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HTATSF1 HIV-1 Tat specific factor 1 [ Homo sapiens (human) ]

Gene ID: 27336, updated on 6-Jan-2019

Summary

Official Symbol
HTATSF1provided by HGNC
Official Full Name
HIV-1 Tat specific factor 1provided by HGNC
Primary source
HGNC:HGNC:5276
See related
Ensembl:ENSG00000102241 MIM:300346
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TATSF1; TAT-SF1; dJ196E23.2
Summary
The protein encoded by this gene functions as a cofactor for the stimulation of transcriptional elongation by HIV-1 Tat, which binds to the HIV-1 promoter through Tat-TAR interaction. This protein may also serve as a dual-function factor to couple transcription and splicing and to facilitate their reciprocal activation. Alternatively spliced transcript variants have been found for this gene.[provided by RefSeq, Sep 2009]
Expression
Ubiquitous expression in adrenal (RPKM 48.7), brain (RPKM 28.0) and 25 other tissues See more
Orthologs

Genomic context

See HTATSF1 in Genome Data Viewer
Location:
Xq26.3
Exon count:
10
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) X NC_000023.11 (136497079..136512346)
105 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (135579238..135594505)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene adhesion G protein-coupled receptor G4 Neighboring gene bombesin receptor subtype 3 Neighboring gene vestigial like family member 1 Neighboring gene microRNA 934 Neighboring gene RNA, U6 small nuclear 320, pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of HIV-1 Tat specific factor 1 (HTATSF1) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells and in CD4+ SupT1 cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Nef nef HIV-1 Nef expression in human T cell lines upregulates factors that positively regulate HIV, including Tat-SF1, U1 SNRNP, and IRF-2 PubMed
Tat tat HIV-1 Tat-mediated splicing is dependent on splicing associated factors Tat-SF1 and CA150 PubMed
tat Tat-SF1 is a required cofactor for HIV-1 Tat activity that stimulates Tat-mediated activation of the HIV-1 LTR promoter PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
Component Evidence Code Pubs
U2 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
U2-type spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
HIV Tat-specific factor 1
Names
HIV TAT specific factor 1
cofactor required for Tat activation of HIV-1 transcription

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_013235.1 RefSeqGene

    Range
    5434..20268
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001163280.1NP_001156752.1  HIV Tat-specific factor 1

    See identical proteins and their annotated locations for NP_001156752.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AB209303, BC009896, BU633070
    Consensus CDS
    CCDS14657.1
    UniProtKB/Swiss-Prot
    O43719
    Related
    ENSP00000442699.1, ENST00000535601.5
    Conserved Domains (3) summary
    cd12281
    Location:132222
    RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cd12282
    Location:263353
    RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cl27511
    Location:451715
    Na_Ca_ex; Sodium/calcium exchanger protein
  2. NM_014500.5NP_055315.2  HIV Tat-specific factor 1

    See identical proteins and their annotated locations for NP_055315.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) is missing a 5' non-coding exon, and therefore, has a different 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    BC009896, BU633070
    Consensus CDS
    CCDS14657.1
    UniProtKB/Swiss-Prot
    O43719
    Related
    ENSP00000218364.4, ENST00000218364.4
    Conserved Domains (3) summary
    cd12281
    Location:132222
    RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cd12282
    Location:263353
    RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cl27511
    Location:451715
    Na_Ca_ex; Sodium/calcium exchanger protein

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p12 Primary Assembly

    Range
    136497079..136512346
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005262404.4XP_005262461.1  HIV Tat-specific factor 1 isoform X1

    See identical proteins and their annotated locations for XP_005262461.1

    UniProtKB/Swiss-Prot
    O43719
    Conserved Domains (3) summary
    cd12281
    Location:132222
    RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cd12282
    Location:263353
    RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cl27511
    Location:451715
    Na_Ca_ex; Sodium/calcium exchanger protein
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