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

Gene ID: 27336, updated on 12-Oct-2019

Summary

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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
mouse all

Genomic context

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See HTATSF1 in Genome Data Viewer
Location:
Xq26.3
Exon count:
10
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 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

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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. Impact of sustained RNAi-mediated suppression of cellular cofactor Tat-SF1 on HIV-1 replication in CD4+ T cells. Green VA, et al. Virol J, 2012 Nov 15. PMID 23153325, Free PMC Article
  2. Identification of Tat-SF1 cellular targets by exon array analysis reveals dual roles in transcription and splicing. Miller HB, et al. RNA, 2011 Apr. PMID 21282347, Free PMC Article
  3. Soluble HIV-1 gp120 enhances HIV-1 replication in non-dividing CD4+ T cells, mediated via cell signaling and Tat cofactor overexpression. Missé D, et al. AIDS, 2005 Jun 10. PMID 15905670
  4. Tat-SF1 is not required for Tat transactivation but does regulate the relative levels of unspliced and spliced HIV-1 RNAs. Miller HB, et al. PLoS One, 2009 May 27. PMID 19479034, Free PMC Article
  5. DSIF, the Paf1 complex, and Tat-SF1 have nonredundant, cooperative roles in RNA polymerase II elongation. Chen Y, et al. Genes Dev, 2009 Dec 1. PMID 19952111, Free PMC Article

See all (69) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. This study validates Tat-SF1 as an HDF in CD4+ T cell-derived SupT1 cells.
    Title: Impact of sustained RNAi-mediated suppression of cellular cofactor Tat-SF1 on HIV-1 replication in CD4+ T cells.
  2. these findings suggest that Tat-SF1 functions independently in transcription and splicing of cellular genes.
    Title: Identification of Tat-SF1 cellular targets by exon array analysis reveals dual roles in transcription and splicing.
  3. Tat-SF1 is not required for regulating HIV-1 transcription, but is required for maintaining the ratios of different classes of HIV-1 transcripts.
    Title: Tat-SF1 is not required for Tat transactivation but does regulate the relative levels of unspliced and spliced HIV-1 RNAs.
  4. phosphorylated by P-TEFb kinase during HIV-1 transcription in Tat/TAR dependent manner
    Title: Coordination of transcription factor phosphorylation and histone methylation by the P-TEFb kinase during human immunodeficiency virus type 1 transcription.
  5. Intracellular HIV-1 Tat protein represses constitutive LMP2 transcription increasing proteasome activity by interfering with the binding of IRF-1 to STAT1
    Title: Intracellular HIV-1 Tat protein represses constitutive LMP2 transcription increasing proteasome activity by interfering with the binding of IRF-1 to STAT1.
  6. These results support the notion that Tat-induced neuropathogenesis is mediated by multiple mechanisms involving both intracellular and extracellular Tat protein.
    Title: Proliferation inhibition of astrocytes, neurons, and non-glial cells by intracellularly expressed human immunodeficiency virus type 1 (HIV-1) Tat protein.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

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

HIV-1 interactions

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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

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
Process Evidence Code Pubs
mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
regulation of DNA-templated transcription, elongation TAS
Traceable Author Statement
more info
 PubMed 
regulation of transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 PubMed 
viral genome replication TAS
Traceable Author Statement
more info
 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

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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)

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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.

Genomic

  1. NG_013235.1 RefSeqGene

    Range
    5514..20268
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001163280.1 → NP_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:132 → 222
    RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cd12282
    Location:263 → 353
    RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cl27511
    Location:451 → 715
    Na_Ca_ex; Sodium/calcium exchanger protein

  2. NM_014500.5 → NP_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, ENST00000218364.5
    Conserved Domains (3) summary
    cd12281
    Location:132 → 222
    RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cd12282
    Location:263 → 353
    RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cl27511
    Location:451 → 715
    Na_Ca_ex; Sodium/calcium exchanger protein

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p13 Primary Assembly

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

mRNA and Protein(s)

  1. XM_005262404.4 → XP_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:132 → 222
    RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cd12282
    Location:263 → 353
    RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cl27511
    Location:451 → 715
    Na_Ca_ex; Sodium/calcium exchanger protein
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O43719.1 GenPept UniProtKB/Swiss-Prot:O43719

Gene LinkOut

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