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Aliases for EDEM2 Gene

Aliases for EDEM2 Gene

  • ER Degradation Enhancing Alpha-Mannosidase Like Protein 2 2 3 5
  • ER Degradation Enhancer, Mannosidase Alpha-Like 2 2 3
  • C20orf31 3 4
  • C20orf49 3 4
  • ER Degradation-Enhancing Alpha-Mannosidase-Like Protein 2 3
  • ER Degradation-Enhancing-Mannosidase-Like Protein 2 3
  • ER Degradation-Enhancing Alpha-Mannosidase-Like 2 3
  • Chromosome 20 Open Reading Frame 31 2
  • BA4204.1 3

External Ids for EDEM2 Gene

Previous HGNC Symbols for EDEM2 Gene

  • C20orf49
  • C20orf31

Previous GeneCards Identifiers for EDEM2 Gene

  • GC20M033167
  • GC20M033703
  • GC20M030481

Summaries for EDEM2 Gene

Entrez Gene Summary for EDEM2 Gene

  • In the endoplasmic reticulum (ER), misfolded proteins are retrotranslocated to the cytosol and degraded by the proteasome in a process known as ER-associated degradation (ERAD). EDEM2 belongs to a family of proteins involved in ERAD of glycoproteins (Mast et al., 2005 [PubMed 15537790]).[supplied by OMIM, Mar 2008]

GeneCards Summary for EDEM2 Gene

EDEM2 (ER Degradation Enhancing Alpha-Mannosidase Like Protein 2) is a Protein Coding gene. Among its related pathways are Calnexin/calreticulin cycle and Protein processing in endoplasmic reticulum. GO annotations related to this gene include calcium ion binding and mannosyl-oligosaccharide 1,2-alpha-mannosidase activity. An important paralog of this gene is EDEM1.

UniProtKB/Swiss-Prot for EDEM2 Gene

  • Initiates the endoplasmic reticulum-associated degradation (ERAD) that targets misfolded glycoproteins for degradation in an N-glycan-dependent manner. Catalyzes the first mannose trimming step, from Man9GlcNAc2 to Man8GlcNAc2 (PubMed:25092655). Extracts misfolded glycoproteins, but not glycoproteins undergoing productive folding, from the calnexin cycle.

Gene Wiki entry for EDEM2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for EDEM2 Gene

Genomics for EDEM2 Gene

Regulatory Elements for EDEM2 Gene

Enhancers for EDEM2 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
GH20G035146 1.5 FANTOM5 ENCODE 37.2 -0.3 -276 2.9 HDGF FOXA2 MLX CREB3L1 ARNT ARID4B SIN3A DMAP1 YBX1 ZNF2 EDEM2 ENSG00000201151 MMP24 MMP24-AS1 PIGU NCOA6 EIF6 TRPC4AP PROCR
GH20G035301 2 FANTOM5 Ensembl ENCODE dbSUPER 11.9 -158.6 -158644 9.0 PKNOX1 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 UQCC1 NCOA6 GDF5 RPL36P4 MMP24-AS1 EDEM2 MMP24 MIR1289-1 CEP250 RBM12
GH20G035317 2.2 VISTA FANTOM5 Ensembl ENCODE dbSUPER 10.6 -172.4 -172385 5.1 PKNOX1 FOXA2 ARNT ARID4B SIN3A DMAP1 FEZF1 YY1 SLC30A9 FOS UQCC1 NCOA6 EIF6 FAM83C MMP24 FAM83C-AS1 MMP24-AS1 EDEM2 RBM12 MIR499A
GH20G035144 1.1 ENCODE 18.9 +2.3 2294 1.6 HNRNPUL1 ARNT MLX ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF766 RBM12 EDEM2 NCOA6 TRPC4AP CPNE1 ENSG00000201151 MMP24 MMP24-AS1 EIF6 PROCR
GH20G035165 1.1 Ensembl ENCODE 18.9 -19.1 -19129 1.4 HDAC1 RAD21 TCF12 GATA2 ZNF366 FOS ETV6 REST ZNF645 NR2F2 EDEM2 MMP24-AS1 PROCR
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around EDEM2 on UCSC Golden Path with GeneCards custom track

Promoters for EDEM2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000136514 64 1801 HDGF MLX CREB3L1 ARNT ARID4B SIN3A DMAP1 YBX1 ZNF2 YY1

Genomic Location for EDEM2 Gene

Chromosome:
20
Start:
35,115,357 bp from pter
End:
35,147,364 bp from pter
Size:
32,008 bases
Orientation:
Minus strand

Genomic View for EDEM2 Gene

Genes around EDEM2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EDEM2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for EDEM2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EDEM2 Gene

Proteins for EDEM2 Gene

  • Protein details for EDEM2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BV94-EDEM2_HUMAN
    Recommended name:
    ER degradation-enhancing alpha-mannosidase-like protein 2
    Protein Accession:
    Q9BV94
    Secondary Accessions:
    • B4DTG9
    • Q6GU33
    • Q6IA89
    • Q6UWZ4
    • Q9H4U0
    • Q9H886
    • Q9NTL9
    • Q9NVE6

    Protein attributes for EDEM2 Gene

    Size:
    578 amino acids
    Molecular mass:
    64753 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for EDEM2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for EDEM2 Gene

Post-translational modifications for EDEM2 Gene

Other Protein References for EDEM2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for EDEM2 Gene

Domains & Families for EDEM2 Gene

Protein Domains for EDEM2 Gene

Graphical View of Domain Structure for InterPro Entry

Q9BV94

UniProtKB/Swiss-Prot:

EDEM2_HUMAN :
  • Belongs to the glycosyl hydrolase 47 family.
Family:
  • Belongs to the glycosyl hydrolase 47 family.
genes like me logo Genes that share domains with EDEM2: view

No data available for Gene Families for EDEM2 Gene

Function for EDEM2 Gene

Molecular function for EDEM2 Gene

UniProtKB/Swiss-Prot Function:
Initiates the endoplasmic reticulum-associated degradation (ERAD) that targets misfolded glycoproteins for degradation in an N-glycan-dependent manner. Catalyzes the first mannose trimming step, from Man9GlcNAc2 to Man8GlcNAc2 (PubMed:25092655). Extracts misfolded glycoproteins, but not glycoproteins undergoing productive folding, from the calnexin cycle.
UniProtKB/Swiss-Prot Induction:
Up-regulated by the unfolded protein response (UPR) via the XBP1 transcription factor.

Gene Ontology (GO) - Molecular Function for EDEM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001948 glycoprotein binding IEA --
GO:0004559 alpha-mannosidase activity TAS --
GO:0004571 mannosyl-oligosaccharide 1,2-alpha-mannosidase activity IMP 25092655
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with EDEM2: view
genes like me logo Genes that share phenotypes with EDEM2: view

Animal Model Products

CRISPR Products

miRNA for EDEM2 Gene

miRTarBase miRNAs that target EDEM2

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for EDEM2 Gene

Localization for EDEM2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for EDEM2 Gene

Endoplasmic reticulum lumen.

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 EDEM2 gene
Compartment Confidence
endoplasmic reticulum 5
extracellular 3
lysosome 1

Gene Ontology (GO) - Cellular Components for EDEM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IDA 15537790
GO:0005788 endoplasmic reticulum lumen IEA --
GO:0016020 membrane IEA --
GO:0044322 endoplasmic reticulum quality control compartment TAS --
genes like me logo Genes that share ontologies with EDEM2: view

Pathways & Interactions for EDEM2 Gene

genes like me logo Genes that share pathways with EDEM2: view

Gene Ontology (GO) - Biological Process for EDEM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006491 N-glycan processing IBA --
GO:0006986 response to unfolded protein IEA --
GO:0030433 ER-associated ubiquitin-dependent protein catabolic process IBA --
GO:0030968 endoplasmic reticulum unfolded protein response IBA --
GO:0036509 trimming of terminal mannose on B branch TAS --
genes like me logo Genes that share ontologies with EDEM2: view

No data available for SIGNOR curated interactions for EDEM2 Gene

Drugs & Compounds for EDEM2 Gene

No Compound Related Data Available

Transcripts for EDEM2 Gene

mRNA/cDNA for EDEM2 Gene

Unigene Clusters for EDEM2 Gene

ER degradation enhancer, mannosidase alpha-like 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for EDEM2 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8a · 8b · 8c ^ 9a · 9b · 9c ^ 10a · 10b · 10c ^ 11 ^ 12
SP1: - - - -
SP2: - - - - -
SP3: - - -
SP4: - - -
SP5: - - - - - - - -
SP6: - - - - - - -
SP7: - - - - -
SP8: - - - - -
SP9: - -
SP10: -
SP11: - - - - - -
SP12:

Relevant External Links for EDEM2 Gene

GeneLoc Exon Structure for
EDEM2
ECgene alternative splicing isoforms for
EDEM2

Expression for EDEM2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for EDEM2 Gene

mRNA differential expression in normal tissues according to GTEx for EDEM2 Gene

This gene is overexpressed in Whole Blood (x4.9).

Protein differential expression in normal tissues from HIPED for EDEM2 Gene

This gene is overexpressed in Bone (42.1), Pancreas (12.3), and Placenta (10.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for EDEM2 Gene



Protein tissue co-expression partners for EDEM2 Gene

NURSA nuclear receptor signaling pathways regulating expression of EDEM2 Gene:

EDEM2

SOURCE GeneReport for Unigene cluster for EDEM2 Gene:

Hs.720177

mRNA Expression by UniProt/SwissProt for EDEM2 Gene:

Q9BV94-EDEM2_HUMAN
Tissue specificity: Expressed ubiquitously in all tissues tested with slightly higher levels detected in small intestine and peripheral blood leukocytes and weakest levels in brain and skeletal muscle.

Evidence on tissue expression from TISSUES for EDEM2 Gene

  • Skin(4.4)
  • Intestine(4.3)
  • Thyroid gland(4.2)
  • Lung(3.1)
  • Nervous system(2.7)
genes like me logo Genes that share expression patterns with EDEM2: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for EDEM2 Gene

Orthologs for EDEM2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for EDEM2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia EDEM2 34 35
  • 99.54 (n)
dog
(Canis familiaris)
Mammalia EDEM2 34 35
  • 91.97 (n)
cow
(Bos Taurus)
Mammalia EDEM2 34 35
  • 91.52 (n)
rat
(Rattus norvegicus)
Mammalia Edem2 34
  • 89.76 (n)
mouse
(Mus musculus)
Mammalia Edem2 34 16 35
  • 88.83 (n)
oppossum
(Monodelphis domestica)
Mammalia EDEM2 35
  • 82 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia EDEM2 35
  • 73 (a)
OneToOne
chicken
(Gallus gallus)
Aves EDEM2 34 35
  • 75.5 (n)
lizard
(Anolis carolinensis)
Reptilia EDEM2 35
  • 83 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia edem2 34
  • 72.65 (n)
zebrafish
(Danio rerio)
Actinopterygii edem2 34 35
  • 69.83 (n)
4931415M17 34
fruit fly
(Drosophila melanogaster)
Insecta Edem1 34 35
  • 59.5 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012463 34
  • 58.45 (n)
worm
(Caenorhabditis elegans)
Secernentea F10C2.5 34 35
  • 56.59 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes MNL1 35
  • 23 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G43710 34
  • 52.95 (n)
rice
(Oryza sativa)
Liliopsida Os01g0773600 34
  • 54.36 (n)
Os.17630 34
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 50 (a)
OneToOne
Species where no ortholog for EDEM2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for EDEM2 Gene

ENSEMBL:
Gene Tree for EDEM2 (if available)
TreeFam:
Gene Tree for EDEM2 (if available)

Paralogs for EDEM2 Gene

Paralogs for EDEM2 Gene

(2) SIMAP similar genes for EDEM2 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with EDEM2: view

Variants for EDEM2 Gene

Sequence variations from dbSNP and Humsavar for EDEM2 Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type
rs1000054781 -- 35,121,466(+) TGCTT(A/G)CTCAC intron-variant
rs1000135164 -- 35,118,823(+) CCATA(A/C)GGCCC intron-variant
rs1000221783 -- 35,141,964(+) CAATA(A/G)CTCAT intron-variant
rs1000343169 -- 35,148,478(+) AGGTT(A/G)AGGTG upstream-variant-2KB
rs1000392389 -- 35,145,721(+) AACGA(A/G)TGTAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for EDEM2 Gene

Variant ID Type Subtype PubMed ID
esv1987108 CNV deletion 18987734
esv2480993 CNV deletion 19546169
esv2658915 CNV deletion 23128226
esv3557028 CNV deletion 23714750
esv3645709 CNV loss 21293372
esv3645710 CNV loss 21293372
esv3645711 CNV loss 21293372

Variation tolerance for EDEM2 Gene

Residual Variation Intolerance Score: 28.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.96; 59.84% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for EDEM2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
EDEM2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for EDEM2 Gene

Disorders for EDEM2 Gene

Relevant External Links for EDEM2

Genetic Association Database (GAD)
EDEM2
Human Genome Epidemiology (HuGE) Navigator
EDEM2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
EDEM2

No disorders were found for EDEM2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for EDEM2 Gene

Publications for EDEM2 Gene

  1. A novel stress-induced EDEM variant regulating endoplasmic reticulum- associated glycoprotein degradation. (PMID: 15579471) Olivari S. … Molinari M. (J. Biol. Chem. 2005) 2 3 4 22 64
  2. Human EDEM2, a novel homolog of family 47 glycosidases, is involved in ER-associated degradation of glycoproteins. (PMID: 15537790) Mast S.W. … Moremen K.W. (Glycobiology 2005) 2 3 4 64
  3. EDEM2 initiates mammalian glycoprotein ERAD by catalyzing the first mannose trimming step. (PMID: 25092655) Ninagawa S. … Mori K. (J. Cell Biol. 2014) 3 4 64
  4. Genome-wide association study identifies novel loci for plasma levels of protein C: the ARIC study. (PMID: 20802025) Tang W. … Folsom A.R. (Blood 2010) 3 46 64
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64

Products for EDEM2 Gene

Sources for EDEM2 Gene

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