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Aliases for SCUBE3 Gene

Aliases for SCUBE3 Gene

  • Signal Peptide, CUB Domain, EGF-Like 3 2 3
  • CUB Domain And EGF-Like Repeat Containing 3 2 3
  • CEGF3 3 4
  • Signal Peptide-, CUB Domain-, And EGF-Like Domains-Containing Protein 3 3
  • Signal Peptide, CUB And EGF-Like Domain Containing Protein 3 3
  • Signal Peptide, CUB And EGF-Like Domain-Containing Protein 3 3

External Ids for SCUBE3 Gene

Previous HGNC Symbols for SCUBE3 Gene

  • CEGF3

Previous GeneCards Identifiers for SCUBE3 Gene

  • GC06P035231
  • GC06P035290
  • GC06P034902
  • GC06P035182

Summaries for SCUBE3 Gene

Entrez Gene Summary for SCUBE3 Gene

  • This gene encodes a member of the signal peptide, complement subcomponents C1r/C1s, Uegf, bone morphogenetic protein-1 and epidermal growth factor-like domain containing protein family. Overexpression of this gene in human embryonic kidney cells results in secretion of a glycosylated form of the protein that forms oligomers and tethers to the cell surface. This gene is upregulated in lung cancer tumor tissue compared to healthy tissue and is associated with loss of the epithelial marker E-cadherin and with increased expression of vimentin, a mesenchymal marker. In addition, the protein encoded by this gene is a transforming growth factor beta receptor ligand, and when secreted by cancer cells, it can be cleaved in vitro to release the N-terminal epidermal growth factor-like repeat domain and the C-terminal complement subcomponents C1r/C1s domain. Both the full length protein and C-terminal fragment can bind to the transforming growth factor beta type II receptor to promote the epithelial-mesenchymal transition and tumor angiogenesis. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]

GeneCards Summary for SCUBE3 Gene

SCUBE3 (Signal Peptide, CUB Domain, EGF-Like 3) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is LTBP3.

UniProtKB/Swiss-Prot for SCUBE3 Gene

  • Binds to TGFBR2 and activates TGFB signaling. In lung cancer cells, could serve as an endogenous autocrine and paracrine ligand of TGFBR2, which could regulate TGFBR2 signaling and hence modulate epithelial-mesenchymal transition and cancer progression.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCUBE3 Gene

Genomics for SCUBE3 Gene

Regulatory Elements for SCUBE3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SCUBE3 Gene

Start:
35,214,047 bp from pter
End:
35,253,079 bp from pter
Size:
39,033 bases
Orientation:
Plus strand

Genomic View for SCUBE3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SCUBE3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCUBE3 Gene

Proteins for SCUBE3 Gene

  • Protein details for SCUBE3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IX30-SCUB3_HUMAN
    Recommended name:
    Signal peptide, CUB and EGF-like domain-containing protein 3
    Protein Accession:
    Q8IX30
    Secondary Accessions:
    • A8K5A3
    • Q5CZB3
    • Q86UZ9
    • Q8NAU9

    Protein attributes for SCUBE3 Gene

    Size:
    993 amino acids
    Molecular mass:
    109282 Da
    Quaternary structure:
    • Forms homooligomers and heterooligomers with SCUBE1. Interacts with TGFBR2 through the CUB domain; this interaction does not affect TGFB1-binding to TGFBR2.
    SequenceCaution:
    • Sequence=BAC03798.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for SCUBE3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SCUBE3 Gene

Proteomics data for SCUBE3 Gene at MOPED

Post-translational modifications for SCUBE3 Gene

  • N-glycosylated.
  • Proteolytic cleavage produces a CUB-containing C-terminal fragment that retains the ability to bind to TGFBR2. This reaction is catalyzed in vitro by MMP2 and, to a lesser extent, by MMP9.
  • Glycosylation at Asn417, Asn464, Asn685, Asn756, and Asn785
  • Modification sites at PhosphoSitePlus

Other Protein References for SCUBE3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SCUBE3 Gene

Domains for SCUBE3 Gene

Suggested Antigen Peptide Sequences for SCUBE3 Gene

Graphical View of Domain Structure for InterPro Entry

Q8IX30

UniProtKB/Swiss-Prot:

SCUB3_HUMAN :
  • Q8IX30
Domain:
  • Contains 1 CUB domain.
  • Contains 9 EGF-like domains.
genes like me logo Genes that share domains with SCUBE3: view

No data available for Gene Families for SCUBE3 Gene

Function for SCUBE3 Gene

Molecular function for SCUBE3 Gene

UniProtKB/Swiss-Prot Function: Binds to TGFBR2 and activates TGFB signaling. In lung cancer cells, could serve as an endogenous autocrine and paracrine ligand of TGFBR2, which could regulate TGFBR2 signaling and hence modulate epithelial-mesenchymal transition and cancer progression.

Gene Ontology (GO) - Molecular Function for SCUBE3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
GO:0005515 protein binding IPI 15234972
genes like me logo Genes that share ontologies with SCUBE3: view

Phenotypes for SCUBE3 Gene

MGI mutant phenotypes for SCUBE3:
inferred from 2 alleles
GenomeRNAi human phenotypes for SCUBE3:
genes like me logo Genes that share phenotypes with SCUBE3: view

Animal Models for SCUBE3 Gene

MGI Knock Outs for SCUBE3:

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SCUBE3

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for SCUBE3 Gene

Localization for SCUBE3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCUBE3 Gene

Secreted. Cell surface.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SCUBE3 Gene COMPARTMENTS Subcellular localization image for SCUBE3 gene
Compartment Confidence
extracellular 5
plasma membrane 3
endoplasmic reticulum 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SCUBE3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0009986 cell surface IDA 15234972
genes like me logo Genes that share ontologies with SCUBE3: view

Pathways for SCUBE3 Gene

SuperPathways for SCUBE3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SCUBE3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0051260 protein homooligomerization IDA 15234972
GO:0051291 protein heterooligomerization IPI 15234972
genes like me logo Genes that share ontologies with SCUBE3: view

No data available for Pathways by source for SCUBE3 Gene

Transcripts for SCUBE3 Gene

mRNA/cDNA for SCUBE3 Gene

Unigene Clusters for SCUBE3 Gene

Signal peptide, CUB domain, EGF-like 3:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SCUBE3

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCUBE3 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24a · 24b ·
SP1: -
SP2: - -
SP3: - - -

ExUns: 24c
SP1:
SP2:
SP3:

Relevant External Links for SCUBE3 Gene

GeneLoc Exon Structure for
SCUBE3
ECgene alternative splicing isoforms for
SCUBE3

Expression for SCUBE3 Gene

mRNA expression in normal human tissues for SCUBE3 Gene

mRNA differential expression in normal tissues according to GTEx for SCUBE3 Gene

This gene is overexpressed in Artery - Aorta (15.0), Thyroid (10.1), and Artery - Tibial (8.5).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for SCUBE3 Gene

SOURCE GeneReport for Unigene cluster for SCUBE3 Gene Hs.12923

mRNA Expression by UniProt/SwissProt for SCUBE3 Gene

Q8IX30-SCUB3_HUMAN
Tissue specificity: Highly expressed in osteoblasts. In normal lung, mainly expressed in bronchial epithelial cells. Tends to be up-regulated in lung cancer cells.
genes like me logo Genes that share expressions with SCUBE3: view

In Situ Assay Products

Orthologs for SCUBE3 Gene

This gene was present in the common ancestor of animals.

Orthologs for SCUBE3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SCUBE3 35
  • 99.61 (n)
  • 99.79 (a)
SCUBE3 36
  • 98 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SCUBE3 35
  • 93.29 (n)
  • 96.88 (a)
SCUBE3 36
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SCUBE3 35
  • 93.15 (n)
  • 96.58 (a)
SCUBE3 36
  • 93 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Scube3 35
  • 90.16 (n)
  • 95.87 (a)
Scube3 16
Scube3 36
  • 96 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SCUBE3 36
  • 91 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SCUBE3 36
  • 83 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Scube3 35
  • 89.69 (n)
  • 95.97 (a)
chicken
(Gallus gallus)
Aves SCUBE3 35
  • 79.18 (n)
  • 83.83 (a)
SCUBE3 36
  • 82 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SCUBE3 36
  • 82 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii scube3 35
  • 70.91 (n)
  • 72.25 (a)
scube3 36
  • 71 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG32373 36
  • 22 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 37 (a)
OneToMany
Species with no ortholog for SCUBE3:
  • 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)
  • 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 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SCUBE3 Gene

ENSEMBL:
Gene Tree for SCUBE3 (if available)
TreeFam:
Gene Tree for SCUBE3 (if available)

Paralogs for SCUBE3 Gene

Selected SIMAP similar genes for SCUBE3 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with SCUBE3: view

Variants for SCUBE3 Gene

Sequence variations from dbSNP and Humsavar for SCUBE3 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type MAF
rs763155 -- 35,225,996(+) CAGTG(A/C)TCACT intron-variant
rs1034449 -- 35,221,800(+) TAGCA(C/T)ATGAG intron-variant
rs1034450 -- 35,221,913(+) AGTGT(C/T)CCAGC intron-variant
rs1041528 -- 35,222,343(-) TATAA(A/T)ACAAG intron-variant
rs1888822 -- 35,215,372(+) GCTGA(G/T)GTACT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SCUBE3 Gene

Variant ID Type Subtype PubMed ID
dgv1939e1 CNV Complex 17122850

Relevant External Links for SCUBE3 Gene

HapMap Linkage Disequilibrium report
SCUBE3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SCUBE3 Gene

Disorders for SCUBE3 Gene

Relevant External Links for SCUBE3

Genetic Association Database (GAD)
SCUBE3
Human Genome Epidemiology (HuGE) Navigator
SCUBE3
genes like me logo Genes that share disorders with SCUBE3: view

No data available for UniProtKB/Swiss-Prot for SCUBE3 Gene

Publications for SCUBE3 Gene

  1. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall A.J. … Beck S. (Nature 2003) 3 4
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  3. A novel secreted, cell-surface glycoprotein containing multiple epidermal growth factor-like repeats and one CUB domain is highly expressed in primary osteoblasts and bones. (PMID: 15234972) Wu B.-T. … Yang R.-B. (J. Biol. Chem. 2004) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. Many sequence variants affecting diversity of adult human height. (PMID: 18391951) Gudbjartsson D.F. … Stefansson K. (Nat. Genet. 2008) 3 48

Products for SCUBE3 Gene

Sources for SCUBE3 Gene

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