U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Scaf11 SR-related CTD-associated factor 11 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312030, updated on 2-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Scaf11provided by RGD
    Official Full Name
    SR-related CTD-associated factor 11provided by RGD
    Primary source
    RGD:1598325
    See related
    EnsemblRapid:ENSRNOG00000005263 AllianceGenome:RGD:1598325
    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
    Sfrs2ip; Srsf2ip
    Summary
    Predicted to enable metal ion binding activity. Predicted to be involved in spliceosomal complex assembly. Predicted to be located in nuclear body and nucleolus. Orthologous to human SCAF11 (SR-related CTD associated factor 11). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 219.5), Spleen (RPKM 194.4) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Scaf11 in Genome Data Viewer
    Location:
    7q35
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (129450872..129503280, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (127571678..127624089, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (137804019..137856337, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120093717 Neighboring gene eukaryotic translation initiation factor 3 subunit I-like Neighboring gene AT-rich interaction domain 2 Neighboring gene uncharacterized LOC120093718 Neighboring gene small nucleolar RNA SNORA70 Neighboring gene ribosomal protein L10, pseudogene 13

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Sip1, a novel RS domain-containing protein essential for pre-mRNA splicing. Zhang WJ, et al. Mol Cell Biol, 1998 Feb. PMID 9447963, Free PMC Article
    2. FMRP recruitment of β-catenin to the translation pre-initiation complex represses translation. Ehyai S, et al. EMBO Rep, 2018 Dec. PMID 30361391, Free PMC Article
    3. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article
    4. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    5. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    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

    Go to the top of the page Help
    Preferred Names
    protein SCAF11
    Names
    SFRS2-interacting protein
    serine/arginine-rich splicing factor 2, interacting protein
    splicing factor, arginine/serine-rich 2, interacting protein

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001271170.2 → NP_001258099.1  protein SCAF11

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A6KC21
      Related
      ENSRNOP00000092745.2, ENSRNOT00000109436.2
      Conserved Domains (2) summary
      pfam04625
      Location:1217 → 1387
      DEC-1_N; DEC-1 protein, N-terminal region
      pfam13639
      Location:39 → 82
      zf-RING_2; Ring finger domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086025.1 Reference GRCr8

      Range
      129450872..129503280 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063263398.1 → XP_063119468.1  protein SCAF11 isoform X2

      Related
      ENSRNOP00000007003.9, ENSRNOT00000007003.9

    2. XM_063263397.1 → XP_063119467.1  protein SCAF11 isoform X1

      UniProtKB/TrEMBL
      D4ABH1

    3. XM_063263399.1 → XP_063119469.1  protein SCAF11 isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Other Literature Sources
    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools