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Aliases for SSC4D Gene

Aliases for SSC4D Gene

  • Scavenger Receptor Cysteine Rich Family Member With 4 Domains 2 3 5
  • Scavenger Receptor Cysteine Rich Domain Containing, Group B (4 Domains) 2 3
  • Four Scavenger Receptor Cysteine-Rich Domains-Containing Protein 3 4
  • Scavenger Receptor Cysteine-Rich Protein SRCRB-S4D 2 3
  • Scavenger Receptor Cysteine Rich Family, 4 Domains 2 3
  • S4D-SRCRB 3 4
  • SRCRB4D 3 4
  • Scavenger Receptor Cysteine-Rich Domain-Containing Group B Protein 3
  • SRCRB-S4D 3

External Ids for SSC4D Gene

Previous HGNC Symbols for SSC4D Gene

  • SRCRB4D

Summaries for SSC4D Gene

Entrez Gene Summary for SSC4D Gene

  • The scavenger receptor cysteine-rich (SRCR) superfamily is an ancient and highly conserved group of cell surface and/or secreted proteins, some of which are involved in the development of the immune system and the regulation of both innate and adaptive immune responses. Group B SRCR domains usually contain 8 regularly spaced cysteines that give rise to a well-defined intradomain disulfide-bond pattern.[supplied by OMIM, Apr 2004]

GeneCards Summary for SSC4D Gene

SSC4D (Scavenger Receptor Cysteine Rich Family Member With 4 Domains) is a Protein Coding gene. GO annotations related to this gene include scavenger receptor activity. An important paralog of this gene is DMBT1.

Additional gene information for SSC4D Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SSC4D Gene

Genomics for SSC4D Gene

Regulatory Elements for SSC4D Gene

Enhancers for SSC4D Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH07H076378 2 FANTOM5 Ensembl ENCODE dbSUPER 16.9 +29.5 29516 3 HDGF PKNOX1 ARNT ARID4B SIN3A DMAP1 YY1 ZNF766 CBX5 ZNF207 POMZP3 PMS2P3 SSC4D FAM185BP LOC100133091 NSUN5P1 LOC100422695 SPDYE18 ENSG00000250990 POR
GH07H076391 1.3 ENCODE dbSUPER 18.8 +16.7 16735 2 HDGF PKNOX1 FOXA2 ARID4B SIN3A DMAP1 YY1 ZNF766 ZNF143 SP3 POMZP3 SSC4D PMS2P3 NSUN5P1 PMS2P9 DTX2P1 SPDYE5 FAM185BP DTX2 SPDYE18
GH07H076403 1.2 Ensembl ENCODE dbSUPER 19.1 +5.4 5434 0 ELF3 MTA2 MAX NFXL1 DPF2 CBX5 POLR2A EED IKZF1 HNF4A SSC4D UPK3B POMZP3 ZP3
GH07H076409 1.1 Ensembl ENCODE 19.3 +0.2 160 1 BCOR SOX13 TBP TFAP4 MXI1 ESRRA KLF1 SAP130 ZSCAN4 ARID4B SSC4D POMZP3 ZP3
GH07H076383 1.1 ENCODE dbSUPER 18.8 +26.4 26407 0 HDAC1 HDGF PKNOX1 ATF1 TBL1XR1 NFRKB FOS ATF7 CREM HCFC1 SSC4D ZP3 PPIAP81
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SSC4D on UCSC Golden Path with GeneCards custom track

Genomic Location for SSC4D Gene

Chromosome:
7
Start:
76,389,329 bp from pter
End:
76,409,695 bp from pter
Size:
20,367 bases
Orientation:
Minus strand

Genomic View for SSC4D Gene

Genes around SSC4D on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SSC4D Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SSC4D Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SSC4D Gene

Proteins for SSC4D Gene

  • Protein details for SSC4D Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WTU2-SRB4D_HUMAN
    Recommended name:
    Scavenger receptor cysteine-rich domain-containing group B protein
    Protein Accession:
    Q8WTU2
    Secondary Accessions:
    • Q2HIZ5
    • Q6ZMG3
    • Q96BF5

    Protein attributes for SSC4D Gene

    Size:
    575 amino acids
    Molecular mass:
    60819 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH15651.1; Type=Miscellaneous discrepancy; Note=Intron retention.; Evidence={ECO:0000305}; Sequence=BAD18764.1; Type=Frameshift; Positions=25; Evidence={ECO:0000305};

    Alternative splice isoforms for SSC4D Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SSC4D Gene

Post-translational modifications for SSC4D Gene

No Post-translational modifications

Other Protein References for SSC4D Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SSC4D Gene

Domains & Families for SSC4D Gene

Protein Domains for SSC4D Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SSC4D Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SSC4D: view

No data available for UniProtKB/Swiss-Prot for SSC4D Gene

Function for SSC4D Gene

Molecular function for SSC4D Gene

UniProtKB/Swiss-Prot Induction:
Not induced by a combination of IL1A/interleukin-1 alpha, IL6/interleukin-6 and dexamethasone.

Phenotypes From GWAS Catalog for SSC4D Gene

Gene Ontology (GO) - Molecular Function for SSC4D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005044 scavenger receptor activity IEA --
genes like me logo Genes that share ontologies with SSC4D: view
genes like me logo Genes that share phenotypes with SSC4D: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SSC4D

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SSC4D
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SSC4D Gene

Localization for SSC4D Gene

Subcellular locations from UniProtKB/Swiss-Prot for SSC4D Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SSC4D gene
Compartment Confidence
extracellular 5
plasma membrane 3
nucleus 2
cytosol 2

Gene Ontology (GO) - Cellular Components for SSC4D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0016020 membrane IEA --
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with SSC4D: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SSC4D Gene

Pathways & Interactions for SSC4D Gene

SuperPathways for SSC4D Gene

No Data Available

Interacting Proteins for SSC4D Gene

Gene Ontology (GO) - Biological Process for SSC4D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006898 receptor-mediated endocytosis IEA --
genes like me logo Genes that share ontologies with SSC4D: view

No data available for Pathways by source and SIGNOR curated interactions for SSC4D Gene

Drugs & Compounds for SSC4D Gene

No Compound Related Data Available

Transcripts for SSC4D Gene

mRNA/cDNA for SSC4D Gene

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SSC4D
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for SSC4D Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b · 4c
SP1: - - -
SP2: -
SP3:

Relevant External Links for SSC4D Gene

GeneLoc Exon Structure for
SSC4D
ECgene alternative splicing isoforms for
SSC4D

Expression for SSC4D Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SSC4D Gene

NURSA nuclear receptor signaling pathways regulating expression of SSC4D Gene:

SSC4D
genes like me logo Genes that share expression patterns with SSC4D: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SSC4D Gene

Orthologs for SSC4D Gene

This gene was present in the common ancestor of chordates.

Orthologs for SSC4D Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SRCRB4D 33 34
  • 99.19 (n)
cow
(Bos Taurus)
Mammalia SRCRB4D 33 34
  • 88.64 (n)
dog
(Canis familiaris)
Mammalia SRCRB4D 33 34
  • 87.98 (n)
rat
(Rattus norvegicus)
Mammalia Srcrb4d 33
  • 84.03 (n)
mouse
(Mus musculus)
Mammalia Srcrb4d 33 34
  • 83.92 (n)
Ssc4d 16
oppossum
(Monodelphis domestica)
Mammalia SRCRB4D 34
  • 72 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SRCRB4D 34
  • 55 (a)
OneToOne
chicken
(Gallus gallus)
Aves SRCRB4D 33 34
  • 68.78 (n)
lizard
(Anolis carolinensis)
Reptilia SRCRB4D 34
  • 59 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia srcrb4d 33
  • 60.95 (n)
zebrafish
(Danio rerio)
Actinopterygii LOC100331436 33
  • 61.61 (n)
SRCRB4D 34
  • 35 (a)
OneToOne
Species where no ortholog for SSC4D was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SSC4D Gene

ENSEMBL:
Gene Tree for SSC4D (if available)
TreeFam:
Gene Tree for SSC4D (if available)

Paralogs for SSC4D Gene

Paralogs for SSC4D Gene

genes like me logo Genes that share paralogs with SSC4D: view

Variants for SSC4D Gene

Sequence variations from dbSNP and Humsavar for SSC4D Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs1000358685 -- 76,392,335(+) CCTGA(A/G)GTCAG intron-variant
rs1000457420 -- 76,391,717(+) AGGAC(A/G)GGATC intron-variant
rs1000614248 -- 76,397,660(+) AAGAA(A/G)GCGTT reference, synonymous-codon, utr-variant-5-prime
rs1000692624 -- 76,390,686(+) GTGGC(A/G)GGTGC intron-variant
rs1000827265 -- 76,409,872(+) AGCCC(A/T)GATCC intron-variant, upstream-variant-2KB, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for SSC4D Gene

Variant ID Type Subtype PubMed ID
dgv120n16 CNV deletion 17901297
dgv232e55 CNV gain 17911159
dgv233e55 CNV loss 17911159
esv2422494 CNV duplication 17116639
esv2734686 CNV deletion 23290073
esv3613761 CNV loss 21293372
esv3613762 CNV loss 21293372
nsv1028665 CNV gain 25217958
nsv428174 CNV gain 18775914
nsv528969 CNV gain 19592680
nsv7403 OTHER inversion 18451855

Variation tolerance for SSC4D Gene

Residual Variation Intolerance Score: 83.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.39; 88.50% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SSC4D Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SSC4D

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SSC4D Gene

Disorders for SSC4D Gene

Relevant External Links for SSC4D

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SSC4D

No disorders were found for SSC4D Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SSC4D Gene

Publications for SSC4D Gene

  1. Cloning of S4D-SRCRB, a new soluble member of the group B scavenger receptor cysteine-rich family (SRCR-SF) mapping to human chromosome 7q11.23. (PMID: 12466895) Padilla O … Lozano F (Immunogenetics 2002) 2 3 4 22 60
  2. PAK4 promotes kinase-independent stabilization of RhoU to modulate cell adhesion. (PMID: 26598620) Dart AE … Wells CM (The Journal of cell biology 2015) 3 60
  3. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. (PMID: 23376485) Prunotto M … Moll S (Journal of proteomics 2013) 3 60
  4. The BTB and CNC homology 1 (BACH1) target genes are involved in the oxidative stress response and in control of the cell cycle. (PMID: 21555518) Warnatz HJ … Yaspo ML (The Journal of biological chemistry 2011) 3 60
  5. New genetic associations detected in a host response study to hepatitis B vaccine. (PMID: 20237496) Davila S … Seielstad M (Genes and immunity 2010) 3 60

Products for SSC4D Gene

Sources for SSC4D Gene

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