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

Gene ID: 72459, updated on 11-Apr-2024

Summary

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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. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nucleoplasm. Predicted to be part of U2 snRNP and U2-type spliceosomal complex. Is expressed in brain; embryo; limb; limb mesenchyme; and nervous system. Orthologous to human HTATSF1 (HIV-1 Tat specific factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 27.5), placenta adult (RPKM 19.4) and 27 other tissues See more
Orthologs
human all
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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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. 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
  5. Phosphoproteomic analysis of the developing mouse brain. Ballif BA, et al. Mol Cell Proteomics, 2004 Nov. PMID 15345747

See all (23) 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

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Alleles

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

Pathways from PubChem

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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 MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chromatin-protein adaptor activity ISO
Inferred from Sequence Orthology
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables poly-ADP-D-ribose modification-dependent protein binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within DNA damage response IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within DNA repair IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in U2-type prespliceosome assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in double-strand break repair via homologous recombination ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in protein localization to site of double-strand break ISO
Inferred from Sequence Orthology
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
  
located_in chromosome IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
is_active_in site of double-strand break ISO
Inferred from Sequence Orthology
more info
  
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
17S U2 SnRNP complex component HTATSF1
Names
HIV Tat-specific factor 1 homolog

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.

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.

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