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    Syf2 SYF2 pre-mRNA-splicing factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 170933, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Syf2provided by RGD
    Official Full Name
    SYF2 pre-mRNA-splicing factorprovided by RGD
    Primary source
    RGD:621592
    See related
    AllianceGenome:RGD:621592
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    P29; Gcipip
    Summary
    Involved in positive regulation of cell population proliferation. Predicted to be located in nuclear speck. Predicted to be part of Prp19 complex; U2-type catalytic step 2 spliceosome; and post-mRNA release spliceosomal complex. Biomarker of encephalitis. Orthologous to human SYF2 (SYF2 pre-mRNA splicing factor). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 365.9), Lung (RPKM 352.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Syf2 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (152440171..152448094)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (147156492..147164416)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (153269638..153277562)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene transmembrane protein 50A Neighboring gene arginine and serine rich protein 1 Neighboring gene uncharacterized LOC134479038 Neighboring gene uncharacterized LOC102551013

    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. Upregulation of SYF2 Relates to Retinal Ganglion Cell Apoptosis and Retinal Glia Cell Proliferation After Light-Induced Retinal Damage. Sang A, et al. J Mol Neurosci, 2015 Jun. PMID 25944718
    2. Involvement of upregulated SYF2 in Schwann cell differentiation and migration after sciatic nerve crush. Zhou Z, et al. Cell Mol Neurobiol, 2014 Oct. PMID 24962097
    3. Upregulation of SYF2 is associated with neuronal apoptosis caused by reactive astrogliosis to neuroinflammation. Xu W, et al. J Neurosci Res, 2014 Mar. PMID 24301298
    4. Genes that are differentially expressed in rat vibrissa follicle germinative epithelium in vivo show altered expression patterns after extended organ culture. Whitehouse CJ, et al. Exp Dermatol, 2002 Dec. PMID 12473062
    5. p29, a novel GCIP-interacting protein, localizes in the nucleus. Chang MS, et al. Biochem Biophys Res Commun, 2000 Dec 20. PMID 11118353

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SYF2 protein expression was dramatically upregulated after retinal damage.
      Title: Upregulation of SYF2 Relates to Retinal Ganglion Cell Apoptosis and Retinal Glia Cell Proliferation After Light-Induced Retinal Damage.
    2. the upregulation of SYF2 was associated with Schwann cell differentiation and migration following sciatic nerve crush.
      Title: Involvement of upregulated SYF2 in Schwann cell differentiation and migration after sciatic nerve crush.
    3. This study shows that SYF2 was significantly increased in the rat cerebral cortex after LPS injection, suggesting that SYF2 might be involved in the pathological processes of astrocyte proliferation and neuronal apoptosis.
      Title: Upregulation of SYF2 is associated with neuronal apoptosis caused by reactive astrogliosis to neuroinflammation.
    Submit: New GeneRIF Correction

    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 RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within embryonic organ development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within gastrulation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within mitotic G2 DNA damage checkpoint signaling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Prp19 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type catalytic step 2 spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of post-mRNA release spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    pre-mRNA-splicing factor SYF2
    Names
    GCIP-interacting protein p29
    SYF2 homolog, RNA splicing factor

    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_133417.2 → NP_596908.2  pre-mRNA-splicing factor SYF2

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/Swiss-Prot
      Q4QRB2, Q91Y33
      Conserved Domains (1) summary
      pfam08231
      Location:89 → 237
      SYF2; SYF2 splicing factor

    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_086023.1 Reference GRCr8

      Range
      152440171..152448094
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q4QRB2.1 GenPept UniProtKB/Swiss-Prot:Q4QRB2

    Gene LinkOut

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

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