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    Scaf1 SR-related CTD-associated factor 1 [ Mus musculus (house mouse) ]

    Gene ID: 233208, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Scaf1provided by MGI
    Official Full Name
    SR-related CTD-associated factor 1provided by MGI
    Primary source
    MGI:MGI:2141980
    See related
    Ensembl:ENSMUSG00000038406 AllianceGenome:MGI:2141980
    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
    SR-A1
    Summary
    Predicted to enable RNA polymerase II C-terminal domain binding activity and protein domain specific binding activity. Predicted to be involved in mRNA processing and transcription by RNA polymerase II. Predicted to act upstream of or within RNA splicing. Predicted to be located in nucleus. Orthologous to human SCAF1 (SR-related CTD associated factor 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in adrenal adult (RPKM 47.0), ovary adult (RPKM 42.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Scaf1 in Genome Data Viewer
    Location:
    7 B3; 7 29.07 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (44652372..44665537, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (45002946..45016404, complement)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene predicted gene 15545 Neighboring gene BCL2 like 12 Neighboring gene interferon regulatory factor 3 Neighboring gene STARR-positive B cell enhancer ABC_E130 Neighboring gene microRNA 7054 Neighboring gene STARR-positive B cell enhancer ABC_E871 Neighboring gene related RAS viral (r-ras) oncogene Neighboring gene proline rich 12 Neighboring gene STARR-positive B cell enhancer ABC_E6541

    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. Malondialdehyde-acetaldehyde (MAA) adducted surfactant protein induced lung inflammation is mediated through scavenger receptor a (SR-A1). Sapkota M, et al. Respir Res, 2017 Feb 13. PMID 28193223, Free PMC Article
    2. Jade-1S phosphorylation induced by CK1α contributes to cell cycle progression. Borgal L, et al. Cell Cycle, 2016. PMID 26919559, Free PMC Article
    3. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article
    4. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    5. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Overall, the data demonstrate that SR-A1/CD204 plays an important role in SPD-MAA induced inflammation in lung.
      Title: Malondialdehyde-acetaldehyde (MAA) adducted surfactant protein induced lung inflammation is mediated through scavenger receptor a (SR-A1).
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC109685

    Gene Ontology Provided by MGI

    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription by RNA polymerase II 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, arginine/serine-rich 19
    Names
    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_001008422.2 → NP_001008422.1  splicing factor, arginine/serine-rich 19 isoform 1

      See identical proteins and their annotated locations for NP_001008422.1

      Status: VALIDATED

      Source sequence(s)
      AC126256
      Consensus CDS
      CCDS21225.1
      UniProtKB/Swiss-Prot
      Q3UR01, Q5U4C3
      Related
      ENSMUSP00000082501.3, ENSMUST00000085383.11

    2. NM_001400819.1 → NP_001387748.1  splicing factor, arginine/serine-rich 19 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC126256
      UniProtKB/Swiss-Prot
      Q3UR01, Q5U4C3
      Related
      ENSMUSP00000148251.2, ENSMUST00000211735.2

    3. NM_001400820.1 → NP_001387749.1  splicing factor, arginine/serine-rich 19 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC126256
      UniProtKB/Swiss-Prot
      Q3UR01, Q5U4C3

    4. NM_001400821.1 → NP_001387750.1  splicing factor, arginine/serine-rich 19 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC126256
      UniProtKB/Swiss-Prot
      Q3UR01, Q5U4C3

    5. NM_001400822.1 → NP_001387751.1  splicing factor, arginine/serine-rich 19 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC126256
      Related
      ENSMUST00000210056.2

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      44652372..44665537 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_003946455.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5U4C3.1 GenPept UniProtKB/Swiss-Prot:Q5U4C3

    Gene LinkOut

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

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