCDS ; transcript_id "ARFGEF3--AL590652.1^ENST00000251691.5" ; transcript_name "ARFGEF3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CARMIL1--AL356534.1 HAVANA gene 1297 44153 . + . FI_gene_label "CARMIL1^ENSG00000079691.18" ; ID "CARMIL1--AL356534.1^CARMIL1^ENSG00000079691.18" ; ccdsid "CCDS54973.1" ; exon_id "ENSE00001836916.2" ; exon_number 1 ; gene_id "CARMIL1--AL356534.1^CARMIL1^ENSG00000079691.18" ; gene_name CARMIL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014393.6" ; havana_transcript "OTTHUMT00000040045.3" ; hgnc_id "HGNC:21581" ; level 1 ; orig_coord_info "chr6,25279796,25279835,+" ; protein_id "ENSP00000331983.6" ; tag basic MANE_Select appris_principal_1 exp_conf CCDS ; transcript_id "CARMIL1--AL356534.1^ENST00000329474.7" ; transcript_name "CARMIL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
CARMIL1--AL356534.1 HAVANA mRNA 1297 44153 . + . FI_gene_label "CARMIL1^ENSG00000079691.18" ; ID "CARMIL1--AL356534.1^ENST00000329474.7" ; Parent "CARMIL1--AL356534.1^CARMIL1^ENSG00000079691.18" ; ccdsid "CCDS54973.1" ; exon_id "ENSE00001836916.2" ; exon_number 1 ; gene_id "CARMIL1--AL356534.1^CARMIL1^ENSG00000079691.18" ; gene_name CARMIL1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014393.6" ; havana_transcript "OTTHUMT00000040045.3" ; hgnc_id "HGNC:21581" ; level 1 ; orig_coord_info "chr6,25279796,25279835,+" ; protein_id "ENSP00000331983.6" ; tag basic MANE_Select appris_principal_1 exp_conf CCDS ; transcript_id "CARMIL1--AL356534.1^ENST00000329474.7" ; transcript_name "CARMIL1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CD2AP--FILNC1 HAVANA gene 1001 24114 . + . FI_gene_label "CD2AP^ENSG00000198087.7" ; ID "CD2AP--FILNC1^CD2AP^ENSG00000198087.7" ; ccdsid "CCDS34472.1" ; exon_id "ENSE00001516297.1" ; exon_number 1 ; gene_id "CD2AP--FILNC1^CD2AP^ENSG00000198087.7" ; gene_name CD2AP ; gene_type protein_coding ; havana_gene "OTTHUMG00000014799.2" ; havana_transcript "OTTHUMT00000040817.2" ; hgnc_id "HGNC:14258" ; level 2 ; orig_coord_info "chr6,47478245,47478248,+" ; protein_id "ENSP00000352264.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CD2AP--FILNC1^ENST00000359314.5" ; transcript_name "CD2AP-201" ; transcript_support_level 1 ; transcript_type protein_coding
CD2AP--FILNC1 HAVANA mRNA 1001 24114 . + . FI_gene_label "CD2AP^ENSG00000198087.7" ; ID "CD2AP--FILNC1^ENST00000359314.5" ; Parent "CD2AP--FILNC1^CD2AP^ENSG00000198087.7" ; ccdsid "CCDS34472.1" ; exon_id "ENSE00001516297.1" ; exon_number 1 ; gene_id "CD2AP--FILNC1^CD2AP^ENSG00000198087.7" ; gene_name CD2AP ; gene_type protein_coding ; havana_gene "OTTHUMG00000014799.2" ; havana_transcript "OTTHUMT00000040817.2" ; hgnc_id "HGNC:14258" ; level 2 ; orig_coord_info "chr6,47478245,47478248,+" ; protein_id "ENSP00000352264.5" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "CD2AP--FILNC1^ENST00000359314.5" ; transcript_name "CD2AP-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
CUL9--AL592429.2 HAVANA gene 1013 27444 . + . FI_gene_label "CUL9^ENSG00000112659.14" ; ID "CUL9--AL592429.2^CUL9^ENSG00000112659.14" ; ccdsid "CCDS4890.1" ; exon_id "ENSE00003564869.1" ; exon_number 2 ; gene_id "CUL9--AL592429.2^CUL9^ENSG00000112659.14" ; gene_name CUL9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014723.4" ; havana_transcript "OTTHUMT00000040582.4" ; hgnc_id "HGNC:15982" ; level 2 ; orig_coord_info "chr6,43184311,43184905,+" ; protein_id "ENSP00000252050.4" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "CUL9--AL592429.2^ENST00000252050.9" ; transcript_name "CUL9-201" ; transcript_support_level 5 ; transcript_type protein_coding
CUL9--AL592429.2 HAVANA mRNA 1013 27444 . + . FI_gene_label "CUL9^ENSG00000112659.14" ; ID "CUL9--AL592429.2^ENST00000252050.9" ; Parent "CUL9--AL592429.2^CUL9^ENSG00000112659.14" ; ccdsid "CCDS4890.1" ; exon_id "ENSE00003564869.1" ; exon_number 2 ; gene_id "CUL9--AL592429.2^CUL9^ENSG00000112659.14" ; gene_name CUL9 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014723.4" ; havana_transcript "OTTHUMT00000040582.4" ; hgnc_id "HGNC:15982" ; level 2 ; orig_coord_info "chr6,43184311,43184905,+" ; protein_id "ENSP00000252050.4" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "CUL9--AL592429.2^ENST00000252050.9" ; transcript_name "CUL9-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
GTF2A1L--STON1-GTF2A1L HAVANA gene 1059 10137 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
GTF2A1L--STON1-GTF2A1L HAVANA mRNA 1059 10137 . + . FI_gene_label "GTF2A1L^ENSG00000242441.8" ; ID "GTF2A1L--STON1-GTF2A1L^ENST00000403751.8" ; Parent "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; ccdsid "CCDS46281.1" ; exon_id "ENSE00001939761.2" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^GTF2A1L^ENSG00000242441.8" ; gene_name GTF2A1L ; gene_type protein_coding ; havana_gene "OTTHUMG00000152038.17" ; havana_transcript "OTTHUMT00000323852.5" ; hgnc_id "HGNC:30727" ; level 2 ; orig_coord_info "chr2,48617875,48617895,+" ; protein_id "ENSP00000384597.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000403751.8" ; transcript_name "GTF2A1L-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HAS3--CYB5B HAVANA gene 1605 10958 . + . FI_gene_label "HAS3^ENSG00000103044.11" ; ID "HAS3--CYB5B^HAS3^ENSG00000103044.11" ; ccdsid "CCDS10870.1" ; exon_id "ENSE00001785957.1" ; exon_number 2 ; gene_id "HAS3--CYB5B^HAS3^ENSG00000103044.11" ; gene_name HAS3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137562.4" ; havana_transcript "OTTHUMT00000268899.1" ; hgnc_id "HGNC:4820" ; level 2 ; orig_coord_info "chr16,69109396,69110031,+" ; protein_id "ENSP00000219322.3" ; tag basic CCDS ; transcript_id "HAS3--CYB5B^ENST00000219322.7" ; transcript_name "HAS3-201" ; transcript_support_level 1 ; transcript_type protein_coding
HAS3--CYB5B HAVANA mRNA 1605 10958 . + . FI_gene_label "HAS3^ENSG00000103044.11" ; ID "HAS3--CYB5B^ENST00000219322.7" ; Parent "HAS3--CYB5B^HAS3^ENSG00000103044.11" ; ccdsid "CCDS10870.1" ; exon_id "ENSE00001785957.1" ; exon_number 2 ; gene_id "HAS3--CYB5B^HAS3^ENSG00000103044.11" ; gene_name HAS3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000137562.4" ; havana_transcript "OTTHUMT00000268899.1" ; hgnc_id "HGNC:4820" ; level 2 ; orig_coord_info "chr16,69109396,69110031,+" ; protein_id "ENSP00000219322.3" ; tag basic CCDS ; transcript_id "HAS3--CYB5B^ENST00000219322.7" ; transcript_name "HAS3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HAS3--CYB5B HAVANA gene 13959 24601 . + . FI_gene_label "CYB5B^ENSG00000103018.17" ; ID "HAS3--CYB5B^CYB5B^ENSG00000103018.17" ; ccdsid "CCDS10880.2" ; exon_id "ENSE00002322000.2" ; exon_number 1 ; gene_id "HAS3--CYB5B^CYB5B^ENSG00000103018.17" ; gene_name CYB5B ; gene_type protein_coding ; havana_gene "OTTHUMG00000133020.7" ; havana_transcript "OTTHUMT00000256606.3" ; hgnc_id "HGNC:24374" ; level 2 ; orig_coord_info "chr16,69424684,69424857,+" ; protein_id "ENSP00000308430.8" ; tag downstream_ATG basic MANE_Select appris_principal_1 CCDS ; transcript_id "HAS3--CYB5B^ENST00000307892.13" ; transcript_name "CYB5B-201" ; transcript_support_level 1 ; transcript_type protein_coding
HAS3--CYB5B HAVANA mRNA 13959 24601 . + . FI_gene_label "CYB5B^ENSG00000103018.17" ; ID "HAS3--CYB5B^ENST00000307892.13" ; Parent "HAS3--CYB5B^CYB5B^ENSG00000103018.17" ; ccdsid "CCDS10880.2" ; exon_id "ENSE00002322000.2" ; exon_number 1 ; gene_id "HAS3--CYB5B^CYB5B^ENSG00000103018.17" ; gene_name CYB5B ; gene_type protein_coding ; havana_gene "OTTHUMG00000133020.7" ; havana_transcript "OTTHUMT00000256606.3" ; hgnc_id "HGNC:24374" ; level 2 ; orig_coord_info "chr16,69424684,69424857,+" ; protein_id "ENSP00000308430.8" ; tag downstream_ATG basic MANE_Select appris_principal_1 CCDS ; transcript_id "HAS3--CYB5B^ENST00000307892.13" ; transcript_name "CYB5B-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
HECA--UTRN HAVANA gene 83942 92129 . + . FI_gene_label "UTRN^ENSG00000152818.18" ; ID "HECA--UTRN^UTRN^ENSG00000152818.18" ; exon_id "ENSE00002458940.1" ; exon_number 1 ; gene_id "HECA--UTRN^UTRN^ENSG00000152818.18" ; gene_name UTRN ; gene_type protein_coding ; havana_gene "OTTHUMG00000015746.6" ; havana_transcript "OTTHUMT00000042557.2" ; hgnc_id "HGNC:12635" ; level 2 ; orig_coord_info "chr6,144789229,144789279,+" ; protein_id "ENSP00000356494.3" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "HECA--UTRN^ENST00000367524.7" ; transcript_name "UTRN-201" ; transcript_support_level 3 ; transcript_type protein_coding
HECA--UTRN HAVANA mRNA 83942 92129 . + . FI_gene_label "UTRN^ENSG00000152818.18" ; ID "HECA--UTRN^ENST00000367524.7" ; Parent "HECA--UTRN^UTRN^ENSG00000152818.18" ; exon_id "ENSE00002458940.1" ; exon_number 1 ; gene_id "HECA--UTRN^UTRN^ENSG00000152818.18" ; gene_name UTRN ; gene_type protein_coding ; havana_gene "OTTHUMG00000015746.6" ; havana_transcript "OTTHUMT00000042557.2" ; hgnc_id "HGNC:12635" ; level 2 ; orig_coord_info "chr6,144789229,144789279,+" ; protein_id "ENSP00000356494.3" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "HECA--UTRN^ENST00000367524.7" ; transcript_name "UTRN-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
HECA--UTRN HAVANA gene 1001 9646 . + . FI_gene_label "HECA^ENSG00000112406.5" ; ID "HECA--UTRN^HECA^ENSG00000112406.5" ; ccdsid "CCDS5194.1" ; exon_id "ENSE00001445283.2" ; exon_number 1 ; gene_id "HECA--UTRN^HECA^ENSG00000112406.5" ; gene_name HECA ; gene_type protein_coding ; havana_gene "OTTHUMG00000015686.2" ; havana_transcript "OTTHUMT00000042456.2" ; hgnc_id "HGNC:21041" ; level 2 ; orig_coord_info "chr6,139135397,139135667,+" ; protein_id "ENSP00000356630.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HECA--UTRN^ENST00000367658.3" ; transcript_name "HECA-201" ; transcript_support_level 1 ; transcript_type protein_coding
HECA--UTRN HAVANA mRNA 1001 9646 . + . FI_gene_label "HECA^ENSG00000112406.5" ; ID "HECA--UTRN^ENST00000367658.3" ; Parent "HECA--UTRN^HECA^ENSG00000112406.5" ; ccdsid "CCDS5194.1" ; exon_id "ENSE00001445283.2" ; exon_number 1 ; gene_id "HECA--UTRN^HECA^ENSG00000112406.5" ; gene_name HECA ; gene_type protein_coding ; havana_gene "OTTHUMG00000015686.2" ; havana_transcript "OTTHUMT00000042456.2" ; hgnc_id "HGNC:21041" ; level 2 ; orig_coord_info "chr6,139135397,139135667,+" ; protein_id "ENSP00000356630.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "HECA--UTRN^ENST00000367658.3" ; transcript_name "HECA-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
LINC00271--ALDH5A1 HAVANA gene 33003 47737 . + . FI_gene_label "ALDH5A1^ENSG00000112294.14" ; ID "LINC00271--ALDH5A1^ALDH5A1^ENSG00000112294.14" ; ccdsid "CCDS4556.1" ; exon_id "ENSE00000928795.1" ; exon_number 1 ; gene_id "LINC00271--ALDH5A1^ALDH5A1^ENSG00000112294.14" ; gene_name ALDH5A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014356.5" ; havana_transcript "OTTHUMT00000353913.1" ; hgnc_id "HGNC:408" ; level 2 ; orig_coord_info "chr6,24494997,24495350,+" ; protein_id "ENSP00000314649.3" ; tag basic CCDS ; transcript_id "LINC00271--ALDH5A1^ENST00000348925.2" ; transcript_name "ALDH5A1-201" ; transcript_support_level 1 ; transcript_type protein_coding
LINC00271--ALDH5A1 HAVANA mRNA 33003 47737 . + . FI_gene_label "ALDH5A1^ENSG00000112294.14" ; ID "LINC00271--ALDH5A1^ENST00000348925.2" ; Parent "LINC00271--ALDH5A1^ALDH5A1^ENSG00000112294.14" ; ccdsid "CCDS4556.1" ; exon_id "ENSE00000928795.1" ; exon_number 1 ; gene_id "LINC00271--ALDH5A1^ALDH5A1^ENSG00000112294.14" ; gene_name ALDH5A1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014356.5" ; havana_transcript "OTTHUMT00000353913.1" ; hgnc_id "HGNC:408" ; level 2 ; orig_coord_info "chr6,24494997,24495350,+" ; protein_id "ENSP00000314649.3" ; tag basic CCDS ; transcript_id "LINC00271--ALDH5A1^ENST00000348925.2" ; transcript_name "ALDH5A1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NFYA--KIAA0408 HAVANA gene 1001 13304 . + . FI_gene_label "NFYA^ENSG00000001167.14" ; ID "NFYA--KIAA0408^NFYA^ENSG00000001167.14" ; ccdsid "CCDS4849.1" ; exon_id "ENSE00000849858.1" ; exon_number 2 ; gene_id "NFYA--KIAA0408^NFYA^ENSG00000001167.14" ; gene_name NFYA ; gene_type protein_coding ; havana_gene "OTTHUMG00000014669.1" ; havana_transcript "OTTHUMT00000040496.1" ; hgnc_id "HGNC:7804" ; level 2 ; orig_coord_info "chr6,41079090,41079164,+" ; protein_id "ENSP00000345702.6" ; tag basic appris_principal_4 CCDS ; transcript_id "NFYA--KIAA0408^ENST00000341376.10" ; transcript_name "NFYA-201" ; transcript_support_level 1 ; transcript_type protein_coding
NFYA--KIAA0408 HAVANA mRNA 1001 13304 . + . FI_gene_label "NFYA^ENSG00000001167.14" ; ID "NFYA--KIAA0408^ENST00000341376.10" ; Parent "NFYA--KIAA0408^NFYA^ENSG00000001167.14" ; ccdsid "CCDS4849.1" ; exon_id "ENSE00000849858.1" ; exon_number 2 ; gene_id "NFYA--KIAA0408^NFYA^ENSG00000001167.14" ; gene_name NFYA ; gene_type protein_coding ; havana_gene "OTTHUMG00000014669.1" ; havana_transcript "OTTHUMT00000040496.1" ; hgnc_id "HGNC:7804" ; level 2 ; orig_coord_info "chr6,41079090,41079164,+" ; protein_id "ENSP00000345702.6" ; tag basic appris_principal_4 CCDS ; transcript_id "NFYA--KIAA0408^ENST00000341376.10" ; transcript_name "NFYA-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NFYA--KIAA0408 HAVANA gene 22067 26979 . + . FI_gene_label "KIAA0408^ENSG00000189367.15" ; ID "NFYA--KIAA0408^KIAA0408^ENSG00000189367.15" ; exon_id "ENSE00001831610.2" ; exon_number 1 ; gene_id "NFYA--KIAA0408^KIAA0408^ENSG00000189367.15" ; gene_name KIAA0408 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166439.4" ; havana_transcript "OTTHUMT00000042140.2" ; hgnc_id "HGNC:21636" ; level 1 ; orig_coord_info "chr6,127446872,127447085,-" ; protein_id "ENSP00000436178.1" ; tag mRNA_start_NF cds_start_NF exp_conf ; transcript_id "NFYA--KIAA0408^ENST00000465254.2" ; transcript_name "KIAA0408-202" ; transcript_support_level 2 ; transcript_type protein_coding
NFYA--KIAA0408 HAVANA mRNA 22067 26979 . + . FI_gene_label "KIAA0408^ENSG00000189367.15" ; ID "NFYA--KIAA0408^ENST00000465254.2" ; Parent "NFYA--KIAA0408^KIAA0408^ENSG00000189367.15" ; exon_id "ENSE00001831610.2" ; exon_number 1 ; gene_id "NFYA--KIAA0408^KIAA0408^ENSG00000189367.15" ; gene_name KIAA0408 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166439.4" ; havana_transcript "OTTHUMT00000042140.2" ; hgnc_id "HGNC:21636" ; level 1 ; orig_coord_info "chr6,127446872,127447085,-" ; protein_id "ENSP00000436178.1" ; tag mRNA_start_NF cds_start_NF exp_conf ; transcript_id "NFYA--KIAA0408^ENST00000465254.2" ; transcript_name "KIAA0408-202" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
NFYA--SOGA3 HAVANA gene 1001 13304 . + . FI_gene_label "NFYA^ENSG00000001167.14" ; ID "NFYA--SOGA3^NFYA^ENSG00000001167.14" ; ccdsid "CCDS4849.1" ; exon_id "ENSE00000849858.1" ; exon_number 2 ; gene_id "NFYA--SOGA3^NFYA^ENSG00000001167.14" ; gene_name NFYA ; gene_type protein_coding ; havana_gene "OTTHUMG00000014669.1" ; havana_transcript "OTTHUMT00000040496.1" ; hgnc_id "HGNC:7804" ; level 2 ; orig_coord_info "chr6,41079090,41079164,+" ; protein_id "ENSP00000345702.6" ; tag basic appris_principal_4 CCDS ; transcript_id "NFYA--SOGA3^ENST00000341376.10" ; transcript_name "NFYA-201" ; transcript_support_level 1 ; transcript_type protein_coding
NFYA--SOGA3 HAVANA mRNA 1001 13304 . + . FI_gene_label "NFYA^ENSG00000001167.14" ; ID "NFYA--SOGA3^ENST00000341376.10" ; Parent "NFYA--SOGA3^NFYA^ENSG00000001167.14" ; ccdsid "CCDS4849.1" ; exon_id "ENSE00000849858.1" ; exon_number 2 ; gene_id "NFYA--SOGA3^NFYA^ENSG00000001167.14" ; gene_name NFYA ; gene_type protein_coding ; havana_gene "OTTHUMG00000014669.1" ; havana_transcript "OTTHUMT00000040496.1" ; hgnc_id "HGNC:7804" ; level 2 ; orig_coord_info "chr6,41079090,41079164,+" ; protein_id "ENSP00000345702.6" ; tag basic appris_principal_4 CCDS ; transcript_id "NFYA--SOGA3^ENST00000341376.10" ; transcript_name "NFYA-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
NFYA--SOGA3 HAVANA gene 16605 26666 . + . FI_gene_label "SOGA3^ENSG00000214338.10" ; ID "NFYA--SOGA3^SOGA3^ENSG00000214338.10" ; exon_id "ENSE00003609368.1" ; exon_number 2 ; gene_id "NFYA--SOGA3^SOGA3^ENSG00000214338.10" ; gene_name SOGA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166438.2" ; havana_transcript "OTTHUMT00000388286.1" ; hgnc_id "HGNC:21494" ; level 2 ; orig_coord_info "chr6,127515514,127516614,-" ; protein_id "ENSP00000435559.1" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "NFYA--SOGA3^ENST00000465909.2" ; transcript_name "SOGA3-201" ; transcript_support_level 5 ; transcript_type protein_coding
NFYA--SOGA3 HAVANA mRNA 16605 26666 . + . FI_gene_label "SOGA3^ENSG00000214338.10" ; ID "NFYA--SOGA3^ENST00000465909.2" ; Parent "NFYA--SOGA3^SOGA3^ENSG00000214338.10" ; exon_id "ENSE00003609368.1" ; exon_number 2 ; gene_id "NFYA--SOGA3^SOGA3^ENSG00000214338.10" ; gene_name SOGA3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166438.2" ; havana_transcript "OTTHUMT00000388286.1" ; hgnc_id "HGNC:21494" ; level 2 ; orig_coord_info "chr6,127515514,127516614,-" ; protein_id "ENSP00000435559.1" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "NFYA--SOGA3^ENST00000465909.2" ; transcript_name "SOGA3-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PHF3--ADGRF2 HAVANA gene 1001 34974 . + . FI_gene_label "PHF3^ENSG00000118482.12" ; ID "PHF3--ADGRF2^PHF3^ENSG00000118482.12" ; ccdsid "CCDS4966.1" ; exon_id "ENSE00000757689.2" ; exon_number 2 ; gene_id "PHF3--ADGRF2^PHF3^ENSG00000118482.12" ; gene_name PHF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014952.3" ; havana_transcript "OTTHUMT00000041086.2" ; hgnc_id "HGNC:8921" ; level 2 ; orig_coord_info "chr6,63646552,63646795,+" ; protein_id "ENSP00000262043.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PHF3--ADGRF2^ENST00000262043.8" ; transcript_name "PHF3-201" ; transcript_support_level 5 ; transcript_type protein_coding
PHF3--ADGRF2 HAVANA mRNA 1001 34974 . + . FI_gene_label "PHF3^ENSG00000118482.12" ; ID "PHF3--ADGRF2^ENST00000262043.8" ; Parent "PHF3--ADGRF2^PHF3^ENSG00000118482.12" ; ccdsid "CCDS4966.1" ; exon_id "ENSE00000757689.2" ; exon_number 2 ; gene_id "PHF3--ADGRF2^PHF3^ENSG00000118482.12" ; gene_name PHF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014952.3" ; havana_transcript "OTTHUMT00000041086.2" ; hgnc_id "HGNC:8921" ; level 2 ; orig_coord_info "chr6,63646552,63646795,+" ; protein_id "ENSP00000262043.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PHF3--ADGRF2^ENST00000262043.8" ; transcript_name "PHF3-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PHF3--ADGRF2 HAVANA gene 40758 50168 . + . FI_gene_label "ADGRF2^ENSG00000164393.8" ; ID "PHF3--ADGRF2^ADGRF2^ENSG00000164393.8" ; exon_id "ENSE00001219061.2" ; exon_number 1 ; gene_id "PHF3--ADGRF2^ADGRF2^ENSG00000164393.8" ; gene_name ADGRF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000046168.4" ; havana_transcript "OTTHUMT00000106423.3" ; hgnc_id "HGNC:18991" ; level 2 ; orig_coord_info "chr6,47656487,47656594,+" ; protein_id "ENSP00000296862.1" ; tag basic ; transcript_id "PHF3--ADGRF2^ENST00000296862.5" ; transcript_name "ADGRF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PHF3--ADGRF2 HAVANA mRNA 40758 50168 . + . FI_gene_label "ADGRF2^ENSG00000164393.8" ; ID "PHF3--ADGRF2^ENST00000296862.5" ; Parent "PHF3--ADGRF2^ADGRF2^ENSG00000164393.8" ; exon_id "ENSE00001219061.2" ; exon_number 1 ; gene_id "PHF3--ADGRF2^ADGRF2^ENSG00000164393.8" ; gene_name ADGRF2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000046168.4" ; havana_transcript "OTTHUMT00000106423.3" ; hgnc_id "HGNC:18991" ; level 2 ; orig_coord_info "chr6,47656487,47656594,+" ; protein_id "ENSP00000296862.1" ; tag basic ; transcript_id "PHF3--ADGRF2^ENST00000296862.5" ; transcript_name "ADGRF2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PHF3--KIAA0408 HAVANA gene 1001 34974 . + . FI_gene_label "PHF3^ENSG00000118482.12" ; ID "PHF3--KIAA0408^PHF3^ENSG00000118482.12" ; ccdsid "CCDS4966.1" ; exon_id "ENSE00000757689.2" ; exon_number 2 ; gene_id "PHF3--KIAA0408^PHF3^ENSG00000118482.12" ; gene_name PHF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014952.3" ; havana_transcript "OTTHUMT00000041086.2" ; hgnc_id "HGNC:8921" ; level 2 ; orig_coord_info "chr6,63646552,63646795,+" ; protein_id "ENSP00000262043.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PHF3--KIAA0408^ENST00000262043.8" ; transcript_name "PHF3-201" ; transcript_support_level 5 ; transcript_type protein_coding
PHF3--KIAA0408 HAVANA mRNA 1001 34974 . + . FI_gene_label "PHF3^ENSG00000118482.12" ; ID "PHF3--KIAA0408^ENST00000262043.8" ; Parent "PHF3--KIAA0408^PHF3^ENSG00000118482.12" ; ccdsid "CCDS4966.1" ; exon_id "ENSE00000757689.2" ; exon_number 2 ; gene_id "PHF3--KIAA0408^PHF3^ENSG00000118482.12" ; gene_name PHF3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014952.3" ; havana_transcript "OTTHUMT00000041086.2" ; hgnc_id "HGNC:8921" ; level 2 ; orig_coord_info "chr6,63646552,63646795,+" ; protein_id "ENSP00000262043.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PHF3--KIAA0408^ENST00000262043.8" ; transcript_name "PHF3-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PHF3--KIAA0408 HAVANA gene 46469 51381 . + . FI_gene_label "KIAA0408^ENSG00000189367.15" ; ID "PHF3--KIAA0408^KIAA0408^ENSG00000189367.15" ; exon_id "ENSE00001831610.2" ; exon_number 1 ; gene_id "PHF3--KIAA0408^KIAA0408^ENSG00000189367.15" ; gene_name KIAA0408 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166439.4" ; havana_transcript "OTTHUMT00000042140.2" ; hgnc_id "HGNC:21636" ; level 1 ; orig_coord_info "chr6,127446872,127447085,-" ; protein_id "ENSP00000436178.1" ; tag mRNA_start_NF cds_start_NF exp_conf ; transcript_id "PHF3--KIAA0408^ENST00000465254.2" ; transcript_name "KIAA0408-202" ; transcript_support_level 2 ; transcript_type protein_coding
PHF3--KIAA0408 HAVANA mRNA 46469 51381 . + . FI_gene_label "KIAA0408^ENSG00000189367.15" ; ID "PHF3--KIAA0408^ENST00000465254.2" ; Parent "PHF3--KIAA0408^KIAA0408^ENSG00000189367.15" ; exon_id "ENSE00001831610.2" ; exon_number 1 ; gene_id "PHF3--KIAA0408^KIAA0408^ENSG00000189367.15" ; gene_name KIAA0408 ; gene_type protein_coding ; havana_gene "OTTHUMG00000166439.4" ; havana_transcript "OTTHUMT00000042140.2" ; hgnc_id "HGNC:21636" ; level 1 ; orig_coord_info "chr6,127446872,127447085,-" ; protein_id "ENSP00000436178.1" ; tag mRNA_start_NF cds_start_NF exp_conf ; transcript_id "PHF3--KIAA0408^ENST00000465254.2" ; transcript_name "KIAA0408-202" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
PPFIBP1--TRERF1 HAVANA gene 1776 39735 . + . FI_gene_label "PPFIBP1^ENSG00000110841.14" ; ID "PPFIBP1--TRERF1^PPFIBP1^ENSG00000110841.14" ; ccdsid "CCDS8713.1" ; exon_id "ENSE00003554147.1" ; exon_number 3 ; gene_id "PPFIBP1--TRERF1^PPFIBP1^ENSG00000110841.14" ; gene_name PPFIBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169207.3" ; havana_transcript "OTTHUMT00000402880.1" ; hgnc_id "HGNC:9249" ; level 2 ; orig_coord_info "chr12,27633397,27633460,+" ; protein_id "ENSP00000228425.6" ; tag basic MANE_Select appris_principal_3 CCDS ; transcript_id "PPFIBP1--TRERF1^ENST00000228425.11" ; transcript_name "PPFIBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
PPFIBP1--TRERF1 HAVANA mRNA 1776 39735 . + . FI_gene_label "PPFIBP1^ENSG00000110841.14" ; ID "PPFIBP1--TRERF1^ENST00000228425.11" ; Parent "PPFIBP1--TRERF1^PPFIBP1^ENSG00000110841.14" ; ccdsid "CCDS8713.1" ; exon_id "ENSE00003554147.1" ; exon_number 3 ; gene_id "PPFIBP1--TRERF1^PPFIBP1^ENSG00000110841.14" ; gene_name PPFIBP1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000169207.3" ; havana_transcript "OTTHUMT00000402880.1" ; hgnc_id "HGNC:9249" ; level 2 ; orig_coord_info "chr12,27633397,27633460,+" ; protein_id "ENSP00000228425.6" ; tag basic MANE_Select appris_principal_3 CCDS ; transcript_id "PPFIBP1--TRERF1^ENST00000228425.11" ; transcript_name "PPFIBP1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PPFIBP1--TRERF1 HAVANA gene 43526 63035 . + . FI_gene_label "TRERF1^ENSG00000124496.12" ; ID "PPFIBP1--TRERF1^TRERF1^ENSG00000124496.12" ; exon_id "ENSE00001190134.5" ; exon_number 4 ; gene_id "PPFIBP1--TRERF1^TRERF1^ENSG00000124496.12" ; gene_name TRERF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014698.2" ; havana_transcript "OTTHUMT00000040552.2" ; hgnc_id "HGNC:18273" ; level 2 ; orig_coord_info "chr6,42268154,42269590,-" ; protein_id "ENSP00000339438.2" ; tag basic ; transcript_id "PPFIBP1--TRERF1^ENST00000340840.6" ; transcript_name "TRERF1-201" ; transcript_support_level 5 ; transcript_type protein_coding
PPFIBP1--TRERF1 HAVANA mRNA 43526 63035 . + . FI_gene_label "TRERF1^ENSG00000124496.12" ; ID "PPFIBP1--TRERF1^ENST00000340840.6" ; Parent "PPFIBP1--TRERF1^TRERF1^ENSG00000124496.12" ; exon_id "ENSE00001190134.5" ; exon_number 4 ; gene_id "PPFIBP1--TRERF1^TRERF1^ENSG00000124496.12" ; gene_name TRERF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014698.2" ; havana_transcript "OTTHUMT00000040552.2" ; hgnc_id "HGNC:18273" ; level 2 ; orig_coord_info "chr6,42268154,42269590,-" ; protein_id "ENSP00000339438.2" ; tag basic ; transcript_id "PPFIBP1--TRERF1^ENST00000340840.6" ; transcript_name "TRERF1-201" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PRSS27--TPSB2 HAVANA gene 1328 8540 . + . FI_gene_label "PRSS27^ENSG00000172382.10" ; ID "PRSS27--TPSB2^PRSS27^ENSG00000172382.10" ; ccdsid "CCDS10476.1" ; exon_id "ENSE00001215985.4" ; exon_number 1 ; gene_id "PRSS27--TPSB2^PRSS27^ENSG00000172382.10" ; gene_name PRSS27 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128929.3" ; havana_transcript "OTTHUMT00000250908.2" ; hgnc_id "HGNC:15475" ; level 2 ; orig_coord_info "chr16,2720115,2720160,-" ; protein_id "ENSP00000306390.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRSS27--TPSB2^ENST00000302641.8" ; transcript_name "PRSS27-201" ; transcript_support_level 1 ; transcript_type protein_coding
PRSS27--TPSB2 HAVANA mRNA 1328 8540 . + . FI_gene_label "PRSS27^ENSG00000172382.10" ; ID "PRSS27--TPSB2^ENST00000302641.8" ; Parent "PRSS27--TPSB2^PRSS27^ENSG00000172382.10" ; ccdsid "CCDS10476.1" ; exon_id "ENSE00001215985.4" ; exon_number 1 ; gene_id "PRSS27--TPSB2^PRSS27^ENSG00000172382.10" ; gene_name PRSS27 ; gene_type protein_coding ; havana_gene "OTTHUMG00000128929.3" ; havana_transcript "OTTHUMT00000250908.2" ; hgnc_id "HGNC:15475" ; level 2 ; orig_coord_info "chr16,2720115,2720160,-" ; protein_id "ENSP00000306390.3" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "PRSS27--TPSB2^ENST00000302641.8" ; transcript_name "PRSS27-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PRSS27--TPSB2 HAVANA gene 11544 13392 . + . FI_gene_label "TPSB2^ENSG00000197253.13" ; ID "PRSS27--TPSB2^TPSB2^ENSG00000197253.13" ; exon_id "ENSE00003747406.1" ; exon_number 2 ; gene_id "PRSS27--TPSB2^TPSB2^ENSG00000197253.13" ; gene_name TPSB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155926.4" ; havana_transcript "OTTHUMT00000342363.2" ; hgnc_id "HGNC:14120" ; level 2 ; orig_coord_info "chr16,1229891,1229951,-" ; protein_id "ENSP00000482743.1" ; tag basic MANE_Select appris_principal_4 ; transcript_id "PRSS27--TPSB2^ENST00000606293.5" ; transcript_name "TPSB2-201" ; transcript_support_level 1 ; transcript_type protein_coding
PRSS27--TPSB2 HAVANA mRNA 11544 13392 . + . FI_gene_label "TPSB2^ENSG00000197253.13" ; ID "PRSS27--TPSB2^ENST00000606293.5" ; Parent "PRSS27--TPSB2^TPSB2^ENSG00000197253.13" ; exon_id "ENSE00003747406.1" ; exon_number 2 ; gene_id "PRSS27--TPSB2^TPSB2^ENSG00000197253.13" ; gene_name TPSB2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000155926.4" ; havana_transcript "OTTHUMT00000342363.2" ; hgnc_id "HGNC:14120" ; level 2 ; orig_coord_info "chr16,1229891,1229951,-" ; protein_id "ENSP00000482743.1" ; tag basic MANE_Select appris_principal_4 ; transcript_id "PRSS27--TPSB2^ENST00000606293.5" ; transcript_name "TPSB2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PTPRK--AL356534.1 HAVANA gene 1034 48764 . + . FI_gene_label "PTPRK^ENSG00000152894.15" ; ID "PTPRK--AL356534.1^PTPRK^ENSG00000152894.15" ; exon_id "ENSE00002151979.1" ; exon_number 1 ; gene_id "PTPRK--AL356534.1^PTPRK^ENSG00000152894.15" ; gene_name PTPRK ; gene_type protein_coding ; havana_gene "OTTHUMG00000015536.10" ; havana_transcript "OTTHUMT00000390045.1" ; hgnc_id "HGNC:9674" ; level 2 ; orig_coord_info "chr6,128520259,128520358,-" ; protein_id "ENSP00000357190.3" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "PTPRK--AL356534.1^ENST00000368207.7" ; transcript_name "PTPRK-203" ; transcript_support_level 5 ; transcript_type protein_coding
PTPRK--AL356534.1 HAVANA mRNA 1034 48764 . + . FI_gene_label "PTPRK^ENSG00000152894.15" ; ID "PTPRK--AL356534.1^ENST00000368207.7" ; Parent "PTPRK--AL356534.1^PTPRK^ENSG00000152894.15" ; exon_id "ENSE00002151979.1" ; exon_number 1 ; gene_id "PTPRK--AL356534.1^PTPRK^ENSG00000152894.15" ; gene_name PTPRK ; gene_type protein_coding ; havana_gene "OTTHUMG00000015536.10" ; havana_transcript "OTTHUMT00000390045.1" ; hgnc_id "HGNC:9674" ; level 2 ; orig_coord_info "chr6,128520259,128520358,-" ; protein_id "ENSP00000357190.3" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "PTPRK--AL356534.1^ENST00000368207.7" ; transcript_name "PTPRK-203" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PTPRK--AL445250.1 HAVANA gene 1034 48764 . + . FI_gene_label "PTPRK^ENSG00000152894.15" ; ID "PTPRK--AL445250.1^PTPRK^ENSG00000152894.15" ; exon_id "ENSE00002151979.1" ; exon_number 1 ; gene_id "PTPRK--AL445250.1^PTPRK^ENSG00000152894.15" ; gene_name PTPRK ; gene_type protein_coding ; havana_gene "OTTHUMG00000015536.10" ; havana_transcript "OTTHUMT00000390045.1" ; hgnc_id "HGNC:9674" ; level 2 ; orig_coord_info "chr6,128520259,128520358,-" ; protein_id "ENSP00000357190.3" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "PTPRK--AL445250.1^ENST00000368207.7" ; transcript_name "PTPRK-203" ; transcript_support_level 5 ; transcript_type protein_coding
PTPRK--AL445250.1 HAVANA mRNA 1034 48764 . + . FI_gene_label "PTPRK^ENSG00000152894.15" ; ID "PTPRK--AL445250.1^ENST00000368207.7" ; Parent "PTPRK--AL445250.1^PTPRK^ENSG00000152894.15" ; exon_id "ENSE00002151979.1" ; exon_number 1 ; gene_id "PTPRK--AL445250.1^PTPRK^ENSG00000152894.15" ; gene_name PTPRK ; gene_type protein_coding ; havana_gene "OTTHUMG00000015536.10" ; havana_transcript "OTTHUMT00000390045.1" ; hgnc_id "HGNC:9674" ; level 2 ; orig_coord_info "chr6,128520259,128520358,-" ; protein_id "ENSP00000357190.3" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "PTPRK--AL445250.1^ENST00000368207.7" ; transcript_name "PTPRK-203" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
PTPRK--RSPO3 HAVANA gene 53093 62586 . + . FI_gene_label "RSPO3^ENSG00000146374.14" ; ID "PTPRK--RSPO3^RSPO3^ENSG00000146374.14" ; ccdsid "CCDS5135.1" ; exon_id "ENSE00001858691.2" ; exon_number 1 ; gene_id "PTPRK--RSPO3^RSPO3^ENSG00000146374.14" ; gene_name RSPO3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015521.2" ; havana_transcript "OTTHUMT00000042111.2" ; hgnc_id "HGNC:20866" ; level 2 ; orig_coord_info "chr6,127119193,127119289,+" ; protein_id "ENSP00000349131.4" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "PTPRK--RSPO3^ENST00000356698.9" ; transcript_name "RSPO3-201" ; transcript_support_level 1 ; transcript_type protein_coding
PTPRK--RSPO3 HAVANA mRNA 53093 62586 . + . FI_gene_label "RSPO3^ENSG00000146374.14" ; ID "PTPRK--RSPO3^ENST00000356698.9" ; Parent "PTPRK--RSPO3^RSPO3^ENSG00000146374.14" ; ccdsid "CCDS5135.1" ; exon_id "ENSE00001858691.2" ; exon_number 1 ; gene_id "PTPRK--RSPO3^RSPO3^ENSG00000146374.14" ; gene_name RSPO3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015521.2" ; havana_transcript "OTTHUMT00000042111.2" ; hgnc_id "HGNC:20866" ; level 2 ; orig_coord_info "chr6,127119193,127119289,+" ; protein_id "ENSP00000349131.4" ; tag basic MANE_Select appris_principal_2 CCDS ; transcript_id "PTPRK--RSPO3^ENST00000356698.9" ; transcript_name "RSPO3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
PTPRK--RSPO3 HAVANA gene 1034 48764 . + . FI_gene_label "PTPRK^ENSG00000152894.15" ; ID "PTPRK--RSPO3^PTPRK^ENSG00000152894.15" ; exon_id "ENSE00002151979.1" ; exon_number 1 ; gene_id "PTPRK--RSPO3^PTPRK^ENSG00000152894.15" ; gene_name PTPRK ; gene_type protein_coding ; havana_gene "OTTHUMG00000015536.10" ; havana_transcript "OTTHUMT00000390045.1" ; hgnc_id "HGNC:9674" ; level 2 ; orig_coord_info "chr6,128520259,128520358,-" ; protein_id "ENSP00000357190.3" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "PTPRK--RSPO3^ENST00000368207.7" ; transcript_name "PTPRK-203" ; transcript_support_level 5 ; transcript_type protein_coding
PTPRK--RSPO3 HAVANA mRNA 1034 48764 . + . FI_gene_label "PTPRK^ENSG00000152894.15" ; ID "PTPRK--RSPO3^ENST00000368207.7" ; Parent "PTPRK--RSPO3^PTPRK^ENSG00000152894.15" ; exon_id "ENSE00002151979.1" ; exon_number 1 ; gene_id "PTPRK--RSPO3^PTPRK^ENSG00000152894.15" ; gene_name PTPRK ; gene_type protein_coding ; havana_gene "OTTHUMG00000015536.10" ; havana_transcript "OTTHUMT00000390045.1" ; hgnc_id "HGNC:9674" ; level 2 ; orig_coord_info "chr6,128520259,128520358,-" ; protein_id "ENSP00000357190.3" ; tag not_organism_supported basic appris_alternative_2 ; transcript_id "PTPRK--RSPO3^ENST00000368207.7" ; transcript_name "PTPRK-203" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
REPS1--ECHDC1 HAVANA gene 1001 26097 . + . FI_gene_label "REPS1^ENSG00000135597.19" ; ID "REPS1--ECHDC1^REPS1^ENSG00000135597.19" ; ccdsid "CCDS5193.2" ; exon_id "ENSE00002274013.1" ; exon_number 1 ; gene_id "REPS1--ECHDC1^REPS1^ENSG00000135597.19" ; gene_name REPS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015685.6" ; havana_transcript "OTTHUMT00000042449.3" ; hgnc_id "HGNC:15578" ; level 2 ; orig_coord_info "chr6,138987530,138987682,-" ; protein_id "ENSP00000258062.5" ; tag NAGNAG_splice_site basic appris_alternative_1 CCDS ; transcript_id "REPS1--ECHDC1^ENST00000258062.9" ; transcript_name "REPS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
REPS1--ECHDC1 HAVANA mRNA 1001 26097 . + . FI_gene_label "REPS1^ENSG00000135597.19" ; ID "REPS1--ECHDC1^ENST00000258062.9" ; Parent "REPS1--ECHDC1^REPS1^ENSG00000135597.19" ; ccdsid "CCDS5193.2" ; exon_id "ENSE00002274013.1" ; exon_number 1 ; gene_id "REPS1--ECHDC1^REPS1^ENSG00000135597.19" ; gene_name REPS1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015685.6" ; havana_transcript "OTTHUMT00000042449.3" ; hgnc_id "HGNC:15578" ; level 2 ; orig_coord_info "chr6,138987530,138987682,-" ; protein_id "ENSP00000258062.5" ; tag NAGNAG_splice_site basic appris_alternative_1 CCDS ; transcript_id "REPS1--ECHDC1^ENST00000258062.9" ; transcript_name "REPS1-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
REPS1--ECHDC1 HAVANA gene 30725 44065 . + . FI_gene_label "ECHDC1^ENSG00000093144.19" ; ID "REPS1--ECHDC1^ECHDC1^ENSG00000093144.19" ; ccdsid "CCDS34530.1" ; exon_id "ENSE00003469763.1" ; exon_number 3 ; gene_id "REPS1--ECHDC1^ECHDC1^ENSG00000093144.19" ; gene_name ECHDC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015523.6" ; havana_transcript "OTTHUMT00000042122.3" ; hgnc_id "HGNC:21489" ; level 2 ; orig_coord_info "chr6,127330809,127331028,-" ; protein_id "ENSP00000357272.2" ; tag basic CCDS ; transcript_id "REPS1--ECHDC1^ENST00000368289.6" ; transcript_name "ECHDC1-202" ; transcript_support_level 5 ; transcript_type protein_coding
REPS1--ECHDC1 HAVANA mRNA 30725 44065 . + . FI_gene_label "ECHDC1^ENSG00000093144.19" ; ID "REPS1--ECHDC1^ENST00000368289.6" ; Parent "REPS1--ECHDC1^ECHDC1^ENSG00000093144.19" ; ccdsid "CCDS34530.1" ; exon_id "ENSE00003469763.1" ; exon_number 3 ; gene_id "REPS1--ECHDC1^ECHDC1^ENSG00000093144.19" ; gene_name ECHDC1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000015523.6" ; havana_transcript "OTTHUMT00000042122.3" ; hgnc_id "HGNC:21489" ; level 2 ; orig_coord_info "chr6,127330809,127331028,-" ; protein_id "ENSP00000357272.2" ; tag basic CCDS ; transcript_id "REPS1--ECHDC1^ENST00000368289.6" ; transcript_name "ECHDC1-202" ; transcript_support_level 5 ; transcript_type protein_coding
L1 and L2 created:
SENP3--ASGR2 HAVANA gene 12578 18048 . + . FI_gene_label "ASGR2^ENSG00000161944.16" ; ID "SENP3--ASGR2^ASGR2^ENSG00000161944.16" ; ccdsid "CCDS11088.1" ; exon_id "ENSE00001297902.3" ; exon_number 2 ; gene_id "SENP3--ASGR2^ASGR2^ENSG00000161944.16" ; gene_name ASGR2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000102158.4" ; havana_transcript "OTTHUMT00000220002.1" ; hgnc_id "HGNC:743" ; level 2 ; orig_coord_info "chr17,7114174,7114240,-" ; protein_id "ENSP00000254850.7" ; tag basic appris_principal_2 CCDS ; transcript_id "SENP3--ASGR2^ENST00000254850.11" ; transcript_name "ASGR2-201" ; transcript_support_level 1 ; transcript_type protein_coding
SENP3--ASGR2 HAVANA mRNA 12578 18048 . + . FI_gene_label "ASGR2^ENSG00000161944.16" ; ID "SENP3--ASGR2^ENST00000254850.11" ; Parent "SENP3--ASGR2^ASGR2^ENSG00000161944.16" ; ccdsid "CCDS11088.1" ; exon_id "ENSE00001297902.3" ; exon_number 2 ; gene_id "SENP3--ASGR2^ASGR2^ENSG00000161944.16" ; gene_name ASGR2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000102158.4" ; havana_transcript "OTTHUMT00000220002.1" ; hgnc_id "HGNC:743" ; level 2 ; orig_coord_info "chr17,7114174,7114240,-" ; protein_id "ENSP00000254850.7" ; tag basic appris_principal_2 CCDS ; transcript_id "SENP3--ASGR2^ENST00000254850.11" ; transcript_name "ASGR2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SENP3--ASGR2 HAVANA gene 1001 8700 . + . FI_gene_label "SENP3^ENSG00000161956.13" ; ID "SENP3--ASGR2^SENP3^ENSG00000161956.13" ; ccdsid "CCDS73958.1" ; exon_id "ENSE00003645642.1" ; exon_number 2 ; gene_id "SENP3--ASGR2^SENP3^ENSG00000161956.13" ; gene_name SENP3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178333.6" ; havana_transcript "OTTHUMT00000441580.4" ; hgnc_id "HGNC:17862" ; level 2 ; orig_coord_info "chr17,7563077,7563791,+" ; protein_id "ENSP00000314029.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SENP3--ASGR2^ENST00000321337.12" ; transcript_name "SENP3-201" ; transcript_support_level 1 ; transcript_type protein_coding
SENP3--ASGR2 HAVANA mRNA 1001 8700 . + . FI_gene_label "SENP3^ENSG00000161956.13" ; ID "SENP3--ASGR2^ENST00000321337.12" ; Parent "SENP3--ASGR2^SENP3^ENSG00000161956.13" ; ccdsid "CCDS73958.1" ; exon_id "ENSE00003645642.1" ; exon_number 2 ; gene_id "SENP3--ASGR2^SENP3^ENSG00000161956.13" ; gene_name SENP3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000178333.6" ; havana_transcript "OTTHUMT00000441580.4" ; hgnc_id "HGNC:17862" ; level 2 ; orig_coord_info "chr17,7563077,7563791,+" ; protein_id "ENSP00000314029.8" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SENP3--ASGR2^ENST00000321337.12" ; transcript_name "SENP3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SLC2A13--DCDC2 HAVANA gene 1009 20147 . + . FI_gene_label "SLC2A13^ENSG00000151229.13" ; ID "SLC2A13--DCDC2^SLC2A13^ENSG00000151229.13" ; ccdsid "CCDS8736.2" ; exon_id "ENSE00000998418.2" ; exon_number 1 ; gene_id "SLC2A13--DCDC2^SLC2A13^ENSG00000151229.13" ; gene_name SLC2A13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059743.4" ; havana_transcript "OTTHUMT00000132849.3" ; hgnc_id "HGNC:15956" ; level 2 ; orig_coord_info "chr12,40105253,40105808,-" ; protein_id "ENSP00000280871.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SLC2A13--DCDC2^ENST00000280871.9" ; transcript_name "SLC2A13-201" ; transcript_support_level 1 ; transcript_type protein_coding
SLC2A13--DCDC2 HAVANA mRNA 1009 20147 . + . FI_gene_label "SLC2A13^ENSG00000151229.13" ; ID "SLC2A13--DCDC2^ENST00000280871.9" ; Parent "SLC2A13--DCDC2^SLC2A13^ENSG00000151229.13" ; ccdsid "CCDS8736.2" ; exon_id "ENSE00000998418.2" ; exon_number 1 ; gene_id "SLC2A13--DCDC2^SLC2A13^ENSG00000151229.13" ; gene_name SLC2A13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000059743.4" ; havana_transcript "OTTHUMT00000132849.3" ; hgnc_id "HGNC:15956" ; level 2 ; orig_coord_info "chr12,40105253,40105808,-" ; protein_id "ENSP00000280871.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SLC2A13--DCDC2^ENST00000280871.9" ; transcript_name "SLC2A13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SLC2A13--DCDC2 HAVANA gene 30837 36520 . + . FI_gene_label "DCDC2^ENSG00000146038.12" ; ID "SLC2A13--DCDC2^DCDC2^ENSG00000146038.12" ; exon_id "ENSE00001477574.3" ; exon_number 1 ; gene_id "SLC2A13--DCDC2^DCDC2^ENSG00000146038.12" ; gene_name DCDC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016275.2" ; havana_transcript "OTTHUMT00000043605.1" ; hgnc_id "HGNC:18141" ; level 2 ; orig_coord_info "chr6,24205002,24205283,-" ; protein_id "ENSP00000367711.3" ; tag basic ; transcript_id "SLC2A13--DCDC2^ENST00000378450.6" ; transcript_name "DCDC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
SLC2A13--DCDC2 HAVANA mRNA 30837 36520 . + . FI_gene_label "DCDC2^ENSG00000146038.12" ; ID "SLC2A13--DCDC2^ENST00000378450.6" ; Parent "SLC2A13--DCDC2^DCDC2^ENSG00000146038.12" ; exon_id "ENSE00001477574.3" ; exon_number 1 ; gene_id "SLC2A13--DCDC2^DCDC2^ENSG00000146038.12" ; gene_name DCDC2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000016275.2" ; havana_transcript "OTTHUMT00000043605.1" ; hgnc_id "HGNC:18141" ; level 2 ; orig_coord_info "chr6,24205002,24205283,-" ; protein_id "ENSP00000367711.3" ; tag basic ; transcript_id "SLC2A13--DCDC2^ENST00000378450.6" ; transcript_name "DCDC2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SNU13--LLPH HAVANA gene 4331 9276 . + . FI_gene_label "SNU13^ENSG00000100138.15" ; ID "SNU13--LLPH^SNU13^ENSG00000100138.15" ; ccdsid "CCDS14022.1" ; exon_id "ENSE00001388935.4" ; exon_number 1 ; gene_id "SNU13--LLPH^SNU13^ENSG00000100138.15" ; gene_name SNU13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151189.9" ; havana_transcript "OTTHUMT00000321683.2" ; hgnc_id "HGNC:7819" ; level 2 ; orig_coord_info "chr22,41682356,41682358,-" ; protein_id "ENSP00000215956.5" ; tag basic appris_principal_1 CCDS ; transcript_id "SNU13--LLPH^ENST00000215956.10" ; transcript_name "SNU13-201" ; transcript_support_level 1 ; transcript_type protein_coding
SNU13--LLPH HAVANA mRNA 4331 9276 . + . FI_gene_label "SNU13^ENSG00000100138.15" ; ID "SNU13--LLPH^ENST00000215956.10" ; Parent "SNU13--LLPH^SNU13^ENSG00000100138.15" ; ccdsid "CCDS14022.1" ; exon_id "ENSE00001388935.4" ; exon_number 1 ; gene_id "SNU13--LLPH^SNU13^ENSG00000100138.15" ; gene_name SNU13 ; gene_type protein_coding ; havana_gene "OTTHUMG00000151189.9" ; havana_transcript "OTTHUMT00000321683.2" ; hgnc_id "HGNC:7819" ; level 2 ; orig_coord_info "chr22,41682356,41682358,-" ; protein_id "ENSP00000215956.5" ; tag basic appris_principal_1 CCDS ; transcript_id "SNU13--LLPH^ENST00000215956.10" ; transcript_name "SNU13-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
SNU13--LLPH HAVANA gene 13051 23027 . + . FI_gene_label "LLPH^ENSG00000139233.7" ; ID "SNU13--LLPH^LLPH^ENSG00000139233.7" ; ccdsid "CCDS8974.1" ; exon_id "ENSE00003592110.1" ; exon_number 2 ; gene_id "SNU13--LLPH^LLPH^ENSG00000139233.7" ; gene_name LLPH ; gene_type protein_coding ; havana_gene "OTTHUMG00000168959.4" ; havana_transcript "OTTHUMT00000401752.4" ; hgnc_id "HGNC:28229" ; level 2 ; orig_coord_info "chr12,66128896,66129106,-" ; protein_id "ENSP00000266604.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SNU13--LLPH^ENST00000266604.7" ; transcript_name "LLPH-201" ; transcript_support_level 1 ; transcript_type protein_coding
SNU13--LLPH HAVANA mRNA 13051 23027 . + . FI_gene_label "LLPH^ENSG00000139233.7" ; ID "SNU13--LLPH^ENST00000266604.7" ; Parent "SNU13--LLPH^LLPH^ENSG00000139233.7" ; ccdsid "CCDS8974.1" ; exon_id "ENSE00003592110.1" ; exon_number 2 ; gene_id "SNU13--LLPH^LLPH^ENSG00000139233.7" ; gene_name LLPH ; gene_type protein_coding ; havana_gene "OTTHUMG00000168959.4" ; havana_transcript "OTTHUMT00000401752.4" ; hgnc_id "HGNC:28229" ; level 2 ; orig_coord_info "chr12,66128896,66129106,-" ; protein_id "ENSP00000266604.2" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "SNU13--LLPH^ENST00000266604.7" ; transcript_name "LLPH-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:
TRERF1--RIPOR2 HAVANA gene 34232 64980 . + . FI_gene_label "RIPOR2^ENSG00000111913.20" ; ID "TRERF1--RIPOR2^RIPOR2^ENSG00000111913.20" ; ccdsid "CCDS47383.1" ; exon_id "ENSE00003581358.1" ; exon_number 2 ; gene_id "TRERF1--RIPOR2^RIPOR2^ENSG00000111913.20" ; gene_name RIPOR2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191459.13" ; havana_transcript "OTTHUMT00000495780.1" ; hgnc_id "HGNC:13872" ; level 2 ; orig_coord_info "chr6,24875691,24875791,-" ; protein_id "ENSP00000259698.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "TRERF1--RIPOR2^ENST00000259698.9" ; transcript_name "RIPOR2-201" ; transcript_support_level 1 ; transcript_type protein_coding
TRERF1--RIPOR2 HAVANA mRNA 34232 64980 . + . FI_gene_label "RIPOR2^ENSG00000111913.20" ; ID "TRERF1--RIPOR2^ENST00000259698.9" ; Parent "TRERF1--RIPOR2^RIPOR2^ENSG00000111913.20" ; ccdsid "CCDS47383.1" ; exon_id "ENSE00003581358.1" ; exon_number 2 ; gene_id "TRERF1--RIPOR2^RIPOR2^ENSG00000111913.20" ; gene_name RIPOR2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000191459.13" ; havana_transcript "OTTHUMT00000495780.1" ; hgnc_id "HGNC:13872" ; level 2 ; orig_coord_info "chr6,24875691,24875791,-" ; protein_id "ENSP00000259698.4" ; tag basic appris_alternative_2 CCDS ; transcript_id "TRERF1--RIPOR2^ENST00000259698.9" ; transcript_name "RIPOR2-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
TRERF1--RIPOR2 HAVANA gene 1791 21300 . + . FI_gene_label "TRERF1^ENSG00000124496.12" ; ID "TRERF1--RIPOR2^TRERF1^ENSG00000124496.12" ; exon_id "ENSE00001190134.5" ; exon_number 4 ; gene_id "TRERF1--RIPOR2^TRERF1^ENSG00000124496.12" ; gene_name TRERF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014698.2" ; havana_transcript "OTTHUMT00000040552.2" ; hgnc_id "HGNC:18273" ; level 2 ; orig_coord_info "chr6,42268154,42269590,-" ; protein_id "ENSP00000339438.2" ; tag basic ; transcript_id "TRERF1--RIPOR2^ENST00000340840.6" ; transcript_name "TRERF1-201" ; transcript_support_level 5 ; transcript_type protein_coding
TRERF1--RIPOR2 HAVANA mRNA 1791 21300 . + . FI_gene_label "TRERF1^ENSG00000124496.12" ; ID "TRERF1--RIPOR2^ENST00000340840.6" ; Parent "TRERF1--RIPOR2^TRERF1^ENSG00000124496.12" ; exon_id "ENSE00001190134.5" ; exon_number 4 ; gene_id "TRERF1--RIPOR2^TRERF1^ENSG00000124496.12" ; gene_name TRERF1 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014698.2" ; havana_transcript "OTTHUMT00000040552.2" ; hgnc_id "HGNC:18273" ; level 2 ; orig_coord_info "chr6,42268154,42269590,-" ; protein_id "ENSP00000339438.2" ; tag basic ; transcript_id "TRERF1--RIPOR2^ENST00000340840.6" ; transcript_name "TRERF1-201" ; transcript_support_level 5 ; 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:
UBA6--NAA11 HAVANA gene 41326 44356 . + . FI_gene_label "NAA11^ENSG00000156269.5" ; ID "UBA6--NAA11^NAA11^ENSG00000156269.5" ; ccdsid "CCDS47084.1" ; exon_id "ENSE00001025537.5" ; exon_number 1 ; gene_id "UBA6--NAA11^NAA11^ENSG00000156269.5" ; gene_name NAA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160913.2" ; havana_transcript "OTTHUMT00000362922.2" ; hgnc_id "HGNC:28125" ; level 2 ; orig_coord_info "chr4,79325191,79325877,-" ; protein_id "ENSP00000286794.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBA6--NAA11^ENST00000286794.5" ; transcript_name "NAA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
UBA6--NAA11 HAVANA mRNA 41326 44356 . + . FI_gene_label "NAA11^ENSG00000156269.5" ; ID "UBA6--NAA11^ENST00000286794.5" ; Parent "UBA6--NAA11^NAA11^ENSG00000156269.5" ; ccdsid "CCDS47084.1" ; exon_id "ENSE00001025537.5" ; exon_number 1 ; gene_id "UBA6--NAA11^NAA11^ENSG00000156269.5" ; gene_name NAA11 ; gene_type protein_coding ; havana_gene "OTTHUMG00000160913.2" ; havana_transcript "OTTHUMT00000362922.2" ; hgnc_id "HGNC:28125" ; level 2 ; orig_coord_info "chr4,79325191,79325877,-" ; protein_id "ENSP00000286794.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBA6--NAA11^ENST00000286794.5" ; transcript_name "NAA11-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
UBA6--NAA11 HAVANA gene 1001 38325 . + . FI_gene_label "UBA6^ENSG00000033178.13" ; ID "UBA6--NAA11^UBA6^ENSG00000033178.13" ; ccdsid "CCDS3516.1" ; exon_id "ENSE00001855693.2" ; exon_number 1 ; gene_id "UBA6--NAA11^UBA6^ENSG00000033178.13" ; gene_name UBA6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129299.7" ; havana_transcript "OTTHUMT00000251429.3" ; hgnc_id "HGNC:25581" ; level 2 ; orig_coord_info "chr4,67701049,67701119,-" ; protein_id "ENSP00000313454.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBA6--NAA11^ENST00000322244.10" ; transcript_name "UBA6-201" ; transcript_support_level 1 ; transcript_type protein_coding
UBA6--NAA11 HAVANA mRNA 1001 38325 . + . FI_gene_label "UBA6^ENSG00000033178.13" ; ID "UBA6--NAA11^ENST00000322244.10" ; Parent "UBA6--NAA11^UBA6^ENSG00000033178.13" ; ccdsid "CCDS3516.1" ; exon_id "ENSE00001855693.2" ; exon_number 1 ; gene_id "UBA6--NAA11^UBA6^ENSG00000033178.13" ; gene_name UBA6 ; gene_type protein_coding ; havana_gene "OTTHUMG00000129299.7" ; havana_transcript "OTTHUMT00000251429.3" ; hgnc_id "HGNC:25581" ; level 2 ; orig_coord_info "chr4,67701049,67701119,-" ; protein_id "ENSP00000313454.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "UBA6--NAA11^ENST00000322244.10" ; transcript_name "UBA6-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
UTRN--AL138828.1 HAVANA gene 72296 80483 . + . FI_gene_label "UTRN^ENSG00000152818.18" ; ID "UTRN--AL138828.1^UTRN^ENSG00000152818.18" ; exon_id "ENSE00002458940.1" ; exon_number 1 ; gene_id "UTRN--AL138828.1^UTRN^ENSG00000152818.18" ; gene_name UTRN ; gene_type protein_coding ; havana_gene "OTTHUMG00000015746.6" ; havana_transcript "OTTHUMT00000042557.2" ; hgnc_id "HGNC:12635" ; level 2 ; orig_coord_info "chr6,144789229,144789279,+" ; protein_id "ENSP00000356494.3" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "UTRN--AL138828.1^ENST00000367524.7" ; transcript_name "UTRN-201" ; transcript_support_level 3 ; transcript_type protein_coding
UTRN--AL138828.1 HAVANA mRNA 72296 80483 . + . FI_gene_label "UTRN^ENSG00000152818.18" ; ID "UTRN--AL138828.1^ENST00000367524.7" ; Parent "UTRN--AL138828.1^UTRN^ENSG00000152818.18" ; exon_id "ENSE00002458940.1" ; exon_number 1 ; gene_id "UTRN--AL138828.1^UTRN^ENSG00000152818.18" ; gene_name UTRN ; gene_type protein_coding ; havana_gene "OTTHUMG00000015746.6" ; havana_transcript "OTTHUMT00000042557.2" ; hgnc_id "HGNC:12635" ; level 2 ; orig_coord_info "chr6,144789229,144789279,+" ; protein_id "ENSP00000356494.3" ; tag mRNA_start_NF mRNA_end_NF cds_start_NF cds_end_NF ; transcript_id "UTRN--AL138828.1^ENST00000367524.7" ; transcript_name "UTRN-201" ; transcript_support_level 3 ; transcript_type protein_coding
L1 and L2 created:
ZFAND3--AL356534.1 HAVANA gene 1001 14105 . + . FI_gene_label "ZFAND3^ENSG00000156639.12" ; ID "ZFAND3--AL356534.1^ZFAND3^ENSG00000156639.12" ; ccdsid "CCDS4836.1" ; exon_id "ENSE00001460453.3" ; exon_number 1 ; gene_id "ZFAND3--AL356534.1^ZFAND3^ENSG00000156639.12" ; gene_name ZFAND3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014629.7" ; havana_transcript "OTTHUMT00000040424.4" ; hgnc_id "HGNC:18019" ; level 2 ; orig_coord_info "chr6,37819946,37820016,+" ; protein_id "ENSP00000287218.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZFAND3--AL356534.1^ENST00000287218.9" ; transcript_name "ZFAND3-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZFAND3--AL356534.1 HAVANA mRNA 1001 14105 . + . FI_gene_label "ZFAND3^ENSG00000156639.12" ; ID "ZFAND3--AL356534.1^ENST00000287218.9" ; Parent "ZFAND3--AL356534.1^ZFAND3^ENSG00000156639.12" ; ccdsid "CCDS4836.1" ; exon_id "ENSE00001460453.3" ; exon_number 1 ; gene_id "ZFAND3--AL356534.1^ZFAND3^ENSG00000156639.12" ; gene_name ZFAND3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014629.7" ; havana_transcript "OTTHUMT00000040424.4" ; hgnc_id "HGNC:18019" ; level 2 ; orig_coord_info "chr6,37819946,37820016,+" ; protein_id "ENSP00000287218.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZFAND3--AL356534.1^ENST00000287218.9" ; transcript_name "ZFAND3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
ZFAND3--MRS2 ENSEMBL gene 17106 31569 . + . FI_gene_label "MRS2^ENSG00000124532.15" ; ID "ZFAND3--MRS2^MRS2^ENSG00000124532.15" ; ccdsid "CCDS69056.1" ; exon_id "ENSE00001185532.9" ; exon_number 1 ; gene_id "ZFAND3--MRS2^MRS2^ENSG00000124532.15" ; gene_name MRS2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014355.2" ; hgnc_id "HGNC:13785" ; level 3 ; orig_coord_info "chr6,24403047,24403236,+" ; protein_id "ENSP00000274747.8" ; tag basic CCDS ; transcript_id "ZFAND3--MRS2^ENST00000274747.11" ; transcript_name "MRS2-201" ; transcript_support_level 2 ; transcript_type protein_coding
ZFAND3--MRS2 ENSEMBL mRNA 17106 31569 . + . FI_gene_label "MRS2^ENSG00000124532.15" ; ID "ZFAND3--MRS2^ENST00000274747.11" ; Parent "ZFAND3--MRS2^MRS2^ENSG00000124532.15" ; ccdsid "CCDS69056.1" ; exon_id "ENSE00001185532.9" ; exon_number 1 ; gene_id "ZFAND3--MRS2^MRS2^ENSG00000124532.15" ; gene_name MRS2 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014355.2" ; hgnc_id "HGNC:13785" ; level 3 ; orig_coord_info "chr6,24403047,24403236,+" ; protein_id "ENSP00000274747.8" ; tag basic CCDS ; transcript_id "ZFAND3--MRS2^ENST00000274747.11" ; transcript_name "MRS2-201" ; transcript_support_level 2 ; transcript_type protein_coding
L1 and L2 created:
ZFAND3--MRS2 HAVANA gene 1001 14105 . + . FI_gene_label "ZFAND3^ENSG00000156639.12" ; ID "ZFAND3--MRS2^ZFAND3^ENSG00000156639.12" ; ccdsid "CCDS4836.1" ; exon_id "ENSE00001460453.3" ; exon_number 1 ; gene_id "ZFAND3--MRS2^ZFAND3^ENSG00000156639.12" ; gene_name ZFAND3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014629.7" ; havana_transcript "OTTHUMT00000040424.4" ; hgnc_id "HGNC:18019" ; level 2 ; orig_coord_info "chr6,37819946,37820016,+" ; protein_id "ENSP00000287218.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZFAND3--MRS2^ENST00000287218.9" ; transcript_name "ZFAND3-201" ; transcript_support_level 1 ; transcript_type protein_coding
ZFAND3--MRS2 HAVANA mRNA 1001 14105 . + . FI_gene_label "ZFAND3^ENSG00000156639.12" ; ID "ZFAND3--MRS2^ENST00000287218.9" ; Parent "ZFAND3--MRS2^ZFAND3^ENSG00000156639.12" ; ccdsid "CCDS4836.1" ; exon_id "ENSE00001460453.3" ; exon_number 1 ; gene_id "ZFAND3--MRS2^ZFAND3^ENSG00000156639.12" ; gene_name ZFAND3 ; gene_type protein_coding ; havana_gene "OTTHUMG00000014629.7" ; havana_transcript "OTTHUMT00000040424.4" ; hgnc_id "HGNC:18019" ; level 2 ; orig_coord_info "chr6,37819946,37820016,+" ; protein_id "ENSP00000287218.4" ; tag basic MANE_Select appris_principal_1 CCDS ; transcript_id "ZFAND3--MRS2^ENST00000287218.9" ; transcript_name "ZFAND3-201" ; transcript_support_level 1 ; transcript_type protein_coding
L1 and L2 created:
AC015911.9--SLFN12L HAVANA gene 1001 1691 . + . FI_gene_label "AC015911.9^ENSG00000286030.2" ; ID "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; exon_id "ENSE00003850003.2" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; gene_name "AC015911.9" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000193507.2" ; havana_transcript "OTTHUMT00000502481.2" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr17,35522279,35522969,-" ; tag basic ; transcript_id "AC015911.9--SLFN12L^ENST00000650652.2" ; transcript_name "AC015911.9-201" ; transcript_type transcribed_unprocessed_pseudogene
AC015911.9--SLFN12L HAVANA RNA 1001 1691 . + . FI_gene_label "AC015911.9^ENSG00000286030.2" ; ID "AC015911.9--SLFN12L^ENST00000650652.2" ; Parent "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; exon_id "ENSE00003850003.2" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^AC015911.9^ENSG00000286030.2" ; gene_name "AC015911.9" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000193507.2" ; havana_transcript "OTTHUMT00000502481.2" ; level 2 ; ont "PGO:0000005" "PGO:0000019" ; orig_coord_info "chr17,35522279,35522969,-" ; tag basic ; transcript_id "AC015911.9--SLFN12L^ENST00000650652.2" ; transcript_name "AC015911.9-201" ; transcript_type transcribed_unprocessed_pseudogene
L1 and L2 created:
AC015911.9--SLFN12L ENSEMBL gene 5824 9825 . + . FI_gene_label "SLFN12L^ENSG00000286065.2" ; ID "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; exon_id "ENSE00003899764.1" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; gene_name SLFN12L ; gene_type lncRNA ; havana_gene "OTTHUMG00000167707.2" ; hgnc_id "HGNC:33920" ; level 3 ; orig_coord_info "chr17,35480502,35480513,-" ; transcript_id "AC015911.9--SLFN12L^ENST00000675965.1" ; transcript_name "SLFN12L-206" ; transcript_type lncRNA
AC015911.9--SLFN12L ENSEMBL RNA 5824 9825 . + . FI_gene_label "SLFN12L^ENSG00000286065.2" ; ID "AC015911.9--SLFN12L^ENST00000675965.1" ; Parent "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; exon_id "ENSE00003899764.1" ; exon_number 1 ; gene_id "AC015911.9--SLFN12L^SLFN12L^ENSG00000286065.2" ; gene_name SLFN12L ; gene_type lncRNA ; havana_gene "OTTHUMG00000167707.2" ; hgnc_id "HGNC:33920" ; level 3 ; orig_coord_info "chr17,35480502,35480513,-" ; transcript_id "AC015911.9--SLFN12L^ENST00000675965.1" ; transcript_name "SLFN12L-206" ; transcript_type lncRNA
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:
ALOX5--AC026884.1 HAVANA gene 17599 18055 . + . FI_gene_label "AC026884.1^ENSG00000232115.1" ; ID "ALOX5--AC026884.1^AC026884.1^ENSG00000232115.1" ; exon_id "ENSE00001695254.1" ; exon_number 1 ; gene_id "ALOX5--AC026884.1^AC026884.1^ENSG00000232115.1" ; gene_name "AC026884.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018264.1" ; havana_transcript "OTTHUMT00000048135.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr10,58106423,58106879,-" ; tag basic ; transcript_id "ALOX5--AC026884.1^ENST00000418296.1" ; transcript_name "AC026884.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
ALOX5--AC026884.1 HAVANA RNA 17599 18055 . + . FI_gene_label "AC026884.1^ENSG00000232115.1" ; ID "ALOX5--AC026884.1^ENST00000418296.1" ; Parent "ALOX5--AC026884.1^AC026884.1^ENSG00000232115.1" ; exon_id "ENSE00001695254.1" ; exon_number 1 ; gene_id "ALOX5--AC026884.1^AC026884.1^ENSG00000232115.1" ; gene_name "AC026884.1" ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000018264.1" ; havana_transcript "OTTHUMT00000048135.1" ; level 2 ; ont "PGO:0000004" ; orig_coord_info "chr10,58106423,58106879,-" ; tag basic ; transcript_id "ALOX5--AC026884.1^ENST00000418296.1" ; transcript_name "AC026884.1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
ARFGEF3--AL590652.1 HAVANA gene 50543 52848 . + . FI_gene_label "AL590652.1^ENSG00000227885.3" ; ID "ARFGEF3--AL590652.1^AL590652.1^ENSG00000227885.3" ; exon_id "ENSE00001672912.1" ; exon_number 1 ; gene_id "ARFGEF3--AL590652.1^AL590652.1^ENSG00000227885.3" ; gene_name "AL590652.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000014883.5" ; havana_transcript "OTTHUMT00000500788.1" ; level 1 ; orig_coord_info "chr6,53794173,53794274,-" ; tag exp_conf ; transcript_id "ARFGEF3--AL590652.1^ENST00000429053.1" ; transcript_name "AL590652.1-203" ; transcript_support_level 3 ; transcript_type lncRNA
ARFGEF3--AL590652.1 HAVANA RNA 50543 52848 . + . FI_gene_label "AL590652.1^ENSG00000227885.3" ; ID "ARFGEF3--AL590652.1^ENST00000429053.1" ; Parent "ARFGEF3--AL590652.1^AL590652.1^ENSG00000227885.3" ; exon_id "ENSE00001672912.1" ; exon_number 1 ; gene_id "ARFGEF3--AL590652.1^AL590652.1^ENSG00000227885.3" ; gene_name "AL590652.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000014883.5" ; havana_transcript "OTTHUMT00000500788.1" ; level 1 ; orig_coord_info "chr6,53794173,53794274,-" ; tag exp_conf ; transcript_id "ARFGEF3--AL590652.1^ENST00000429053.1" ; transcript_name "AL590652.1-203" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
CARMIL1--AL356534.1 HAVANA gene 114244 115537 . + . FI_gene_label "AL356534.1^ENSG00000286215.1" ; ID "CARMIL1--AL356534.1^AL356534.1^ENSG00000286215.1" ; exon_id "ENSE00001556513.3" ; exon_number 1 ; gene_id "CARMIL1--AL356534.1^AL356534.1^ENSG00000286215.1" ; gene_name "AL356534.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000015519.5" ; havana_transcript "OTTHUMT00000042107.4" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr6,126602356,126603649,-" ; tag pseudo_consens basic ; transcript_id "CARMIL1--AL356534.1^ENST00000402383.3" ; transcript_name "AL356534.1-205" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
CARMIL1--AL356534.1 HAVANA RNA 114244 115537 . + . FI_gene_label "AL356534.1^ENSG00000286215.1" ; ID "CARMIL1--AL356534.1^ENST00000402383.3" ; Parent "CARMIL1--AL356534.1^AL356534.1^ENSG00000286215.1" ; exon_id "ENSE00001556513.3" ; exon_number 1 ; gene_id "CARMIL1--AL356534.1^AL356534.1^ENSG00000286215.1" ; gene_name "AL356534.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000015519.5" ; havana_transcript "OTTHUMT00000042107.4" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr6,126602356,126603649,-" ; tag pseudo_consens basic ; transcript_id "CARMIL1--AL356534.1^ENST00000402383.3" ; transcript_name "AL356534.1-205" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
L1 and L2 created:
CD2AP--FILNC1 HAVANA gene 32651 35364 . + . FI_gene_label "FILNC1^ENSG00000231426.7" ; ID "CD2AP--FILNC1^FILNC1^ENSG00000231426.7" ; exon_id "ENSE00001687186.1" ; exon_number 1 ; gene_id "CD2AP--FILNC1^FILNC1^ENSG00000231426.7" ; gene_name FILNC1 ; gene_type lncRNA ; havana_gene "OTTHUMG00000015697.3" ; havana_transcript "OTTHUMT00000042470.2" ; hgnc_id "HGNC:53755" ; level 2 ; orig_coord_info "chr6,139854850,139854977,+" ; transcript_id "CD2AP--FILNC1^ENST00000414038.5" ; transcript_name "FILNC1-201" ; transcript_support_level 3 ; transcript_type lncRNA
CD2AP--FILNC1 HAVANA RNA 32651 35364 . + . FI_gene_label "FILNC1^ENSG00000231426.7" ; ID "CD2AP--FILNC1^ENST00000414038.5" ; Parent "CD2AP--FILNC1^FILNC1^ENSG00000231426.7" ; exon_id "ENSE00001687186.1" ; exon_number 1 ; gene_id "CD2AP--FILNC1^FILNC1^ENSG00000231426.7" ; gene_name FILNC1 ; gene_type lncRNA ; havana_gene "OTTHUMG00000015697.3" ; havana_transcript "OTTHUMT00000042470.2" ; hgnc_id "HGNC:53755" ; level 2 ; orig_coord_info "chr6,139854850,139854977,+" ; transcript_id "CD2AP--FILNC1^ENST00000414038.5" ; transcript_name "FILNC1-201" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
CUL9--AL592429.2 HAVANA gene 31945 33467 . + . FI_gene_label "AL592429.2^ENSG00000226571.2" ; ID "CUL9--AL592429.2^AL592429.2^ENSG00000226571.2" ; exon_id "ENSE00001673036.1" ; exon_number 1 ; gene_id "CUL9--AL592429.2^AL592429.2^ENSG00000226571.2" ; gene_name "AL592429.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000015689.2" ; havana_transcript "OTTHUMT00000042461.1" ; level 2 ; orig_coord_info "chr6,139283107,139283166,+" ; tag basic ; transcript_id "CUL9--AL592429.2^ENST00000440518.1" ; transcript_name "AL592429.2-203" ; transcript_support_level 3 ; transcript_type lncRNA
CUL9--AL592429.2 HAVANA RNA 31945 33467 . + . FI_gene_label "AL592429.2^ENSG00000226571.2" ; ID "CUL9--AL592429.2^ENST00000440518.1" ; Parent "CUL9--AL592429.2^AL592429.2^ENSG00000226571.2" ; exon_id "ENSE00001673036.1" ; exon_number 1 ; gene_id "CUL9--AL592429.2^AL592429.2^ENSG00000226571.2" ; gene_name "AL592429.2" ; gene_type lncRNA ; havana_gene "OTTHUMG00000015689.2" ; havana_transcript "OTTHUMT00000042461.1" ; level 2 ; orig_coord_info "chr6,139283107,139283166,+" ; tag basic ; transcript_id "CUL9--AL592429.2^ENST00000440518.1" ; transcript_name "AL592429.2-203" ; transcript_support_level 3 ; transcript_type lncRNA
L1 and L2 created:
GTF2A1L--STON1-GTF2A1L HAVANA gene 14395 15764 . + . FI_gene_label "STON1-GTF2A1L^ENSG00000068781.21" ; ID "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; exon_id "ENSE00001916353.1" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; gene_name "STON1-GTF2A1L" ; gene_type protein_coding ; havana_gene "OTTHUMG00000152037.6" ; havana_transcript "OTTHUMT00000325207.1" ; hgnc_id "HGNC:30651" ; level 1 ; orig_coord_info "chr2,48768954,48769121,+" ; tag exp_conf ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000463040.5" ; transcript_name "STON1-GTF2A1L-205" ; transcript_support_level 5 ; transcript_type processed_transcript
GTF2A1L--STON1-GTF2A1L HAVANA RNA 14395 15764 . + . FI_gene_label "STON1-GTF2A1L^ENSG00000068781.21" ; ID "GTF2A1L--STON1-GTF2A1L^ENST00000463040.5" ; Parent "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; exon_id "ENSE00001916353.1" ; exon_number 1 ; gene_id "GTF2A1L--STON1-GTF2A1L^STON1-GTF2A1L^ENSG00000068781.21" ; gene_name "STON1-GTF2A1L" ; gene_type protein_coding ; havana_gene "OTTHUMG00000152037.6" ; havana_transcript "OTTHUMT00000325207.1" ; hgnc_id "HGNC:30651" ; level 1 ; orig_coord_info "chr2,48768954,48769121,+" ; tag exp_conf ; transcript_id "GTF2A1L--STON1-GTF2A1L^ENST00000463040.5" ; transcript_name "STON1-GTF2A1L-205" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
LINC00271--ALDH5A1 HAVANA gene 1382 23522 . + . FI_gene_label "LINC00271^ENSG00000231028.9" ; ID "LINC00271--ALDH5A1^LINC00271^ENSG00000231028.9" ; exon_id "ENSE00002721754.2" ; exon_number 1 ; gene_id "LINC00271--ALDH5A1^LINC00271^ENSG00000231028.9" ; gene_name LINC00271 ; gene_type lncRNA ; havana_gene "OTTHUMG00000015632.5" ; havana_transcript "OTTHUMT00000443467.2" ; hgnc_id "HGNC:32526" ; level 1 ; orig_coord_info "chr6,135497803,135498000,+" ; tag basic TAGENE exp_conf ; transcript_id "LINC00271--ALDH5A1^ENST00000421378.3" ; transcript_name "LINC00271-201" ; transcript_support_level 1 ; transcript_type lncRNA
LINC00271--ALDH5A1 HAVANA RNA 1382 23522 . + . FI_gene_label "LINC00271^ENSG00000231028.9" ; ID "LINC00271--ALDH5A1^ENST00000421378.3" ; Parent "LINC00271--ALDH5A1^LINC00271^ENSG00000231028.9" ; exon_id "ENSE00002721754.2" ; exon_number 1 ; gene_id "LINC00271--ALDH5A1^LINC00271^ENSG00000231028.9" ; gene_name LINC00271 ; gene_type lncRNA ; havana_gene "OTTHUMG00000015632.5" ; havana_transcript "OTTHUMT00000443467.2" ; hgnc_id "HGNC:32526" ; level 1 ; orig_coord_info "chr6,135497803,135498000,+" ; tag basic TAGENE exp_conf ; transcript_id "LINC00271--ALDH5A1^ENST00000421378.3" ; transcript_name "LINC00271-201" ; transcript_support_level 1 ; transcript_type lncRNA
L1 and L2 created:
PTPRK--AL356534.1 HAVANA gene 120183 121476 . + . FI_gene_label "AL356534.1^ENSG00000286215.1" ; ID "PTPRK--AL356534.1^AL356534.1^ENSG00000286215.1" ; exon_id "ENSE00001556513.3" ; exon_number 1 ; gene_id "PTPRK--AL356534.1^AL356534.1^ENSG00000286215.1" ; gene_name "AL356534.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000015519.5" ; havana_transcript "OTTHUMT00000042107.4" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr6,126602356,126603649,-" ; tag pseudo_consens basic ; transcript_id "PTPRK--AL356534.1^ENST00000402383.3" ; transcript_name "AL356534.1-205" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
PTPRK--AL356534.1 HAVANA RNA 120183 121476 . + . FI_gene_label "AL356534.1^ENSG00000286215.1" ; ID "PTPRK--AL356534.1^ENST00000402383.3" ; Parent "PTPRK--AL356534.1^AL356534.1^ENSG00000286215.1" ; exon_id "ENSE00001556513.3" ; exon_number 1 ; gene_id "PTPRK--AL356534.1^AL356534.1^ENSG00000286215.1" ; gene_name "AL356534.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000015519.5" ; havana_transcript "OTTHUMT00000042107.4" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr6,126602356,126603649,-" ; tag pseudo_consens basic ; transcript_id "PTPRK--AL356534.1^ENST00000402383.3" ; transcript_name "AL356534.1-205" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
L1 and L2 created:
PTPRK--AL445250.1 HAVANA gene 53185 58340 . + . FI_gene_label "AL445250.1^ENSG00000225096.3" ; ID "PTPRK--AL445250.1^AL445250.1^ENSG00000225096.3" ; exon_id "ENSE00003813363.2" ; exon_number 1 ; gene_id "PTPRK--AL445250.1^AL445250.1^ENSG00000225096.3" ; gene_name "AL445250.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000014930.14" ; havana_transcript "OTTHUMT00000493658.2" ; level 2 ; orig_coord_info "chr6,57961530,57961742,+" ; tag TAGENE ; transcript_id "PTPRK--AL445250.1^ENST00000420759.3" ; transcript_name "AL445250.1-202" ; transcript_support_level 5 ; transcript_type lncRNA
PTPRK--AL445250.1 HAVANA RNA 53185 58340 . + . FI_gene_label "AL445250.1^ENSG00000225096.3" ; ID "PTPRK--AL445250.1^ENST00000420759.3" ; Parent "PTPRK--AL445250.1^AL445250.1^ENSG00000225096.3" ; exon_id "ENSE00003813363.2" ; exon_number 1 ; gene_id "PTPRK--AL445250.1^AL445250.1^ENSG00000225096.3" ; gene_name "AL445250.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000014930.14" ; havana_transcript "OTTHUMT00000493658.2" ; level 2 ; orig_coord_info "chr6,57961530,57961742,+" ; tag TAGENE ; transcript_id "PTPRK--AL445250.1^ENST00000420759.3" ; transcript_name "AL445250.1-202" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2--AC240565.1 HAVANA gene 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
TLK2--AC240565.1 HAVANA RNA 40046 48301 . + . FI_gene_label "AC240565.1^ENSG00000280136.2" ; ID "TLK2--AC240565.1^ENST00000624936.2" ; Parent "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; exon_id "ENSE00003756821.1" ; exon_number 1 ; gene_id "TLK2--AC240565.1^AC240565.1^ENSG00000280136.2" ; gene_name "AC240565.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000189256.2" ; havana_transcript "OTTHUMT00000479189.2" ; level 2 ; orig_coord_info "chr17,118383,118578,-" ; tag not_best_in_genome_evidence basic ; transcript_id "TLK2--AC240565.1^ENST00000624936.2" ; transcript_name "AC240565.1-201" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
TLK2P1--AC110079.1 HAVANA RNA 1001 4192 . + . FI_gene_label "TLK2P1^ENSG00000226049.3" ; ID "TLK2P1--AC110079.1^ENST00000530992.1" ; Parent "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; exon_id "ENSE00002174619.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^TLK2P1^ENSG00000226049.3" ; gene_name TLK2P1 ; gene_type processed_pseudogene ; havana_gene "OTTHUMG00000166422.1" ; havana_transcript "OTTHUMT00000389700.1" ; hgnc_id "HGNC:18048" ; level 1 ; ont "PGO:0000004" ; orig_coord_info "chr17,34036681,34039872,-" ; tag pseudo_consens basic ; transcript_id "TLK2P1--AC110079.1^ENST00000530992.1" ; transcript_name "TLK2P1-201" ; transcript_support_level NA ; transcript_type processed_pseudogene
L1 and L2 created:
TLK2P1--AC110079.1 HAVANA gene 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
TLK2P1--AC110079.1 HAVANA RNA 7193 19707 . + . FI_gene_label "AC110079.1^ENSG00000260404.3" ; ID "TLK2P1--AC110079.1^ENST00000567913.2" ; Parent "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; exon_id "ENSE00002625896.1" ; exon_number 1 ; gene_id "TLK2P1--AC110079.1^AC110079.1^ENSG00000260404.3" ; gene_name "AC110079.1" ; gene_type transcribed_unprocessed_pseudogene ; havana_gene "OTTHUMG00000161164.4" ; havana_transcript "OTTHUMT00000364170.2" ; level 2 ; orig_coord_info "chr4,118591773,118591895,+" ; tag dotter_confirmed basic ; transcript_id "TLK2P1--AC110079.1^ENST00000567913.2" ; transcript_name "AC110079.1-201" ; transcript_support_level 5 ; transcript_type processed_transcript
L1 and L2 created:
UTRN--AL138828.1 HAVANA gene 111541 119363 . + . FI_gene_label "AL138828.1^ENSG00000237596.7" ; ID "UTRN--AL138828.1^AL138828.1^ENSG00000237596.7" ; exon_id "ENSE00001775115.1" ; exon_number 1 ; gene_id "UTRN--AL138828.1^AL138828.1^ENSG00000237596.7" ; gene_name "AL138828.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000015640.6" ; havana_transcript "OTTHUMT00000042369.1" ; level 2 ; orig_coord_info "chr6,136064381,136064638,-" ; tag basic ; transcript_id "UTRN--AL138828.1^ENST00000413745.3" ; transcript_name "AL138828.1-204" ; transcript_support_level 5 ; transcript_type lncRNA
UTRN--AL138828.1 HAVANA RNA 111541 119363 . + . FI_gene_label "AL138828.1^ENSG00000237596.7" ; ID "UTRN--AL138828.1^ENST00000413745.3" ; Parent "UTRN--AL138828.1^AL138828.1^ENSG00000237596.7" ; exon_id "ENSE00001775115.1" ; exon_number 1 ; gene_id "UTRN--AL138828.1^AL138828.1^ENSG00000237596.7" ; gene_name "AL138828.1" ; gene_type lncRNA ; havana_gene "OTTHUMG00000015640.6" ; havana_transcript "OTTHUMT00000042369.1" ; level 2 ; orig_coord_info "chr6,136064381,136064638,-" ; tag basic ; transcript_id "UTRN--AL138828.1^ENST00000413745.3" ; transcript_name "AL138828.1-204" ; transcript_support_level 5 ; transcript_type lncRNA
L1 and L2 created:
ZFAND3--AL356534.1 HAVANA gene 84196 85489 . + . FI_gene_label "AL356534.1^ENSG00000286215.1" ; ID "ZFAND3--AL356534.1^AL356534.1^ENSG00000286215.1" ; exon_id "ENSE00001556513.3" ; exon_number 1 ; gene_id "ZFAND3--AL356534.1^AL356534.1^ENSG00000286215.1" ; gene_name "AL356534.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000015519.5" ; havana_transcript "OTTHUMT00000042107.4" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr6,126602356,126603649,-" ; tag pseudo_consens basic ; transcript_id "ZFAND3--AL356534.1^ENST00000402383.3" ; transcript_name "AL356534.1-205" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
ZFAND3--AL356534.1 HAVANA RNA 84196 85489 . + . FI_gene_label "AL356534.1^ENSG00000286215.1" ; ID "ZFAND3--AL356534.1^ENST00000402383.3" ; Parent "ZFAND3--AL356534.1^AL356534.1^ENSG00000286215.1" ; exon_id "ENSE00001556513.3" ; exon_number 1 ; gene_id "ZFAND3--AL356534.1^AL356534.1^ENSG00000286215.1" ; gene_name "AL356534.1" ; gene_type transcribed_processed_pseudogene ; havana_gene "OTTHUMG00000015519.5" ; havana_transcript "OTTHUMT00000042107.4" ; level 1 ; ont "PGO:0000004" "PGO:0000019" ; orig_coord_info "chr6,126602356,126603649,-" ; tag pseudo_consens basic ; transcript_id "ZFAND3--AL356534.1^ENST00000402383.3" ; transcript_name "AL356534.1-205" ; transcript_support_level NA ; transcript_type transcribed_processed_pseudogene
617 cases fixed where L3 features have parent feature(s) missing
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--------------------------- Check5: l1 linked to l2 ----------------------------
No problem found
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--------------------------- Check6: remove orphan l1 ---------------------------
We remove only those not supposed to be orphan
None found
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------------------------- Check7: all level3 locations -------------------------
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------------------------------ Check8: check cds -------------------------------
No problem found
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----------------------------- Check9: check exons ------------------------------
No exons created
No exons locations modified
No supernumerary exons removed
No level2 locations modified
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----------------------------- Check10: check utrs ------------------------------
830 UTRs created that were missing
No UTRs locations modified
No supernumerary UTRs removed
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------------------------ Check11: all level2 locations -------------------------
No problem found
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------------------------ Check12: all level1 locations -------------------------
We fixed 45 wrong level1 location cases
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---------------------- Check13: remove identical isoforms ----------------------
None found
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------ End checks (done in 1 second) ------
GFF3 file parsed