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

Gene ID: 106583, updated on 2-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 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 info@ncbi.nlm.nih.gov 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.

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