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GATD1-DT GATD1 divergent transcript [ Homo sapiens (human) ]

Gene ID: 171391, updated on 10-Oct-2023

Summary

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Official Symbol
GATD1-DTprovided by HGNC
Official Full Name
GATD1 divergent transcriptprovided by HGNC
Primary source
HGNC:HGNC:29907
See related
Ensembl:ENSG00000255284
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NS3BP
Expression
Ubiquitous expression in fat (RPKM 4.1), skin (RPKM 2.6) and 24 other tissues See more
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Genomic context

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Location:
11p15.5
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (777578..784297)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (829013..835732)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (777578..784297)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene hESC enhancers GRCh37_chr11:746448-747096 and GRCh37_chr11:747097-747745 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3025 Neighboring gene transaldolase 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:762588-763787 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:765339-765752 Neighboring gene glutamine amidotransferase class 1 domain containing 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3026 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3027 Neighboring gene uncharacterized LOC124900301 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3028 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr11:783107-783794 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr11:783795-784482 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3029 Neighboring gene cell cycle exit and neuronal differentiation 1 Neighboring gene solute carrier family 25 member 22 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:794229-794747 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:795266-795784 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3032 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:796302-796820 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4279 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4280 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4281 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:797857-798373 Neighboring gene proapoptotic nucleolar protein 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Clone Names

  • FLJ94808, AP006621.5

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

RNA

  1. NR_126342.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains an alternate exon in the 5' region and lacks an alternate segment in the 3' region, resulting in a shorter transcript compared to variant 1.
    Source sequence(s)
    AP006621, BU156985, DB473307
    Related
    ENST00000525941.1

  2. NR_126343.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    BF529437, BU156985, DB473307

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    777578..784297
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    829013..835732
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_138291.1: Suppressed sequence

    Description
    NM_138291.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.

  2. NR_046316.1: Suppressed sequence

    Description
    NR_046316.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
Nucleotide Protein
Heading Accession and Version

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