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Aliases & Descriptions for EDEM3
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section
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Descriptions ER degradation enhancer, mannosidase alpha-like 3 2 ER degradation-enhancing -mannosidase-like protein 3 2 chromosome 1 open reading frame 22 1
Search outside databases for aliases for EDEM3 gene
Summaries for EDEM3 (According to Entrez Gene ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
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EntrezGene summary for EDEM3 : Quality control in the endoplasmic reticulum (ER) ensures that only properly folded proteins areretained in the cell through recognition and degradation of misfolded or unassembled proteins.EDEM3 belongs to a group of proteins that accelerate degradation of misfolded glycoproteins in theER (Hirao et al., 2006 [PubMed 16431915]).[supplied by OMIM] UniProtKB/Swiss-Prot: EDEM3_HUMAN, Q9BZQ6 Function : Involved in endoplasmic reticulum-associated degradation (ERAD). Accelerates theglycoprotein ERAD by proteasomes. This process depends on mannose-trimming from the N-glycans.Seems to have alpha 1,2-mannosidase activity (By similarity)
Gene Wiki entry for EDEM3
Genomic Location for EDEM3
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 36) ,
and/or miRBase ,
Genomic Views according to
UCSC and
Ensembl ,
Transcription factor binding sites according to
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Genomic View : UCSC Golden Path with GeneCards custom track Transcription factor binding sites upstream to the EDEM3 gene Entrez Gene cytogenetic band: 1q24-q25 Ensembl cytogenetic band: 1q25.3 HGNC cytogenetic band: 1q25 EDEM3 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different) GeneLoc gene densities for chromosome 1 GeneLoc Exon Structure
GeneLoc location for GC01M182925:
(about GC identifiers )
Start:
182,926,260 bp from pter
End:
182,990,670 bp from pter
Size:
64,411 bases
Orientation:
minus strand
RefSeq DNA sequence: NC_000001.9 NT_004487.18 Proteins for EDEM3
(According to
1 UniProtKB ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Enzo Life Sciences ,
Abnova ,
OriGene and/or,
Abcam ,
Biochemical Assays by
Invitrogen ,
Millipore ,
R&D Systems ,
Cell Signaling Technology , and/or
Enzo Life Sciences ,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene ,
Antibodies by Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Cell Signaling Technology ,
Abcam ,
Abnova , and/or
Novus Biologicals )
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UniProtKB/Swiss-Prot: EDEM3_HUMAN, Q9BZQ6 (See
protein sequence )Recommended Name: ER degradation-enhancing alpha-mannosidase-like 3 precursor Size : 932 amino acids; 104664 Da
Subcellular location : Endoplasmic reticulum lumen (By similarity)
Secondary accessions : B2RCH6 Q0VGM5 Q5TEZ0 Q9HCW1 Q9UFV7
Post-translational modifications:
N-glycosylated (By similarity)1
View phosphorylation sites using PhosphoSite 2
REFSEQ proteins: NP_079467.3 ENSEMBL proteins: ENSP00000240560 ENSP00000318147 ENSP00000356482 Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 3 Gene Ontology (GO) cellular component terms (links to tree view) :
About this table Antibodies for EDEM3: Assays for EDEM3:
Protein
Domains/ Families for EDEM3(According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
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Graphical View of Domain Structure for InterPro Entry Q9BZQ6 ProtoNet protein and cluster: Q9BZQ6
1 Blocks protein family : IPB001382 Glycosyl hydrolase family 47 signature UniProtKB/Swiss-Prot: EDEM3_HUMAN, Q9BZQ6 Domain : Contains a protease-associated domain (PA) of unknown functionSimilarity : Belongs to the glycosyl hydrolase 47 familySimilarity : Contains 1 PA (protease associated) domain
Gene Function for EDEM3
(According to MGI Jun 06 2009, UniProtKB ,
IUBMB ,and/or Genatlas ,
shRNA from
OriGene ,
Sigma-Aldrich , RNAi from
Sigma-Aldrich ,
RNAi Products ,
Clones , and
Q-PCR Products
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Millipore ,
OriGene , and/or
Abnova ,
siRNAs from
Applied Biosystems ,
SYBR primers from OriGene ,
Cell-based Assays from Millipore ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_025191 Applied Biosystems Silencer ® siRNAs for EDEM3 Sigma-Aldrich siRNA for EDEM3 Sigma-Aldrich shRNA for EDEM3 Explore Sigma-Aldrich super-pooled esiRNAs               OriGene GFP tagged cDNA clone in CMV expression vector: NM_025191                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_025191                                  untagged cDNA clones in CMV expression vector (see all 2 ): NM_025191  Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_025191 UniProtKB/Swiss-Prot: EDEM3_HUMAN, Q9BZQ6 Function : Involved in endoplasmic reticulum-associated degradation (ERAD). Accelerates theglycoprotein ERAD by proteasomes. This process depends on mannose-trimming from the N-glycans.Seems to have alpha 1,2-mannosidase activity (By similarity)
2 Gene Ontology (GO) molecular function terms (links to tree view) :
GO ID Qualified GO term Evidence PubMed IDs GO:0004571 mannosyl-oligosaccharide 1,2-alpha-mannosidase activity
IEA -- GO:0005509 calcium ion binding
IEA --
About this table
Pathways & Interactions for EDEM3
(Pathways according to Invitrogen
(maps by GeneGo ),
Millipore ,
Cell Signaling Technology ,
Sigma-Aldrich ,
KEGG
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Proteins Network according to
SABiosciences ,
Interactions according to 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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1 Interacting protein for EDEM3 (ENSP00000356482 3 ) via UniProtKB, MINT, and/or STRING About this table 1 Gene Ontology (GO) biological process term (links to tree view) :
GO ID Qualified GO term Evidence PubMed IDs GO:0006986 response to unfolded protein
IEA --
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Drugs & Compounds for EDEM3 (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
Sigma-Aldrich , Tocris Bioscience , and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB )
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Browse Tocris compounds for EDEM3
Transcripts for EDEM3(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank , RefSeq according to Entrez Gene ,
DOTS (version 10), and/or
AceView ,
non coding RNAs according to
RNAdb ,
ESTs according to GeneTide ,
exon structure from GeneLoc ,
alternative splicing isoforms according to ASD and/or
ECgene ,
RNAi Products from Invitrogen ,
Millipore , and/or
Abnova ,
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shRNA from
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              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_025191 Sigma-Aldrich siRNA for EDEM3 Sigma-Aldrich shRNA for EDEM3 Explore Sigma-Aldrich super-pooled esiRNAs
Applied Biosystems Silencer ® siRNAs: NM_025191
REFSEQ mRNAs for EDEM3 gene: NM_025191.3
Applied Biosystems TaqMan ® Gene Expression Assays: NM_025191
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_025191                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_025191                                  untagged cDNA clones in CMV expression vector (see all 2 ): NM_025191  
Additional cDNA sequence: AF288393.1 AK000945.1 AK225171.1 AK315118.1 AL117441.1 BC016464.1 BC105586.1 BC144149.1 BC144150.1
8 DOTS entries : DT.100779074 DT.113172 DT.100779075 DT.40263182 DT.121374605 DT.95298685 DT.75163364 DT.121374590
24/151 AceView cDNA sequences (see all 151
):AI378621 CD723421 AA505824 AI288392 BC016464 BF448323 R98214 AA716418 AI289403 BM983602 BM971493 BM789132 BE219441 CK429568 AI474620 AI561130 AI522026 AU130604 AK000945 BF002983 AI364612 AA256323 CN483685 BP354408
highest scoring ESTs for EDEM3 :AA182647 AF288393 AI887728 AL037444 BG107025 AA054934 AA055144 AA094801 AA182483 AA182760
Unigene Cluster for EDEM3: ER degradation enhancer, mannosidase alpha-like 3 Hs.523811 [show with all ESTs ] Unigene Representative Sequence: NM_025191 GeneLoc Exon Structure 3 Alternative Splicing Database (ASD) splice patterns (SP) for EDEM3 ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 SP1 :       -           -                               SP2 :                                               SP3 :     -   -                                        
About this scheme ECgene alternative splicing isoforms for EDEM3 3 Ensembl transcripts including schematic representations : ENST00000240560
ENST00000318130
ENST00000367512
Expression for EDEM3
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
Sets of similar genes according to GeneDecks ,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP ,
plus additional links to
SOURCE , and/or
GNF
BioGPS , and/or
EXPOLDB , and/or
UniProtKB ,
Expression Assays from
Applied Biosystems
)
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EDEM3 expression in normal and diseased human tissues Applied Biosystems TaqMan ® Gene Expression Assays for EDEM3 1 / 2 / 3
9 probe-sets matching EDEM3 gene Data from
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: AAGAAAGCTCSOURCE GeneReport for Unigene cluster: Hs.523811
Orthologs for EDEM3
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
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Orthologs for EDEM3 gene from 5/12 species (see all 12
)
About this table Species with no ortholog for EDEM3 ENSEMBL Gene Tree for EDEM3 Paralogs for EDEM3 (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section
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Paralogs for EDEM3 gene EDEM2 2 EDEM1 2
SNPs/Variants for EDEM3 (According to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Genotyping Reagents from
Applied Biosystems )
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HapMap Linkage Disequilibrium images for EDEM3 (up to first 250kb)
Disorders & Mutations for EDEM3
(in which this Gene is Involved, According to
OMIM, UniProtKB ,
PharmGKB ,
Genatlas , GeneTests ,
Blood group antigen gene mutations by BGMUT ,
HGMD, GAD ,
HuGE Navigator ,
BCGD ,
and/or TGDB .)
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OMIM: 610214
Medical News for EDEM3 (Possibly Related Articles in
Doctor's Guide )
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--
Publications for EDEM3 (in
PubMed .
Associations of this gene to articles via
1 Novoseek ,
2 HGNC ,
3 Entrez Gene ,
4 UniProtKB/Swiss-Prot ,
5 UniProtKB/TrEMBL ,
6 GAD , and/or
7 PharmGKB )
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10/13 PubMed articles for EDEM3 gene (see all 13
): The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414) 3, 4 Gregory S.G.... Bentley D.R. (2006) Human EDEM2, a novel homolog of family 47 glycosidases, is involved in ER-associated degradation of glycoproteins. (PubMed id 15537790) 2, 3 Mast S.W....Moremen K.W. (2005) A novel stress-induced EDEM variant regulating endoplasmic reticulum-associated glycoprotein degradation. (PubMed id 15579471) 2, 3 Olivari S....Molinari M. (2005) Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039) 3, 4 Ota T....Sugano S. (2004) Cloning and characterization of 13 novel transcripts and the human RGS8 gene from the 1q25 region encompassing the hereditary prostate cancer (HPC1) locus. (PubMed id 11318611) 3, 4 Sood R....Carpten J.D. (2001) Glycoproteomics analysis of human liver tissue by combination of multiple enzyme digestion and hydrazide chemistry. (PubMed id 19159218) 4 Chen R.... Zou H. (2009) The full-ORF clone resource of the German cDNA Consortium. (PubMed id 17974005) 4 Bechtel S....Schupp I. (2007) EDEM3, a soluble EDEM homolog, enhances glycoprotein endoplasmic reticulum-associated degradation and mannose trimming. (PubMed id 16431915) 3 Hirao K....Hosokawa N. (2006) Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560) 3 Kimura K.... Sugano S. (2006) The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334) 4 Gerhard D.S....Malek J. (2004)
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Genome Databases showing EDEM3
(According to
Entrez Gene ,
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AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
and/or
H-InvDB )
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Other Databases showing EDEM3
(According to HUGE )
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Specialized Databases showing EDEM3 (According to ATLAS , HORDE , IMGT , MTDB, LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
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-- Services for EDEM3 (Reagents available from Applied Biosystems , Antibodies and assays by Cell
Signaling Technology , Abcam , Novus Biologicals ,Sigma-Aldrich , R&D Systems , Millipore , Abnova , and/or Invitrogen , Clones available from OriGene ,and/or Invitrogen , Drugs and/or compounds by Sigma-Aldrich , Enzo Life Sciences , and/or Tocris Bioscience )About This Section
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