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TSPAN5-DT TSPAN5 divergent transcript [ Homo sapiens (human) ]

Gene ID: 105377342, updated on 10-Oct-2023

Summary

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Official Symbol
TSPAN5-DTprovided by HGNC
Official Full Name
TSPAN5 divergent transcriptprovided by HGNC
Primary source
HGNC:HGNC:55389
See related
AllianceGenome:HGNC:55389
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Low expression observed in reference dataset See more
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Genomic context

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Location:
4q23
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (98658902..98664551)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (101973856..101979505)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (99580053..99585702)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene Rap1 GTPase-GDP dissociation stimulator 1 Neighboring gene ribosomal protein L21 pseudogene 48 Neighboring gene Sharpr-MPRA regulatory region 12770 Neighboring gene tetraspanin 5 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21734 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:99457519-99458032 Neighboring gene Sharpr-MPRA regulatory region 11258 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:99518736-99519334 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21735 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:99574420-99575619 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:99579327-99579486 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15578 Neighboring gene uncharacterized LOC112267901 Neighboring gene CRISPRi-validated cis-regulatory element chr4.2289 Neighboring gene CRISPRi-validated cis-regulatory element chr4.2290 Neighboring gene mitochondrial import receptor subunit TOM7 homolog Neighboring gene basic transcription factor 3 pseudogene 13

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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Related articles in PubMed

  1. Toward a complete human genome sequence. Sanger Center, et al. Genome Res, 1998 Nov. PMID 9847074
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

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)

Genotypes

General gene information

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Clone Names

  • FLJ45087

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_148380.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC114811

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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    98658902..98664551
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    101973856..101979505
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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