Edc3 MGI Mouse Gene Detail - MGI:2142951 - enhancer of mRNA decapping 3

Symbol

Edc3
Name

enhancer of mRNA decapping 3
Synonyms

Lsm16, Yjdc

Feature Type

protein coding gene
IDs

MGI:2142951
NCBI Gene: 353190
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr9:57615823-57659782 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 9, 31.37 cM
Mapping Data

1 experiment

SNPs within 2kb

635 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2142951	protein coding gene	Chr9:57615823-57659782 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0034877	protein coding gene	Chr9:56938388-56989827 (+)
A/J	MGP_AJ_G0034858	protein coding gene	Chr9:55097176-55142768 (+)
AKR/J	MGP_AKRJ_G0034787	protein coding gene	Chr9:56364780-56413064 (+)
BALB/cJ	MGP_BALBcJ_G0034850	protein coding gene	Chr9:54881992-54925918 (+)
C3H/HeJ	MGP_C3HHeJ_G0034560	protein coding gene	Chr9:56850826-56897401 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0035369	protein coding gene	Chr9:58529217-58574270 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0032280	protein coding gene	Chr9:54402434-54446962 (+)
CAST/EiJ	MGP_CASTEiJ_G0033881	protein coding gene	Chr9:56949180-56992974 (+)
CBA/J	MGP_CBAJ_G0034531	protein coding gene	Chr9:60565157-60611172 (+)
DBA/2J	MGP_DBA2J_G0034690	protein coding gene	Chr9:54962849-55007642 (+)
FVB/NJ	MGP_FVBNJ_G0034632	protein coding gene	Chr9:54194669-54238819 (+)
LP/J	MGP_LPJ_G0034773	protein coding gene	Chr9:57236291-57281145 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0034675	protein coding gene	Chr9:62060061-62104277 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0035391	protein coding gene	Chr9:56386741-56430488 (+)
PWK/PhJ	MGP_PWKPhJ_G0033586	protein coding gene	Chr9:55002587-55046781 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0033420	protein coding gene	Chr9:56669659-56713038 (+)
WSB/EiJ	MGP_WSBEiJ_G0033994	protein coding gene	Chr9:56322890-56370368 (+)

Human Ortholog

EDC3, enhancer of mRNA decapping 3

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

EDC3, enhancer of mRNA decapping 3
Synonyms

hYjeF_N2-15q23, LSM16, MRT50, YJDC, YJEFN2
Links

HGNC:26114

NCBI Gene ID: 80153

neXtProt AC: NX_Q96F86

UniProt: Q96F86
Chr Location

15q24.1; chr15:74630558-74696292 (-) GRCh38

MGI Vertebrate Homology

Edc3 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: EDC3
Gene Tree

Edc3

Diseases

1 with human EDC3 associations

				Human Disease	Mouse Models
				autosomal recessive intellectual developmental disorder 50 IDs autosomal recessive intellectual developmental disorder 50 DOID:0081213 OMIM:616460

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

11 phenotypes from 1 allele in 1 genetic background
12 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

17
Endonuclease-mediated

3
Gene trapped

13
Targeted

1
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

29 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

10
GO References

5

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

716
Tissues

6
cDNA Data

14
Literature Summary

1

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase edc3

ZFIN edc3

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All Sequences

62
RefSeq

12
UniProt

4
CCDS

CCDS23231.1

Ensembl

ENSMUSG00000038957 (Evidence)
NCBI Gene

353190

			Length	Strain/Species	Flank
genomic	353190	NCBI Gene Model \| MGI Sequence Detail	43960	C57BL/6J	± kb
transcript	NM_001410071	RefSeq \| MGI Sequence Detail	3453	C57BL/6
polypeptide	Q8K2D3	UniProt \| EBI \| MGI Sequence Detail	508	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000006890 enhancer of mRNA-decapping protein 3

(term hierarchy)
InterPro Domains

IPR025762 DFDF domain

IPR019050 FDF domain

IPR025609 Lsm14-like, N-terminal

IPR034107 Lsm16, N-terminal

IPR047575 Sm domain

IPR004443 YjeF N-terminal domain

IPR036652 YjeF N-terminal domain superfamily
GlyGen

Q8K2D3 1 site, 1 O-linked glycan (1 site)

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All nucleic 15

cDNA 15

Microarray probesets 4

Summaries

All 37

Developmental Gene Expression 1

Gene Ontology 5

Phenotypes 12
Earliest

J:85162 Hansen J, et al., A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Proc Natl Acad Sci U S A. 2003 Aug 19;100(17):9918-22
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Edc3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr85323	Chr9:57615817-57615891 (+)	31 bp
Tssr2887	Chr9:57615899-57615909 (+)	81 bp
Tssr85324	Chr9:57615914-57615944 (+)	106 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 11/12/2024 MGI 6.24