Edem3 ER degradation enhancer, mannosidase alpha-like 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Edem3provided by MGI
Official Full Name: ER degradation enhancer, mannosidase alpha-like 3provided by MGI
Primary source: MGI:MGI:1914217
See related: Ensembl:ENSMUSG00000043019 AllianceGenome:MGI:1914217
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: 2310050N11Rik
Summary: Enables mannosyl-oligosaccharide 1,2-alpha-mannosidase activity. Involved in ERAD pathway and mannoprotein catabolic process. Acts upstream of or within glycoprotein catabolic process and proteasome-mediated ubiquitin-dependent protein catabolic process. Located in endoplasmic reticulum lumen. Human ortholog(s) of this gene implicated in congenital disorder of glycosylation type II. Orthologous to human EDEM3 (ER degradation enhancing alpha-mannosidase like protein 3). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Ubiquitous expression in CNS E18 (RPKM 6.8), adrenal adult (RPKM 6.8) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 1 G2; 1 64.34 cM

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	1	NC_000067.7 (151631099..151698079)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	1	NC_000067.6 (151755344..151822328)

Chromosome 1 - NC_000067.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

EDEM3 Domains Cooperate to Perform Its Overall Cell Functioning.
Title: EDEM3 Domains Cooperate to Perform Its Overall Cell Functioning.
EDEM3 has alpha1,2-mannosidase activity in vivo, suggesting that the mechanism whereby EDEM3 accelerates glycoprotein ERAD is different from that of EDEM
Title: EDEM3, a soluble EDEM homolog, enhances glycoprotein endoplasmic reticulum-associated degradation and mannose trimming.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Targeted (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables mannosyl-oligosaccharide 1,2-alpha-mannosidase activity	IBA Inferred from Biological aspect of Ancestor more info
enables mannosyl-oligosaccharide 1,2-alpha-mannosidase activity	IDA Inferred from Direct Assay more info	PubMed
enables mannosyl-oligosaccharide 1,2-alpha-mannosidase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in ERAD pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in ERAD pathway	ISO Inferred from Sequence Orthology more info
involved_in carbohydrate metabolic process	IEA Inferred from Electronic Annotation more info
involved_in endoplasmic reticulum mannose trimming	IEA Inferred from Electronic Annotation more info
involved_in endoplasmic reticulum unfolded protein response	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within glycoprotein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in mannoprotein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in mannoprotein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in mannoprotein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in mannose trimming involved in glycoprotein ERAD pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in protein glycosylation	IEA Inferred from Electronic Annotation more info
involved_in response to unfolded protein	IEA Inferred from Electronic Annotation more info
involved_in ubiquitin-dependent glycoprotein ERAD pathway	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum lumen	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum quality control compartment	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: ER degradation-enhancing alpha-mannosidase-like protein 3

Names: ER degradation-enhancing alpha-mannosidase-like 3; alpha-1,2-mannosidase EDEM3

NP_001034733.2

EC 3.2.1.113

NP_001298094.1

EC 3.2.1.113

NP_001298095.1

EC 3.2.1.113

XP_006529858.1

EC 3.2.1.113

XP_006529859.1

EC 3.2.1.113

XP_006529860.1

EC 3.2.1.113

XP_006529861.1

EC 3.2.1.113

XP_011246362.1

EC 3.2.1.113

XP_011246363.1

EC 3.2.1.113

XP_011246364.1

EC 3.2.1.113

XP_011246365.1

EC 3.2.1.113

XP_017177572.1

EC 3.2.1.113

XP_017177574.1

EC 3.2.1.113

XP_030098091.1

EC 3.2.1.113

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001039644.2 → NP_001034733.2 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform 1 precursor

See identical proteins and their annotated locations for NP_001034733.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AB188342, AK009915, AK141326, BC060718

Consensus CDS

CCDS35736.1

UniProtKB/Swiss-Prot

B2RS10, B9EHZ4, Q2HXL6, Q6P9L0

UniProtKB/TrEMBL

B7ZNN9

Related

ENSMUSP00000058941.6, ENSMUST00000059498.12

Conserved Domains (3) summary

cd02126
Location:665 → 790

PA_EDEM3_like; PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:808 → 897

DUF4521; Protein of unknown function (DUF4521)
NM_001311165.1 → NP_001298094.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform 2 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice junction and contains an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

AC112679, AC156542

Consensus CDS

CCDS78702.1

UniProtKB/TrEMBL

A0A087WQK5, B7ZNN9

Related

ENSMUSP00000140234.2, ENSMUST00000191070.2

Conserved Domains (3) summary

cd02126
Location:646 → 771

PA_EDEM3_like; PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:794 → 883

DUF4521; Protein of unknown function (DUF4521)
NM_001311166.1 → NP_001298095.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform 3 precursor

See identical proteins and their annotated locations for NP_001298095.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

AC112679, AC156542

Consensus CDS

CCDS78701.1

UniProtKB/TrEMBL

B7ZNN9, B7ZNP0

Related

ENSMUSP00000140775.2, ENSMUST00000187951.7

Conserved Domains (3) summary

cd02126
Location:647 → 772

PA_EDEM3_like; PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:790 → 879

DUF4521; Protein of unknown function (DUF4521)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000067.7 Reference GRCm39 C57BL/6J

Range

151631099..151698079

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006529795.3 → XP_006529858.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X1

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:666 → 791

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:821 → 914

DUF4521; Protein of unknown function (DUF4521)
XM_006529796.3 → XP_006529859.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X5

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:666 → 791

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:810 → 903

DUF4521; Protein of unknown function (DUF4521)
XM_011248061.2 → XP_011246363.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X3

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:666 → 791

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:820 → 913

DUF4521; Protein of unknown function (DUF4521)
XM_011248062.2 → XP_011246364.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X6

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:666 → 791

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:809 → 902

DUF4521; Protein of unknown function (DUF4521)
XM_006529797.3 → XP_006529860.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X8

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:666 → 791

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:805 → 898

DUF4521; Protein of unknown function (DUF4521)
XM_006529798.3 → XP_006529861.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X9

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:647 → 772

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:802 → 895

DUF4521; Protein of unknown function (DUF4521)
XM_011248060.3 → XP_011246362.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X2

UniProtKB/TrEMBL

A0A087WR24, B7ZNN9

Related

ENSMUSP00000140443.2, ENSMUST00000188145.7

Conserved Domains (3) summary

cd02126
Location:665 → 790

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:820 → 913

DUF4521; Protein of unknown function (DUF4521)
XM_017322083.3 → XP_017177572.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X4

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:665 → 790

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:819 → 912

DUF4521; Protein of unknown function (DUF4521)
XM_017322085.2 → XP_017177574.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X7

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:665 → 790

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:808 → 901

DUF4521; Protein of unknown function (DUF4521)
XM_011248063.2 → XP_011246365.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X10

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:646 → 771

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:801 → 894

DUF4521; Protein of unknown function (DUF4521)
XM_030242231.2 → XP_030098091.1 ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X11

UniProtKB/TrEMBL

B7ZNN9

Conserved Domains (3) summary

cd02126
Location:646 → 771

PA_EDEM3_like; protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I ...

pfam01532
Location:60 → 499

Glyco_hydro_47; Glycosyl hydrolase family 47

pfam15021
Location:785 → 878

DUF4521; Protein of unknown function (DUF4521)