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

    Gene ID: 27336, updated on 3-Nov-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
    mouse all
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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: HPA RNA-seq normal tissues 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. 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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    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
    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

    Gene LinkOut

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