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    Sfswap splicing factor SWAP [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304431, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Sfswapprovided by RGD
    Official Full Name
    splicing factor SWAPprovided by RGD
    Primary source
    RGD:1305004
    See related
    EnsemblRapid:ENSRNOG00000000931 AllianceGenome:RGD:1305004
    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
    Sfrs8; Srsf8
    Summary
    Predicted to enable RNA binding activity. Involved in negative regulation of mRNA splicing, via spliceosome. Predicted to be located in nucleus. Orthologous to human SFSWAP (splicing factor SWAP). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 103.0), Lung (RPKM 82.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sfswap in Genome Data Viewer
    Location:
    12q13
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (32745704..32816032, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (27109607..27179941, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (30740563..30811015, complement)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene zinc finger protein 11 Neighboring gene uncharacterized LOC120095935 Neighboring gene matrix metallopeptidase 17 Neighboring gene uncharacterized LOC134481178 Neighboring gene uncharacterized LOC102555340 Neighboring gene uncharacterized LOC134481332

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. 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
    2. Tau exon 10, whose missplicing causes frontotemporal dementia, is regulated by an intricate interplay of cis elements and trans factors. Wang J, et al. J Neurochem, 2004 Mar. PMID 15009664
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC125102

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in alternative mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within alternative mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA 5'-splice site recognition IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA 5'-splice site recognition IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within mRNA 5'-splice site recognition ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 SWAP homolog
    splicing factor, arginine/serine-rich 8 (suppressor-of-white-apricot homolog, Drosophila)
    splicing factor, suppressor of white-apricot family
    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_001034924.1 → NP_001030096.1  splicing factor, suppressor of white-apricot homolog isoform 2

      See identical proteins and their annotated locations for NP_001030096.1

      Status: PROVISIONAL

      Source sequence(s)
      BC105868
      UniProtKB/TrEMBL
      Q3KR71
      Conserved Domains (2) summary
      smart00648
      Location:83 → 136
      SWAP; Suppressor-of-White-APricot splicing regulator
      pfam01346
      Location:480 → 520
      FKBP_N; Domain amino terminal to FKBP-type peptidyl-prolyl isomerase

    2. NM_001400984.1 → NP_001387913.1  splicing factor, suppressor of white-apricot homolog isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000012

    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_086030.1 Reference GRCr8

      Range
      32745704..32816032 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089425.2 → XP_038945353.1  splicing factor, suppressor of white-apricot homolog isoform X7

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

    2. XM_063271299.1 → XP_063127369.1  splicing factor, suppressor of white-apricot homolog isoform X10

      UniProtKB/TrEMBL
      Q3KR71

    3. XM_039089426.2 → XP_038945354.1  splicing factor, suppressor of white-apricot homolog isoform X9

      UniProtKB/TrEMBL
      A6J0R5
      Conserved Domains (1) summary
      smart00648
      Location:83 → 136
      SWAP; Suppressor-of-White-APricot splicing regulator

    4. XM_006249271.5 → XP_006249333.1  splicing factor, suppressor of white-apricot homolog isoform X5

      See identical proteins and their annotated locations for XP_006249333.1

      UniProtKB/Swiss-Prot
      D3ZTQ1, Q5BJQ4
      Related
      ENSRNOP00000076174.2, ENSRNOT00000093237.3
      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. XM_006249273.5 → XP_006249335.1  splicing factor, suppressor of white-apricot homolog isoform X6

      UniProtKB/TrEMBL
      A0A1W2Q681
      Conserved Domains (3) summary
      smart00648
      Location:209 → 262
      SWAP; Suppressor-of-White-APricot splicing regulator
      pfam01346
      Location:606 → 646
      FKBP_N; Domain amino terminal to FKBP-type peptidyl-prolyl isomerase
      pfam09750
      Location:35 → 155
      DRY_EERY; Alternative splicing regulator

    6. XM_008769197.4 → XP_008767419.1  splicing factor, suppressor of white-apricot homolog isoform X3

      Conserved Domains (3) summary
      smart00648
      Location:209 → 262
      SWAP; Suppressor-of-White-APricot splicing regulator
      pfam01346
      Location:606 → 646
      FKBP_N; Domain amino terminal to FKBP-type peptidyl-prolyl isomerase
      pfam09750
      Location:35 → 155
      DRY_EERY; Alternative splicing regulator

    7. XM_006249270.5 → XP_006249332.1  splicing factor, suppressor of white-apricot homolog isoform X4

      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

    8. XM_006249269.5 → XP_006249331.1  splicing factor, suppressor of white-apricot homolog isoform X2

      UniProtKB/TrEMBL
      A0A0G2JZ87
      Related
      ENSRNOP00000070951.1, ENSRNOT00000077977.3
      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

    9. XM_008769196.4 → XP_008767418.1  splicing factor, suppressor of white-apricot homolog isoform X1

      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

    10. XM_039089427.2 → XP_038945355.1  splicing factor, suppressor of white-apricot homolog isoform X11

      Conserved Domains (1) summary
      smart00648
      Location:95 → 142
      SWAP; Suppressor-of-White-APricot splicing regulator

    11. XM_063271297.1 → XP_063127367.1  splicing factor, suppressor of white-apricot homolog isoform X8

    12. XM_063271298.1 → XP_063127368.1  splicing factor, suppressor of white-apricot homolog isoform X8

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    D3ZTQ1.1 GenPept UniProtKB/Swiss-Prot:D3ZTQ1

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