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    Sfswap splicing factor SWAP [ Mus musculus (house mouse) ]

    Gene ID: 231769, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Sfswapprovided by MGI
    Official Full Name
    splicing factor SWAPprovided by MGI
    Primary source
    MGI:MGI:101760
    See related
    Ensembl:ENSMUSG00000029439 AllianceGenome:MGI:101760
    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
    SWAP; Sfrs8; Srsf8; 1190005N23Rik; 6330437E22Rik
    Summary
    Predicted to enable RNA binding activity. Acts upstream of or within alternative mRNA splicing, via spliceosome and mRNA 5'-splice site recognition. Predicted to be located in nucleus. Is expressed in central nervous system and retina. Orthologous to human SFSWAP (splicing factor SWAP). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E18 (RPKM 33.7), CNS E14 (RPKM 31.0) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    5 G1.3; 5 68.13 cM
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (129578286..129648448)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (129501231..129571384)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 54304 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:130006893-130007076 Neighboring gene predicted gene, 34468 Neighboring gene predicted gene, 40333 Neighboring gene predicted gene, 40332 Neighboring gene STARR-positive B cell enhancer ABC_E6385 Neighboring gene matrix metallopeptidase 17 Neighboring gene predicted gene 6139

    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. Conservation of regulated alternative splicing and identification of functional domains in vertebrate homologs to the Drosophila splicing regulator, suppressor-of-white-apricot. Denhez F, et al. J Biol Chem, 1994 Jun 10. PMID 8206918
    2. The mammalian homolog of suppressor-of-white-apricot regulates alternative mRNA splicing of CD45 exon 4 and fibronectin IIICS. Sarkissian M, et al. J Biol Chem, 1996 Dec 6. PMID 8940107
    3. A differentially expressed murine RNA encoding a protein with similarities to two types of nucleic acid binding motifs. Ayane M, et al. Nucleic Acids Res, 1991 Mar 25. PMID 2030943, Free PMC Article
    4. Splicing factor TRA2B is required for neural progenitor survival. Roberts JM, et al. J Comp Neurol, 2014 Feb 1. PMID 23818142, Free PMC Article
    5. A rational nomenclature for serine/arginine-rich protein splicing factors (SR proteins). Manley JL, et al. Genes Dev, 2010 Jun 1. PMID 20516191, Free PMC Article

    See all (25) 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)
    • Transgenic (1) 
    • Endonuclease-mediated (2) 

    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

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within alternative mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in mRNA 5'-splice site recognition IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within mRNA 5'-splice site recognition IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    splicing factor, suppressor of white-apricot homolog
    Names
    serine/arginine-rich splicing factor 8
    splicing factor, arginine/serine-rich 8
    suppressor of white apricot protein homolog

    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_001359952.1 → NP_001346881.1  splicing factor, suppressor of white-apricot homolog isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC114614, AC114657
      Conserved Domains (1) summary
      smart00648
      Location:83 → 136
      SWAP; Suppressor-of-White-APricot splicing regulator

    2. NM_001378915.1 → NP_001365844.1  splicing factor, suppressor of white-apricot homolog isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC114614, AC114657
      Conserved Domains (2) summary
      smart00648
      Location:209 → 262
      SWAP; Suppressor-of-White-APricot splicing regulator
      pfam09750
      Location:35 → 155
      DRY_EERY; Alternative splicing regulator

    3. NM_001378916.1 → NP_001365845.1  splicing factor, suppressor of white-apricot homolog isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC114614, AC114657
      Conserved Domains (2) summary
      smart00648
      Location:209 → 262
      SWAP; Suppressor-of-White-APricot splicing regulator
      pfam09750
      Location:35 → 155
      DRY_EERY; Alternative splicing regulator

    4. NM_001378917.1 → NP_001365846.1  splicing factor, suppressor of white-apricot homolog isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC114614, AC114657
      Conserved Domains (2) summary
      smart00648
      Location:209 → 262
      SWAP; Suppressor-of-White-APricot splicing regulator
      pfam09750
      Location:35 → 155
      DRY_EERY; Alternative splicing regulator

    5. NM_172276.3 → NP_758480.2  splicing factor, suppressor of white-apricot homolog isoform 1

      See identical proteins and their annotated locations for NP_758480.2

      Status: VALIDATED

      Source sequence(s)
      AK140369, AW121884, BC057314, BY277733
      Consensus CDS
      CCDS19694.1
      UniProtKB/Swiss-Prot
      Q3USH5, Q8CCZ1
      Related
      ENSMUSP00000062413.8, ENSMUST00000053737.9
      Conserved Domains (3) summary
      smart00648
      Location:209 → 262
      SWAP; Suppressor-of-White-APricot splicing regulator
      pfam01346
      Location:634 → 674
      FKBP_N; Domain amino terminal to FKBP-type peptidyl-prolyl isomerase
      pfam09750
      Location:35 → 155
      DRY_EERY; Alternative splicing regulator

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      129578286..129648448
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011240841.4 → XP_011239143.1  splicing factor, suppressor of white-apricot homolog isoform X1

      See identical proteins and their annotated locations for XP_011239143.1

      Conserved Domains (1) summary
      smart00648
      Location:83 → 136
      SWAP; Suppressor-of-White-APricot splicing regulator

    2. XM_017320872.2 → XP_017176361.1  splicing factor, suppressor of white-apricot homolog isoform X4

      Conserved Domains (1) summary
      smart00648
      Location:83 → 136
      SWAP; Suppressor-of-White-APricot splicing regulator

    3. XM_006504305.4 → XP_006504368.1  splicing factor, suppressor of white-apricot homolog isoform X5

      Conserved Domains (1) summary
      smart00648
      Location:83 → 136
      SWAP; Suppressor-of-White-APricot splicing regulator

    4. XM_030254434.2 → XP_030110294.1  splicing factor, suppressor of white-apricot homolog isoform X6

      Conserved Domains (1) summary
      smart00648
      Location:2 → 55
      SWAP; Suppressor-of-White-APricot splicing regulator

    5. XM_030254435.2 → XP_030110295.1  splicing factor, suppressor of white-apricot homolog isoform X7

      Related
      ENSMUST00000199925.5
      Conserved Domains (1) summary
      smart00648
      Location:2 → 55
      SWAP; Suppressor-of-White-APricot splicing regulator

    6. XM_006504303.5 → XP_006504366.1  splicing factor, suppressor of white-apricot homolog isoform X1

      See identical proteins and their annotated locations for XP_006504366.1

      Conserved Domains (1) summary
      smart00648
      Location:83 → 136
      SWAP; Suppressor-of-White-APricot splicing regulator

    7. XM_036165095.1 → XP_036020988.1  splicing factor, suppressor of white-apricot homolog isoform X3

      Conserved Domains (2) summary
      smart00648
      Location:209 → 262
      SWAP; Suppressor-of-White-APricot splicing regulator
      pfam09750
      Location:35 → 155
      DRY_EERY; Alternative splicing regulator

    8. XM_006504302.5 → XP_006504365.1  splicing factor, suppressor of white-apricot homolog isoform X1

      See identical proteins and their annotated locations for XP_006504365.1

      Conserved Domains (1) summary
      smart00648
      Location:83 → 136
      SWAP; Suppressor-of-White-APricot splicing regulator

    9. XM_030254433.2 → XP_030110293.1  splicing factor, suppressor of white-apricot homolog isoform X2

      Conserved Domains (1) summary
      smart00648
      Location:83 → 136
      SWAP; Suppressor-of-White-APricot splicing regulator

    RNA

    1. XR_377056.3 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001035259.1: Suppressed sequence

      Description
      NM_001035259.1: This RefSeq was permanently suppressed because it was primarily intronic sequence.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3USH5.2 GenPept UniProtKB/Swiss-Prot:Q3USH5

    Gene LinkOut

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