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    Ssc4d scavenger receptor cysteine rich family, 4 domains [ Mus musculus (house mouse) ]

    Gene ID: 109267, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ssc4dprovided by MGI
    Official Full Name
    scavenger receptor cysteine rich family, 4 domainsprovided by MGI
    Primary source
    MGI:MGI:1924709
    See related
    Ensembl:ENSMUSG00000029699 AllianceGenome:MGI:1924709
    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
    Srcrb4d; S4D-SRCRB; SRCRB-S4D; C330016E03Rik
    Summary
    Predicted to be located in extracellular region and membrane. Orthologous to human SSC4D (scavenger receptor cysteine rich family member with 4 domains). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in ovary adult (RPKM 2.1), genital fat pad adult (RPKM 2.0) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ssc4d in Genome Data Viewer
    Location:
    5 G2; 5 75.6 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (135989074..136003389, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (135960220..135974535, complement)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene heat shock protein 1 Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide Neighboring gene STARR-seq mESC enhancer starr_14600 Neighboring gene predicted gene, 40346 Neighboring gene STARR-seq mESC enhancer starr_14605 Neighboring gene STARR-positive B cell enhancer ABC_E235 Neighboring gene STARR-positive B cell enhancer ABC_E1311 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:136438585-136438772 Neighboring gene STARR-seq mESC enhancer starr_14608 Neighboring gene zona pellucida glycoprotein 3 Neighboring gene deltex 2, E3 ubiquitin ligase

    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. Second-generation high-throughput forward genetic screen in mice to isolate subtle behavioral mutants. Kumar V, et al. Proc Natl Acad Sci U S A, 2011 Sep 13. PMID 21896739, Free PMC Article
    2. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
    3. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    4. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    5. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article

    See all (16) 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 (1) 

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    scavenger receptor cysteine-rich domain-containing group B protein
    Names
    four scavenger receptor cysteine-rich domains-containing protein
    scavenger receptor cysteine rich domain containing, group B (4 domains)

    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_001160366.2 → NP_001153838.1  scavenger receptor cysteine-rich domain-containing group B protein isoform 1 precursor

      See identical proteins and their annotated locations for NP_001153838.1

      Status: VALIDATED

      Source sequence(s)
      AC087420
      Consensus CDS
      CCDS51664.1
      UniProtKB/Swiss-Prot
      A1L0T3
      Related
      ENSMUSP00000106782.2, ENSMUST00000111152.8
      Conserved Domains (1) summary
      smart00202
      Location:200 → 299
      SR; Scavenger receptor Cys-rich

    2. NM_001431716.1 → NP_001418645.1  scavenger receptor cysteine-rich domain-containing group B protein isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AC087420
      UniProtKB/Swiss-Prot
      A1L0T3

    3. NM_001431717.1 → NP_001418646.1  scavenger receptor cysteine-rich domain-containing group B protein isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC087420
      UniProtKB/TrEMBL
      G3X988, Q8BUS2

    4. NM_001431718.1 → NP_001418647.1  scavenger receptor cysteine-rich domain-containing group B protein isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC087420
      UniProtKB/TrEMBL
      D3YZ07

    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
      135989074..136003389 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006504336.1 → XP_006504399.1  scavenger receptor cysteine-rich domain-containing group B protein isoform X1

      See identical proteins and their annotated locations for XP_006504399.1

      Conserved Domains (1) summary
      smart00202
      Location:200 → 299
      SR; Scavenger receptor Cys-rich

    2. XM_006504337.1 → XP_006504400.1  scavenger receptor cysteine-rich domain-containing group B protein isoform X2

      Related
      ENSMUSP00000106783.2, ENSMUST00000111153.8
      Conserved Domains (1) summary
      smart00202
      Location:200 → 299
      SR; Scavenger receptor Cys-rich

    3. XM_006504335.1 → XP_006504398.1  scavenger receptor cysteine-rich domain-containing group B protein isoform X1

      See identical proteins and their annotated locations for XP_006504398.1

      Conserved Domains (1) summary
      smart00202
      Location:200 → 299
      SR; Scavenger receptor Cys-rich
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A1L0T3.2 GenPept UniProtKB/Swiss-Prot:A1L0T3

    Gene LinkOut

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

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