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

Gene ID: 109267, updated on 2-Nov-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, Nov 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 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

  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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