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

Gene ID: 72193, updated on 26-Sep-2022

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 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, Apr 2022]
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; 15 F1
Exon count:
16
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (96309579..96358886, 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 AT rich interactive domain 2 (ARID, RFX-like) Neighboring gene predicted gene, 41408 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
  • 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 (26) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

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
 PubMed 
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: Mus musculus Annotation Release 109 details...Open this link in a new tab

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
    96309579..96358886 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006521430.4 → XP_006521493.1  protein SCAF11 isoform X1

    Conserved Domains (3) summary
    PRK12678
    Location:787 → 1023
    PRK12678; transcription termination factor Rho; Provisional
    cd16636
    Location:40 → 82
    mRING-HC-C3HC3D_SCAF11; Modified RING finger, HC subclass (C3HC3D-type), found in SR-related and CTD-associated factor 11 (SCAF11) and similar proteins
    pfam04625
    Location:1236 → 1425
    DEC-1_N; DEC-1 protein, N-terminal region

  2. XM_011245736.3 → XP_011244038.1  protein SCAF11 isoform X2

    Conserved Domains (3) summary
    PRK12678
    Location:761 → 997
    PRK12678; transcription termination factor Rho; Provisional
    pfam04625
    Location:1210 → 1399
    DEC-1_N; DEC-1 protein, N-terminal region
    cl17238
    Location:40 → 75
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

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

    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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