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

Gene ID: 27336, updated on 10-Dec-2024

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; AllianceGenome:HGNC:5276
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
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Genomic context

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See HTATSF1 in Genome Data Viewer
Location:
Xq26.3
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (136497229..136512346)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (134805972..134821090)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (135579388..135594505)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene adhesion G protein-coupled receptor G4 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chrX:135434931-135436130 Neighboring gene MED14-independent group 3 enhancer GRCh37_chrX:135468612-135469811 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 21027 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: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 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. Human Tat-specific factor 1 binds the HIV-1 genome and selectively transports HIV-1 RNAs. Hulver MJ, et al. Mol Biol Rep, 2020 Mar. PMID 32016635
  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. 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
  5. The pre-mRNA splicing and transcription factor Tat-SF1 is a functional partner of the spliceosome SF3b1 subunit via a U2AF homology motif interface. Loerch S, et al. J Biol Chem, 2019 Feb 22. PMID 30567737, Free PMC Article

See all (120) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Human Tat-specific factor 1 binds the HIV-1 genome and selectively transports HIV-1 RNAs.
    Title: Human Tat-specific factor 1 binds the HIV-1 genome and selectively transports HIV-1 RNAs.
  2. 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.
  3. 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.
  4. 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.
  5. 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.
  6. 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.
  7. 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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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)

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
enables RNA binding HDA PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chromatin-protein adaptor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables poly-ADP-D-ribose modification-dependent protein binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in U2-type prespliceosome assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in U2-type prespliceosome assembly NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in double-strand break repair via homologous recombination IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in mRNA splicing, via spliceosome NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in protein localization to site of double-strand break IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
part_of U2 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2 snRNP NAS
Non-traceable Author Statement
more info
 PubMed 
part_of U2-type spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2-type spliceosomal complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus NAS
Non-traceable Author Statement
more info
 PubMed 
is_active_in site of double-strand break IDA
Inferred from Direct Assay
more info
 PubMed 
part_of spliceosomal complex NAS
Non-traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
17S U2 SnRNP complex component HTATSF1
Names
HIV TAT specific factor 1
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_001163280.2 → NP_001156752.1  17S U2 SnRNP complex component HTATSF1

    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
    D3DWG9, O43719, Q59G06, Q99730
    UniProtKB/TrEMBL
    B4DRS4
    Related
    ENSP00000442699.1, ENST00000535601.5
    Conserved Domains (3) summary
    TIGR00927
    Location:451 → 715
    2A1904; K+-dependent Na+/Ca+ exchanger
    cd12281
    Location:132 → 222
    RRM1_TatSF1_like; RNA recognition motif 1 (RRM1) found in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cd12282
    Location:263 → 353
    RRM2_TatSF1_like; RNA recognition motif 2 (RRM2) found in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

  2. NM_014500.5 → NP_055315.2  17S U2 SnRNP complex component HTATSF1

    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
    D3DWG9, O43719, Q59G06, Q99730
    UniProtKB/TrEMBL
    B4DRS4
    Related
    ENSP00000218364.4, ENST00000218364.5
    Conserved Domains (3) summary
    TIGR00927
    Location:451 → 715
    2A1904; K+-dependent Na+/Ca+ exchanger
    cd12281
    Location:132 → 222
    RRM1_TatSF1_like; RNA recognition motif 1 (RRM1) found in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
    cd12282
    Location:263 → 353
    RRM2_TatSF1_like; RNA recognition motif 2 (RRM2) found in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    136497229..136512346
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    134805972..134821090
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O43719.1 GenPept UniProtKB/Swiss-Prot:O43719

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