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    Scaf11 SR-related CTD-associated factor 11 [ Mus musculus (house mouse) ]

    Gene ID: 72193, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Scaf11provided by MGI
    Official Full Name
    SR-related CTD-associated factor 11provided by MGI
    Primary source
    MGI:MGI:1919443
    See related
    Ensembl:ENSMUSG00000033228 AllianceGenome:MGI:1919443
    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
    SIP1; CASP11; SRRP129; Sfrs2ip; Srsf2ip; mKIAA3013; 1110061H03Rik; 2610510E10Rik
    Summary
    Predicted to be involved in spliceosomal complex assembly. Predicted to be located in nuclear body and nucleolus. Is expressed in cerebral cortex ventricular layer; diencephalon lateral wall ventricular layer; heart ventricle; midbrain ventricular layer; and telencephalon ventricular layer. Orthologous to human SCAF11 (SR-related CTD associated factor 11). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in placenta adult (RPKM 13.7), CNS E11.5 (RPKM 12.4) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Scaf11 in Genome Data Viewer
    Location:
    15 F1; 15 52.44 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (96309580..96358695, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (96411698..96460988, complement)

    Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 38469 Neighboring gene RIKEN cDNA E330033B04 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:96114695-96114804 Neighboring gene STARR-seq mESC enhancer starr_39586 Neighboring gene STARR-seq mESC enhancer starr_39587 Neighboring gene AT-rich interaction domain 2 Neighboring gene STARR-positive B cell enhancer ABC_E9160 Neighboring gene STARR-positive B cell enhancer ABC_E8609 Neighboring gene predicted gene, 41408 Neighboring gene STARR-seq mESC enhancer starr_39591 Neighboring gene STARR-seq mESC enhancer starr_39593 Neighboring gene predicted gene, 41392 Neighboring gene predicted gene, 32406

    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. Cytoplasmic LPS activates caspase-11: implications in TLR4-independent endotoxic shock. Hagar JA, et al. Science, 2013 Sep 13. PMID 24031018, Free PMC Article
    2. Splicing factor TRA2B is required for neural progenitor survival. Roberts JM, et al. J Comp Neurol, 2014 Feb 1. PMID 23818142, Free PMC Article
    3. Functional gene screening in embryonic stem cells implicates Wnt antagonism in neural differentiation. Aubert J, et al. Nat Biotechnol, 2002 Dec. PMID 12447396
    4. Accelerating functional gene discovery in osteoarthritis. Butterfield NC, et al. Nat Commun, 2021 Jan 20. PMID 33473114, Free PMC Article
    5. Transcription factor Foxp3 and its protein partners form a complex regulatory network. Rudra D, et al. Nat Immunol, 2012 Oct. PMID 22922362, Free PMC Article

    See all (28) 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 (3) 

    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

    Process Evidence Code Pubs
    involved_in RNA splicing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in RNA splicing, via transesterification reactions ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spliceosomal complex assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spliceosomal complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein SCAF11
    Names
    serine/arginine-rich splicing factor 2, interacting protein
    splicing factor, arginine/serine-rich 2, interacting protein

    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_001402910.1 → NP_001389839.1  protein SCAF11 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC133578, AC158769

    2. NM_001402911.1 → NP_001389840.1  protein SCAF11 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC133578, AC158769

    3. NM_028148.3 → NP_082424.2  protein SCAF11 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC133578, AC158769
      Consensus CDS
      CCDS37186.1
      UniProtKB/TrEMBL
      E9PZM7, Q6ZPE9
      Related
      ENSMUSP00000044898.7, ENSMUST00000047835.8
      Conserved Domains (1) summary
      pfam13639
      Location:39 → 82
      zf-RING_2; Ring finger domain

    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_000081.7 Reference GRCm39 C57BL/6J

      Range
      96309580..96358695 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030248784.2 → XP_030104644.1  protein SCAF11 isoform X3

      UniProtKB/TrEMBL
      Q9CSS1
      Conserved Domains (2) summary
      PRK12678
      Location:627 → 863
      PRK12678; transcription termination factor Rho; Provisional
      pfam04625
      Location:1076 → 1265
      DEC-1_N; DEC-1 protein, N-terminal region
    Nucleotide Protein Strain
    Heading Accession and Version

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