U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Htatsf1 HIV TAT specific factor 1 [ Mus musculus (house mouse) ]

    Gene ID: 72459, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Htatsf1provided by MGI
    Official Full Name
    HIV TAT specific factor 1provided by MGI
    Primary source
    MGI:MGI:1919709
    See related
    Ensembl:ENSMUSG00000067873 AllianceGenome:MGI:1919709
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    TAT-SF1; 1600023H17Rik; 2600017A12Rik; 2700077B20Rik
    Summary
    Predicted to enable RNA binding activity; chromatin-protein adaptor activity; and poly-ADP-D-ribose modification-dependent protein binding activity. Predicted to be involved in U2-type prespliceosome assembly; double-strand break repair via homologous recombination; and protein localization to site of double-strand break. Predicted to be located in nucleoplasm. Predicted to be part of U2 snRNP and U2-type spliceosomal complex. Predicted to be active in site of double-strand break. Is expressed in several structures, including limb and nervous system. Orthologous to human HTATSF1 (HIV-1 Tat specific factor 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 27.5), placenta adult (RPKM 19.4) and 27 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Htatsf1 in Genome Data Viewer
    Location:
    X A6; X 30.81 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (56098930..56112543)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (57053570..57067183)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene adhesion G protein-coupled receptor G4 Neighboring gene bombesin-like receptor 3 Neighboring gene vestigial like family member 1 Neighboring gene STARR-seq mESC enhancer starr_47211 Neighboring gene predicted gene 14718

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Effects of chronic HIV-1 Tat exposure in the CNS: heightened vulnerability of males versus females to changes in cell numbers, synaptic integrity, and behavior. Hahn YK, et al. Brain Struct Funct, 2015 Mar. PMID 24352707, Free PMC Article
    2. Coordinated Control of mRNA and rRNA Processing Controls Embryonic Stem Cell Pluripotency and Differentiation. Corsini NS, et al. Cell Stem Cell, 2018 Apr 5. PMID 29625069
    3. FF domains of CA150 bind transcription and splicing factors through multiple weak interactions. Smith MJ, et al. Mol Cell Biol, 2004 Nov. PMID 15485897, Free PMC Article
    4. Imprinted X chromosome inactivation at the gamete-to-embryo transition. Wei C, et al. Mol Cell, 2024 Apr 18. PMID 38458200,
    5. A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain. McKee AE, et al. BMC Dev Biol, 2005 Jul 20. PMID 16033648, Free PMC Article

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Our results predict sex as a determinant of HIV effects in brain. Increased behavioral deficits in males correlated with glial activation and synaptic damage, both of which are implicated in cognitive/motor impairments in patients.
      Title: Effects of chronic HIV-1 Tat exposure in the CNS: heightened vulnerability of males versus females to changes in cell numbers, synaptic integrity, and behavior.
    2. CA150 FF domains recognize multiple sites within the Tat-SF1 protein conforming to the consensus motif (D/E)(2/5)-F/W/Y-(D/E)(2/5).
      Title: FF domains of CA150 bind transcription and splicing factors through multiple weak interactions.
    Submit: New GeneRIF Correction

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (1)  1 citation

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chromatin-protein adaptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin-protein adaptor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables poly-ADP-D-ribose modification-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables poly-ADP-D-ribose modification-dependent protein binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in U2-type prespliceosome assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in U2-type prespliceosome assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in double-strand break repair via homologous recombination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein localization to site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to site of double-strand break ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of U2 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type spliceosomal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in site of double-strand break ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    17S U2 SnRNP complex component HTATSF1
    Names
    HIV Tat-specific factor 1 homolog

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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.

    mRNA and Protein(s)

    1. NM_028242.2 → NP_082518.1  17S U2 SnRNP complex component HTATSF1

      See identical proteins and their annotated locations for NP_082518.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AL672263
      Consensus CDS
      CCDS40983.1
      UniProtKB/Swiss-Prot
      B1AVC7, Q1WWK0, Q8BGC0, Q9CT41, Q9DAU3
      Related
      ENSMUSP00000086027.6, ENSMUST00000088652.6
      Conserved Domains (3) summary
      COG0724
      Location:89 → 219
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12281
      Location:133 → 223
      RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
      cd12282
      Location:264 → 354
      RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

    2. NM_029371.1 → NP_083647.1  17S U2 SnRNP complex component HTATSF1

      See identical proteins and their annotated locations for NP_083647.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AI849205, AK049495, BG077525, BY134418
      Consensus CDS
      CCDS40983.1
      UniProtKB/Swiss-Prot
      B1AVC7, Q1WWK0, Q8BGC0, Q9CT41, Q9DAU3
      Conserved Domains (3) summary
      COG0724
      Location:89 → 219
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12281
      Location:133 → 223
      RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
      cd12282
      Location:264 → 354
      RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000086.8 Reference GRCm39 C57BL/6J

      Range
      56098930..56112543
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BGC0.1 GenPept UniProtKB/Swiss-Prot:Q8BGC0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous