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

Gene ID: 231769, updated on 2-Nov-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, Nov 2024]
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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See Sfswap in Genome Data Viewer
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 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 (27) 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) 
  • Transgenic (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

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
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 
involved_in negative regulation of mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of mRNA splicing, via spliceosome ISS
Inferred from Sequence or Structural Similarity
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

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