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    Scaf1 SR-related CTD-associated factor 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 56081, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Scaf1provided by RGD
    Official Full Name
    SR-related CTD-associated factor 1provided by RGD
    Primary source
    RGD:708405
    See related
    EnsemblRapid:ENSRNOG00000056946 AllianceGenome:RGD:708405
    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
    Sr-a1
    Summary
    Enables protein domain specific binding activity. Involved in mRNA processing and transcription by RNA polymerase II. Predicted to be located in nucleus. Biomarker of end stage renal disease. Orthologous to human SCAF1 (SR-related CTD associated factor 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 56.5), Kidney (RPKM 46.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Scaf1 in Genome Data Viewer
    Location:
    1q22
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (104621927..104635161, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (95485448..95499389, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (100997724..101010855, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene protein arginine methyltransferase 1 Neighboring gene Bcl2 like 12 Neighboring gene interferon regulatory factor 3 Neighboring gene RAS related Neighboring gene proline rich 12

    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
    • 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. Expression of the C-terminal domain of novel human SR-A1 protein: interaction with the CTD domain of RNA polymerase II. Katsarou ME, et al. Biochem Biophys Res Commun, 2005 Aug 19. PMID 15992770
    2. The C-terminal domain of the largest subunit of RNA polymerase II interacts with a novel set of serine/arginine-rich proteins. Yuryev A, et al. Proc Natl Acad Sci U S A, 1996 Jul 9. PMID 8692929, Free PMC Article
    3. Niacin improves renal lipid metabolism and slows progression in chronic kidney disease. Cho KH, et al. Biochim Biophys Acta, 2010 Jan. PMID 19878707
    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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II C-terminal domain binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II C-terminal domain binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein domain specific binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    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, arginine/serine-rich 19
    Names
    CTD-binding SR-like protein rA1
    CTD-binding SR-like rA1
    SR-related and CTD-associated factor 1
    serine arginine-rich pre-mRNA splicing factor SR-A1

    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_001400823.1 → NP_001387752.1  splicing factor, arginine/serine-rich 19

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q63624

    2. NM_001414200.1 → NP_001401129.1  splicing factor, arginine/serine-rich 19

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q63624
      Related
      ENSRNOP00000072566.1, ENSRNOT00000081430.3

    3. NM_019384.2 → NP_062257.2  splicing factor, arginine/serine-rich 19

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q63624

    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_086019.1 Reference GRCr8

      Range
      104621927..104635161 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063272028.1 → XP_063128098.1  splicing factor, arginine/serine-rich 19 isoform X2

    2. XM_039088703.2 → XP_038944631.2  splicing factor, arginine/serine-rich 19 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q63624.2 GenPept UniProtKB/Swiss-Prot:Q63624

    Gene LinkOut

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

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