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    htatsf1 HIV-1 Tat specific factor 1 [ Danio rerio (zebrafish) ]

    Gene ID: 394178, updated on 9-Dec-2024

    Summary

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    Official Symbol
    htatsf1provided by ZNC
    Official Full Name
    HIV-1 Tat specific factor 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1578
    See related
    Ensembl:ENSDARG00000056649 AllianceGenome:ZFIN:ZDB-GENE-040426-1578
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:66252
    Summary
    Predicted to enable RNA binding activity. Predicted to act upstream of or within mRNA splicing, via spliceosome. Predicted to be part of U2 snRNP and U2-type spliceosomal complex. Orthologous to human HTATSF1 (HIV-1 Tat specific factor 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See htatsf1 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (26652867..26667243)
    105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (26691154..26705530)

    Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene four and a half LIM domains 1b Neighboring gene adhesion G-protein coupled receptor G6-like Neighboring gene si:ch73-52f15.5 Neighboring gene teleost multiple tissue opsin 3b

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC66252

    Gene Ontology Provided by ZFIN

    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 nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    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
    		  

    General protein information

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    Preferred Names
    17S U2 SnRNP complex component HTATSF1
    Names
    HIV TAT specific factor 1

    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_201203.1 → NP_957497.1  17S U2 SnRNP complex component HTATSF1

      See identical proteins and their annotated locations for NP_957497.1

      Status: PROVISIONAL

      Source sequence(s)
      BC055565
      UniProtKB/TrEMBL
      Q7SXJ9
      Related
      ENSDARP00000073630.4, ENSDART00000079174.5
      Conserved Domains (3) summary
      COG0724
      Location:110 → 299
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12281
      Location:137 → 227
      RRM1_TatSF1_like; RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins
      cd12282
      Location:267 → 357
      RRM2_TatSF1_like; RNA recognition motif 2 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007121.7 Reference GRCz11 Primary Assembly

      Range
      26652867..26667243
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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