Cop1 MGI Mouse Gene Detail - MGI:1347046 - COP1, E3 ubiquitin ligase

Symbol

Cop1
Name

COP1, E3 ubiquitin ligase
Synonyms

Cop1, Rfwd2

Feature Type

protein coding gene
IDs

MGI:1347046
NCBI Gene: 26374
Alliance

gene page
Transcription Start Sites

13 TSS

Sequence Map

Chr1:159059890-159175210 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 1, 69.03 cM, cytoband C3
Mapping Data

2 experiments

SNPs within 2kb

2737 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1347046	protein coding gene	Chr1:159059734-159182442 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0016637	protein coding gene	Chr1:164361353-164491823 (+)
A/J	MGP_AJ_G0016618	protein coding gene	Chr1:157702017-157819284 (+)
AKR/J	MGP_AKRJ_G0016584	protein coding gene	Chr1:162514777-162643292 (+)
BALB/cJ	MGP_BALBcJ_G0016579	protein coding gene	Chr1:158258068-158377784 (+)
C3H/HeJ	MGP_C3HHeJ_G0016403	protein coding gene	Chr1:162696975-162819980 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0017040	protein coding gene	Chr1:169978729-170102905 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0014749	protein coding gene	Chr1:149863157-149983850 (+)
CAST/EiJ	MGP_CASTEiJ_G0015983	protein coding gene	Chr1:162294076-162422581 (+)
CBA/J	MGP_CBAJ_G0016378	protein coding gene	Chr1:176002854-176135790 (+)
DBA/2J	MGP_DBA2J_G0016484	protein coding gene	Chr1:156682195-156800548 (+)
FVB/NJ	MGP_FVBNJ_G0016482	protein coding gene	Chr1:155100066-155217933 (+)
LP/J	MGP_LPJ_G0016555	protein coding gene	Chr1:165480128-165601968 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0016507	protein coding gene	Chr1:183507414-183655185 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0017076	protein coding gene	Chr1:162362084-162475329 (+)
PWK/PhJ	MGP_PWKPhJ_G0015769	protein coding gene	Chr1:155811864-155931235 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0015556	protein coding gene	Chr1:161173475-161296597 (+)
WSB/EiJ	MGP_WSBEiJ_G0016045	protein coding gene	Chr1:162512484-162635205 (+)

Human Ortholog

COP1, COP1 E3 ubiquitin ligase

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

COP1, COP1 E3 ubiquitin ligase
Synonyms

CFAP78, FAP78, RFWD2, RNF200
Links

HGNC:17440

NCBI Gene ID: 64326

neXtProt AC: NX_Q8NHY2

UniProt: Q8NHY2
Chr Location

1q25.1-q25.2; chr1:175944831-176207286 (-) GRCh38

MGI Vertebrate Homology

Cop1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: COP1
Gene Tree

Cop1

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Phenotype Summary

18 phenotypes from 5 alleles in 5 genetic backgrounds
2 phenotypes from multigenic genotypes
15 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

16
Chemically induced (other)

2
Endonuclease-mediated

2
Gene trapped

6
Targeted

6
Genomic Mutations

2 involving Cop1
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

44 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a conditional allele activated in prostate epithelial cells exhibit prostate gland hyperplasia and prostate intraepithelial neoplasia due to increased cell proliferation.

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All GO Annotations

19
GO References

9

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

792
Tissues

49
cDNA Data

13
Literature Summary

7

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase cop1

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All Sequences

80
RefSeq

17
UniProt

8
CCDS

CCDS35745.1

Ensembl

ENSMUSG00000040782 (Evidence)
NCBI Gene

26374

			Length	Strain/Species	Flank
genomic	ENSMUSG00000040782	Ensembl Gene Model \| MGI Sequence Detail	115321	C57BL/6J	± kb
transcript	ENSMUST00000076894	Ensembl \| MGI Sequence Detail	5116	Not Applicable
polypeptide	ENSMUSP00000076160	Ensembl \| MGI Sequence Detail	733	Not Applicable

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UniProt

8 Sequences
Protein Ontology

PR:000013922 E3 ubiquitin-protein ligase COP1

(term hierarchy)
EC

2.3.2.27
InterPro Domains

IPR042755 E3 ubiquitin-protein ligase COP1

IPR001680 WD40 repeat

IPR019775 WD40 repeat, conserved site

IPR036322 WD40-repeat-containing domain superfamily

IPR015943 WD40/YVTN repeat-like-containing domain superfamily

IPR013083 Zinc finger, RING/FYVE/PHD-type

IPR001841 Zinc finger, RING-type

IPR017907 Zinc finger, RING-type, conserved site

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All nucleic 13

cDNA 13

Microarray probesets 4

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MGI:2138201, MGI:2138696, MGI:5927633

Summaries

All 57

Developmental Gene Expression 7

Gene Ontology 9

Phenotypes 15
Earliest

J:56261 Wang H, et al., Evidence for functional conservation of a mammalian homologue of the light-responsive plant protein COP1. Curr Biol. 1999 Jul 1;9(13):711-4
Latest

J:338217 Su Y, et al., Glucose-induced CRL4(COP1)-p53 axis amplifies glycometabolism to drive tumorigenesis. Mol Cell. 2023 Jul 6;83(13):2316-2331.e7

TSS for Cop1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr9609	Chr1:159059729-159059802 (+)	-124 bp
Tssr9610	Chr1:159059811-159059822 (+)	-73 bp
Tssr9611	Chr1:159059832-159059851 (+)	-48 bp
Tssr9612	Chr1:159059869-159059890 (+)	-10 bp
Tssr9613	Chr1:159068874-159068889 (+)	8,992 bp
Tssr9614	Chr1:159084318-159084331 (+)	24,435 bp
Tssr9615	Chr1:159096087-159096091 (+)	36,199 bp
Tssr9616	Chr1:159103569-159103578 (+)	43,684 bp
Tssr9617	Chr1:159103772-159103790 (+)	43,891 bp
Tssr9618	Chr1:159137678-159137695 (+)	77,797 bp
Tssr9619	Chr1:159137899-159137910 (+)	78,015 bp
Tssr9620	Chr1:159141355-159141356 (+)	81,466 bp
Tssr9621	Chr1:159169556-159169559 (+)	109,668 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)
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