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Aliases for EDDM3B Gene

Aliases for EDDM3B Gene

  • Epididymal Protein 3B 2 3 5
  • Family With Sequence Similarity 12, Member B (Epididymal) 2 3
  • Human Epididymis-Specific Protein 3-Beta 3 4
  • HE3-BETA 3 4
  • FAM12B 3 4
  • HE3B 3 4
  • Epididymal Secretory Protein E3 Beta 3
  • Human Epididymis-Specific 3 Beta 3
  • Ribonuclease A M2 3
  • RAM2 3
  • EP3B 3

External Ids for EDDM3B Gene

Previous HGNC Symbols for EDDM3B Gene

  • FAM12B

Previous GeneCards Identifiers for EDDM3B Gene

  • GC14P021236
  • GC14P001357

Summaries for EDDM3B Gene

Entrez Gene Summary for EDDM3B Gene

  • Testicular sperm are morphologically differentiated but are not progressively motile nor able to fertilize an egg. Post-testicular maturation requires exposure of spermatozoa to the microenvironment of the epididymal lumen. Spermatozoa undergo extensive changes in the epididymis, including enzymatic modifications, loss of pre-existing components and addition of new glycoproteins from epididymal secretions. These modifying proteins and enzymes are synthesized by epithelial cells lining the epididymal duct and secreted apically into the lumen, where they come into contact with, and may be absorbed onto, the sperm membranes. The proteins encoded by the genes in this cluster are synthesized and secreted by epididymal epithelial cells. [provided by RefSeq, Jul 2008]

GeneCards Summary for EDDM3B Gene

EDDM3B (Epididymal Protein 3B) is a Protein Coding gene. An important paralog of this gene is EDDM3A.

UniProtKB/Swiss-Prot for EDDM3B Gene

  • Possible function in sperm maturation.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for EDDM3B Gene

Genomics for EDDM3B Gene

Regulatory Elements for EDDM3B Gene

Enhancers for EDDM3B Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around EDDM3B on UCSC Golden Path with GeneCards custom track

Genomic Location for EDDM3B Gene

Chromosome:
14
Start:
20,768,427 bp from pter
End:
20,770,948 bp from pter
Size:
2,522 bases
Orientation:
Plus strand

Genomic View for EDDM3B Gene

Genes around EDDM3B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EDDM3B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for EDDM3B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EDDM3B Gene

Proteins for EDDM3B Gene

  • Protein details for EDDM3B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P56851-EP3B_HUMAN
    Recommended name:
    Epididymal secretory protein E3-beta
    Protein Accession:
    P56851
    Secondary Accessions:
    • A0PK89

    Protein attributes for EDDM3B Gene

    Size:
    147 amino acids
    Molecular mass:
    17584 Da
    Quaternary structure:
    No Data Available

neXtProt entry for EDDM3B Gene

Proteomics data for EDDM3B Gene at MOPED

Post-translational modifications for EDDM3B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for EDDM3B Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for EDDM3B Gene

Domains & Families for EDDM3B Gene

Protein Domains for EDDM3B Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for EDDM3B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with EDDM3B: view

No data available for Gene Families and UniProtKB/Swiss-Prot for EDDM3B Gene

Function for EDDM3B Gene

Molecular function for EDDM3B Gene

UniProtKB/Swiss-Prot Function:
Possible function in sperm maturation.

Gene Ontology (GO) - Molecular Function for EDDM3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with EDDM3B: view

Phenotypes for EDDM3B Gene

genes like me logo Genes that share phenotypes with EDDM3B: view

Animal Model Products

  • Taconic Biosciences Mouse Models for EDDM3B

miRNA for EDDM3B Gene

miRTarBase miRNAs that target EDDM3B

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for EDDM3B Gene

Localization for EDDM3B Gene

Subcellular locations from UniProtKB/Swiss-Prot for EDDM3B Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for EDDM3B Gene COMPARTMENTS Subcellular localization image for EDDM3B gene
Compartment Confidence
extracellular 5

No data available for Gene Ontology (GO) - Cellular Components for EDDM3B Gene

Pathways & Interactions for EDDM3B Gene

SuperPathways for EDDM3B Gene

No Data Available

Interacting Proteins for EDDM3B Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000314810%0d%0a9606.ENSP00000316130%0d%0a
Selected Interacting proteins: ENSP00000314810 P56851-EP3B_HUMAN for EDDM3B Gene via STRING UniProtKB

Gene Ontology (GO) - Biological Process for EDDM3B Gene

None

No data available for Pathways by source and SIGNOR curated interactions for EDDM3B Gene

Drugs & Compounds for EDDM3B Gene

No Compound Related Data Available

Transcripts for EDDM3B Gene

mRNA/cDNA for EDDM3B Gene

(1) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(6) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for EDDM3B Gene

Epididymal protein 3B:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for EDDM3B Gene

No ASD Table

Relevant External Links for EDDM3B Gene

GeneLoc Exon Structure for
EDDM3B
ECgene alternative splicing isoforms for
EDDM3B

Expression for EDDM3B Gene

mRNA expression in normal human tissues for EDDM3B Gene

SOURCE GeneReport for Unigene cluster for EDDM3B Gene Hs.525202

mRNA Expression by UniProt/SwissProt for EDDM3B Gene

P56851-EP3B_HUMAN
Tissue specificity: Epididymis.
genes like me logo Genes that share expression patterns with EDDM3B: 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 and Protein tissue co-expression partners for EDDM3B Gene

Orthologs for EDDM3B Gene

This gene was present in the common ancestor of mammals.

Orthologs for EDDM3B Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia LOC100297646 35
  • 70.78 (n)
  • 54.79 (a)
dog
(Canis familiaris)
Mammalia EDDM3B 35
  • 70.19 (n)
  • 52.11 (a)
-- 36
  • 51 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Eddm3b 35
  • 69.95 (n)
  • 57.75 (a)
Eddm3b 16
Eddm3b 36
  • 55 (a)
OneToMany
chimpanzee
(Pan troglodytes)
Mammalia EDDM3B 35
  • 99.32 (n)
  • 98.64 (a)
EDDM3B 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Eddm3b 35
  • 70.24 (n)
  • 59.29 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 39 (a)
OneToMany
Species with no ortholog for EDDM3B:
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for EDDM3B Gene

ENSEMBL:
Gene Tree for EDDM3B (if available)
TreeFam:
Gene Tree for EDDM3B (if available)

Paralogs for EDDM3B Gene

Paralogs for EDDM3B Gene

(1) SIMAP similar genes for EDDM3B Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for EDDM3B Gene

genes like me logo Genes that share paralogs with EDDM3B: view

Variants for EDDM3B Gene

Sequence variations from dbSNP and Humsavar for EDDM3B Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type
rs3827906 - 20,770,163(+) CGTCT(C/G)TAAAG reference, missense
rs726935 -- 20,768,788(-) GGGTC(A/G/T)GTGCT intron-variant
rs8019698 -- 20,768,367(+) GAGCC(C/T)TGCAG upstream-variant-2KB
rs2873980 -- 20,766,635(+) TGGAA(A/G)GGTCA upstream-variant-2KB
rs762038 -- 20,766,609(+) ACGTG(C/G)TGGAA upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for EDDM3B Gene

Variant ID Type Subtype PubMed ID
esv23438 CNV Gain+Loss 19812545
nsv901470 CNV Gain 21882294
dgv607e1 CNV Complex 17122850
nsv428293 CNV Gain+Loss 18775914

Variation tolerance for EDDM3B Gene

Residual Variation Intolerance Score: 52% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.13; 22.89% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for EDDM3B Gene

Disorders for EDDM3B Gene

Relevant External Links for EDDM3B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
EDDM3B

No disorders were found for EDDM3B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for EDDM3B Gene

Publications for EDDM3B Gene

  1. Major human epididymis-specific gene product, HE3, is the first representative of a novel gene family. (PMID: 7514008) Kirchhoff C. … Ivell R. (Mol. Reprod. Dev. 1994) 2 3 4 67
  2. Comparative genomic analysis of eutherian ribonuclease A genes. (PMID: 24337645) Premzl M. (Mol. Genet. Genomics 2014) 3
  3. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3
  4. Toward a confocal subcellular atlas of the human proteome. (PMID: 18029348) Barbe L. … Andersson-Svahn H. (Mol. Cell Proteomics 2008) 3
  5. Alterations in gene expression in the caput epididymides of nonobstructive azoospermic men. (PMID: 17928628) DubAc E. … Cyr D.G. (Biol. Reprod. 2008) 23

Products for EDDM3B Gene

Sources for EDDM3B Gene

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