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    Scaf4 SR-related CTD-associated factor 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 245924, updated on 10-Oct-2019

    Summary

    Official Symbol
    Scaf4provided by RGD
    Official Full Name
    SR-related CTD-associated factor 4provided by RGD
    Primary source
    RGD:727896
    See related
    Ensembl:ENSRNOG00000002104
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Sfrs15; Srsf15
    Summary
    interacts with the repetitive C-terminal domain (CTD) of RNA polymerase II; may be involved in pre-mRNA processing [RGD, Feb 2006]
    Expression
    Biased expression in Spleen (RPKM 44.7), Kidney (RPKM 40.2) and 9 other tissues See more
    Orthologs

    Genomic context

    See Scaf4 in Genome Data Viewer
    Location:
    11q11
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (30371713..30428073, complement)
    106 current Rn_Celera (GCF_000002265.2) 11 AC_000079.1 (29152167..29208170, complement)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 11 NC_005110.3 (33987199..34047580, complement)

    Chromosome 11 - NC_005110.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102552925 Neighboring gene superoxide dismutase 1 Neighboring gene CEBPZ opposite strand, pseudogene 1 Neighboring gene uncharacterized LOC103693515

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    RNA binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    RNA polymerase II C-terminal domain phosphoserine binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    RNA polymerase II C-terminal domain phosphoserine binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    protein C-terminus binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    SR-related and CTD-associated factor 4
    Names
    CTD-binding SR-like protein rA4
    serine/arginine-rich splicing factor 15
    splicing factor, arginine/serine-rich 15

    NCBI Reference Sequences (RefSeq)

    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_001037347.2NP_001032424.2  SR-related and CTD-associated factor 4

      Status: VALIDATED

      Source sequence(s)
      AY387086, U49058
      UniProtKB/TrEMBL
      Q6TUE4
      Related
      ENSRNOP00000047258.4, ENSRNOT00000047741.6
      Conserved Domains (5) summary
      smart00582
      Location:6134
      RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
      COG0724
      Location:565649
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12461
      Location:570650
      RRM_SCAF4; RNA recognition motif found in SR-related and CTD-associated factor 4 (SCAF4) and similar proteins
      pfam08648
      Location:10491169
      DUF1777; Protein of unknown function (DUF1777)
      pfam12871
      Location:10461115
      PRP38_assoc; Pre-mRNA-splicing factor 38-associated hydrophilic C-term

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005110.4 Reference Rnor_6.0 Primary Assembly

      Range
      30371713..30428073 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Rn_Celera

    Genomic

    1. AC_000079.1 Alternate Rn_Celera

      Range
      29152167..29208170 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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