Copb2 (coatomer protein complex, subunit beta 2 (beta prime)) - Rat Genome Database
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Gene: Copb2 (coatomer protein complex, subunit beta 2 (beta prime)) Mus musculus
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Symbol: Copb2
Name: coatomer protein complex, subunit beta 2 (beta prime)
RGD ID: 1550457
MGI Page MGI
Description: Is expressed in several structures, including alimentary system; liver lobe; nervous system; olfactory epithelium; and retina. Used to study microcephaly. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly 19. Orthologous to human COPB2 (COPI coat complex subunit beta 2); INTERACTS WITH 1,2-dimethylhydrazine; 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: AI256832; beta'-coat protein; beta'-COP; coatomer subunit beta'; p102
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39998,445,784 - 98,470,428 (+)NCBIGRCm39mm39
GRCm39 Ensembl998,445,774 - 98,470,435 (+)Ensembl
GRCm38998,563,731 - 98,588,375 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl998,563,721 - 98,588,382 (+)EnsemblGRCm38mm10GRCm38
MGSCv37998,464,150 - 98,488,794 (+)NCBIGRCm37mm9NCBIm37
MGSCv36998,373,083 - 98,397,727 (+)NCBImm8
Celera998,109,355 - 98,134,004 (+)NCBICelera
Cytogenetic Map9E3.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:8947846   PMID:10349636   PMID:10702668   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11544199   PMID:12466851   PMID:12477932   PMID:12520002   PMID:14610273  
PMID:15226823   PMID:15489334   PMID:15728249   PMID:15782199   PMID:16141072   PMID:16141073   PMID:20724702   PMID:21267068   PMID:21677750   PMID:21873635   PMID:22442722   PMID:22922362  
PMID:23716698   PMID:24457600   PMID:24565867   PMID:25044020   PMID:25737280   PMID:28378742   PMID:29036432   PMID:32325033  


Genomics

Comparative Map Data
Copb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39998,445,784 - 98,470,428 (+)NCBIGRCm39mm39
GRCm39 Ensembl998,445,774 - 98,470,435 (+)Ensembl
GRCm38998,563,731 - 98,588,375 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl998,563,721 - 98,588,382 (+)EnsemblGRCm38mm10GRCm38
MGSCv37998,464,150 - 98,488,794 (+)NCBIGRCm37mm9NCBIm37
MGSCv36998,373,083 - 98,397,727 (+)NCBImm8
Celera998,109,355 - 98,134,004 (+)NCBICelera
Cytogenetic Map9E3.3NCBI
COPB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3139,353,946 - 139,389,736 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl3139,355,600 - 139,389,680 (-)EnsemblGRCh38hg38GRCh38
GRCh383139,355,595 - 139,389,680 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh373139,076,248 - 139,108,522 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363140,559,123 - 140,591,151 (-)NCBINCBI36hg18NCBI36
Build 343140,559,132 - 140,591,159NCBI
Celera3137,499,384 - 137,531,480 (-)NCBI
Cytogenetic Map3q23NCBI
HuRef3136,451,880 - 136,483,977 (-)NCBIHuRef
CHM1_13139,039,998 - 139,072,089 (-)NCBICHM1_1
Copb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2899,161,324 - 99,183,452 (+)NCBI
Rnor_6.08106,582,339 - 106,603,763 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08106,024,920 - 106,047,170 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera898,569,531 - 98,591,507 (+)NCBICelera
Cytogenetic Map8q31NCBI
Copb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555086,201,989 - 6,231,845 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555086,201,989 - 6,231,840 (+)NCBIChiLan1.0ChiLan1.0
COPB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13143,994,312 - 144,026,277 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3143,994,312 - 144,020,117 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03136,394,480 - 136,426,544 (-)NCBIMhudiblu_PPA_v0panPan3
COPB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2335,536,615 - 35,566,569 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12335,536,520 - 35,604,708 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Copb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365401,467,169 - 1,493,218 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COPB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1380,218,984 - 80,264,764 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11380,220,460 - 80,264,808 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21387,894,952 - 87,931,027 (-)NCBISscrofa10.2Sscrofa10.2susScr3
COPB2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11551,165,275 - 51,197,971 (+)NCBI
Copb2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473015,908,551 - 15,936,886 (-)NCBI

Position Markers
RH136102  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38998,587,173 - 98,587,373UniSTSGRCm38
MGSCv37998,487,592 - 98,487,792UniSTSGRCm37
Celera998,132,802 - 98,133,002UniSTS
Cytogenetic Map9E3-F1UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142042Alpq3_malcohol preference QTL 3 (mouse)Not determined93739490198819654Mouse
4141224Dxmod_mdoxorubicin nephropathy modifier (mouse)Not determined49541121101528921Mouse
1301241Renf1_mrenal failure 1 (mouse)Not determined95212317899910428Mouse
13207569Tcq13_mtotal cholesterol QTL 13 (mouse)959990000109260000Mouse
4141833W10q13_mweight 10 weeks QTL 13 (mouse)Not determined63332429120362868Mouse
4141545Tailaq2_mtail length adjusted QTL 2 (mouse)Not determined63332429120362868Mouse
1357635Splq4_mspleen weight QTL 4 (mouse)Not determined963332429120362868Mouse
1301636Lith5_mlithogenic gene 5 (mouse)Not determined966207024100207122Mouse
10045638Heal29_mwound healing/regeneration 29 (mouse)Not determined967124167101124167Mouse
1357610Vtbt8_mvertebral trabecular bone trait 8 (mouse)Not determined968897510102897652Mouse
1301924Bmd10_mbone mineral density 10 (mouse)Not determined968897510102897652Mouse
1301302Pas4_mpulmonary adenoma susceptibility 4 (mouse)Not determined969239845103239920Mouse
10412174Habiir4_mhyperoxic acute lung injury imprinted region 4 (mouse)Not determined96936046598819654Mouse
1301621Hpic1_mhaloperidol-induced catalepsy 1 (mouse)Not determined969546513103546645Mouse
1301573Etohcta8_methanol conditioned taste aversion 8 (mouse)Not determined972977005106977152Mouse
10054068El8_mepilepsy 8 (mouse)Not determined972977005106977152Mouse
1301725Lifespan1_mlife span 1 (mouse)Not determined974368177108368325Mouse
1302065El1_mepilepsy 1 (mouse)Not determined975775364114474379Mouse
10054492El7_mepilepsy 7 (mouse)Not determined975775364114474379Mouse
1301869Tbbmd4_mtotal body bone mineral density 4 (mouse)Not determined976117105101528921Mouse
1301407Rapop2_mradiation-induced apoptosis 2 (mouse)Not determined976535936110536130Mouse
1301192Skts6_mskin tumor susceptibility 6 (mouse)Not determined978640645112640755Mouse
10401247Bglu14_mblood glucose level 14 (mouse)Not determined979397810113397888Mouse
1301732Char1_mP. chabaudi malaria resistance QTL 1 (mouse)Not determined981798268115798392Mouse
1300884Sluc11_msusceptibility to lung cancer 11 (mouse)Not determined982910333116910428Mouse
1357461Idd2_minsulin dependent diabetes susceptibility 2 (mouse)Not determined982910333116910428Mouse
10766454Char10_mP. chabaudi malaria resistance QTL 10 (mouse)982910333116910428Mouse
1301487Nociq1_mnociceptive sensitivity inflammatory QTL 1 (mouse)Not determined984528818118528921Mouse
10412180Msam3_mmuscle, skeletal, activity measure 3 (mouse)Not determined985897510108641186Mouse
1300549Bbaa17_mB. burgdorferi-associated arthritis 17 (mouse)Not determined986230401120230530Mouse
1302103Dob2_mdietary obesity 2 (mouse)Not determined986239845120289624Mouse
11251716Siim2_mstress induced immobility 2 (mouse)986748483120748483Mouse
12880422V25Dq6_mvitamin D inactive form serum level QTL 6 (mouse)987800000121800000Mouse
10412242Alpq8_malcohol preference QTL 8 (mouse)Not determined989284925123284925Mouse
1301649Psl1_mpromotion susceptibility QTL 1 (mouse)Not determined989412277123412396Mouse
18182932Metl3_mmetabolite locus 3, N-acetylglutamate (mouse)989563342123563342Mouse
1357657Pymr_mPlasmodium yoelli malaria resistance (mouse)Not determined989977005118938021Mouse
12910770Splic1_mspleen iron content 1 (mouse)991413879124595110Mouse
12910772Lvic6_mliver iron content 6 (mouse)991413879124595110Mouse
12910773Splic3_mspleen iron content 3 (mouse)991413879124595110Mouse
1558767Skmw11_mskeletal muscle weight 11 (mouse)Not determined991641084124595110Mouse
13463474Hbbcq5_mhemoglobin concentration QTL 5 (mouse)991641084124595110Mouse
13463475Hctq7_mhematocrit QTL 7 (mouse)991641084124595110Mouse
13463477Rbc9_mred blood cell count 9 (mouse)991641084124595110Mouse
13463478Mchq18_mmean corpuscular hemoglobin QTL 18 (mouse)991641084124595110Mouse
13463480Mchcq2_mmean corpuscular hemoglobin concentration QTL 2 (mouse)991641084124595110Mouse
12904937Edlmmq9_mextensor digitorum longus muscle mass QTL 9 (mouse)991683173124595110Mouse
12904947Tammq7_mtibialis anterior muscle mass QTL 7 (mouse)991683173124595110Mouse
12904961Gmmq7_mgastrocnemius muscle mass QTL 7 (mouse)991683173124595110Mouse
1302001Bdln5_mbody length 5 (mouse)Not determined993762590124595110Mouse
1301484Bwq6_mbody weight (mouse)Not determined993762590124595110Mouse
14746992Manh67_mmandible shape 67 (mouse)994036768124595110Mouse
11081166Psl5_mpromotion susceptibility QTL 5 (mouse)994981301112872929Mouse
11537364Cnes5_mC. neoformans susceptibility locus 5 (mouse)996917590124595110Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:55
Count of miRNA genes:53
Interacting mature miRNAs:55
Transcripts:ENSMUST00000035033
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_015827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC117214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC140449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF043120 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK033250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK088064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK153352 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK179992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK185122 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK187477 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK188271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK192657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK194942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK205065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK207393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC006675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC010842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000035033   ⟹   ENSMUSP00000035033
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl998,563,731 - 98,588,382 (+)Ensembl
RefSeq Acc Id: ENSMUST00000186657
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl998,579,951 - 98,581,222 (+)Ensembl
RefSeq Acc Id: ENSMUST00000187151
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl998,587,547 - 98,588,261 (+)Ensembl
RefSeq Acc Id: ENSMUST00000187336
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl998,586,845 - 98,587,829 (+)Ensembl
RefSeq Acc Id: ENSMUST00000188913
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl998,563,721 - 98,567,316 (+)Ensembl
RefSeq Acc Id: ENSMUST00000189395
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl998,587,346 - 98,588,031 (+)Ensembl
RefSeq Acc Id: NM_015827   ⟹   NP_056642
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39998,445,784 - 98,470,428 (+)NCBI
GRCm38998,563,731 - 98,588,375 (+)ENTREZGENE
MGSCv37998,464,150 - 98,488,794 (+)RGD
Celera998,109,355 - 98,134,004 (+)RGD
cM Map9 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_056642   ⟸   NM_015827
- UniProtKB: O55029 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000035033   ⟸   ENSMUST00000035033

Promoters
RGD ID:6843980
Promoter ID:MM_KWN:58467
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:AK016329_4930579K19RIK,   ENSMUST00000058992,   NM_015827,   NR_029444
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36998,463,896 - 98,464,396 (-)MPROMDB
RGD ID:8670536
Promoter ID:EPDNEW_M13299
Type:initiation region
Name:Copb2_1
Description:Mus musculus coatomer protein complex, subunit beta 2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38998,563,731 - 98,563,791EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1354962 AgrOrtholog
Ensembl Genes ENSMUSG00000032458 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000035033 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000035033 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.130.10.10 UniProtKB/Swiss-Prot
InterPro Coatomer_WD-assoc_reg UniProtKB/Swiss-Prot
  COPB2 UniProtKB/Swiss-Prot
  G-protein_beta_WD-40_rep UniProtKB/Swiss-Prot
  WD40/YVTN_repeat-like_dom_sf UniProtKB/Swiss-Prot
  WD40_repeat UniProtKB/Swiss-Prot
  WD40_repeat_dom UniProtKB/Swiss-Prot
  WD40_repeat_dom_sf UniProtKB/Swiss-Prot
KEGG Report mmu:50797 UniProtKB/Swiss-Prot
MGD MGI:1354962 ENTREZGENE
NCBI Gene 50797 ENTREZGENE
Pfam Coatomer_WDAD UniProtKB/Swiss-Prot
  WD40 UniProtKB/Swiss-Prot
PhenoGen Copb2 PhenoGen
PIRSF Coatomer_beta'_subunit UniProtKB/Swiss-Prot
PRINTS GPROTEINBRPT UniProtKB/Swiss-Prot
PROSITE WD_REPEATS_2 UniProtKB/Swiss-Prot
  WD_REPEATS_REGION UniProtKB/Swiss-Prot
SMART WD40 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF50978 UniProtKB/Swiss-Prot
UniProt COPB2_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q3U5Z9 UniProtKB/Swiss-Prot