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    Scaf8 SR-related CTD-associated factor 8 [ Mus musculus (house mouse) ]

    Gene ID: 106583, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Scaf8provided by MGI
    Official Full Name
    SR-related CTD-associated factor 8provided by MGI
    Primary source
    MGI:MGI:1925212
    See related
    Ensembl:ENSMUSG00000046201 AllianceGenome:MGI:1925212
    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
    Rbm16; mKIAA1116; A630086M08Rik; A930036P18Rik
    Summary
    Predicted to enable RNA polymerase II C-terminal domain phosphoserine binding activity; mRNA binding activity; and protein domain specific binding activity. Predicted to be involved in RNA metabolic process and regulation of DNA-templated transcription. Predicted to be located in nuclear matrix and nucleoplasm. Predicted to be part of mRNA cleavage factor complex. Predicted to be active in cytoplasm. Is expressed in central nervous system and sensory organ. Orthologous to human SCAF8 (SR-related CTD associated factor 8). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 17.4), limb E14.5 (RPKM 13.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Scaf8 in Genome Data Viewer
    Location:
    17 A1; 17 1.96 cM
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (3165247..3249134)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (3114972..3198859)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA A230045G11 gene Neighboring gene NLR family, pyrin domain containing 2 pseudogene Neighboring gene solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 pseudogene Neighboring gene 60S ribosomal protein L34 pseudogene Neighboring gene myosin, light chain 12B, regulatory pseudogene Neighboring gene STARR-seq mESC enhancer starr_41652 Neighboring gene predicted gene, 34035 Neighboring gene STARR-seq mESC enhancer starr_41654 Neighboring gene CD2-associated protein pseudogene

    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. Oct4 links multiple epigenetic pathways to the pluripotency network. Ding J, et al. Cell Res, 2012 Jan. PMID 22083510, Free PMC Article
    2. 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
    3. Tagging genes with cassette-exchange sites. Cobellis G, et al. Nucleic Acids Res, 2005 Mar 1. PMID 15741177, Free PMC Article
    4. Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Feb 28. PMID 12693553
    5. Hdac4 Interactions in Huntington's Disease Viewed Through the Prism of Multiomics. Federspiel JD, et al. Mol Cell Proteomics, 2019 Aug 9. PMID 31040226, Free PMC Article

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

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

    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

    Clone Names

    • KIAA1116

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables RNA polymerase II C-terminal domain phosphoserine binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II C-terminal domain phosphoserine binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables RNA polymerase II complex binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase core enzyme binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of DNA-templated transcription, elongation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription, elongation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in termination of RNA polymerase II transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of mRNA cleavage factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nuclear matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear matrix 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
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    SR-related and CTD-associated factor 8
    Names
    CTD-binding SR-like protein rA8
    RNA binding motif protein 16
    SR-like CTD-associated factor 8
    protein SCAF8
    putative RNA-binding protein 16

    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_134123.3 → NP_598884.2  SR-related and CTD-associated factor 8

      See identical proteins and their annotated locations for NP_598884.2

      Status: VALIDATED

      Source sequence(s)
      AK042381, BC075621, CA560428
      Consensus CDS
      CCDS49927.1
      UniProtKB/Swiss-Prot
      Q3TTX6, Q5U5V8, Q6DID3, Q80TJ3, Q8C037
      Related
      ENSMUSP00000076024.7, ENSMUST00000076734.8
      Conserved Domains (3) summary
      PHA03247
      Location:611 → 1079
      PHA03247; large tegument protein UL36; Provisional
      cd12462
      Location:475 → 553
      RRM_SCAF8; RNA recognition motif in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins
      cd17004
      Location:5 → 135
      CID_SCAF8; CID (CTD-Interacting Domain) of SR-related and CTD-associated factor 8

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      3165247..3249134
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_177053.1: Suppressed sequence

      Description
      NM_177053.1: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6DID3.1 GenPept UniProtKB/Swiss-Prot:Q6DID3

    Gene LinkOut

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

    Chemical Information
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