Cpne6 (copine VI) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Cpne6 (copine VI) Mus musculus
Analyze
Symbol: Cpne6
Name: copine VI
RGD ID: 1313397
MGI Page MGI
Description: Enables phosphatidylserine binding activity. Involved in cellular response to calcium ion. Located in several cellular components, including axon; clathrin-coated endocytic vesicle; and dendrite. Is expressed in brain; future brain; and hippocampus. Orthologous to human CPNE6 (copine 6).
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: AU067659; BB076446; copine 6; copine-6; N-copine; neuronal copine; neuronal-copine
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
GRCm391455,747,902 - 55,754,892 (+)NCBIGRCm39mm39
GRCm39 Ensembl1455,747,902 - 55,754,888 (+)Ensembl
GRCm381455,510,445 - 55,517,435 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,510,445 - 55,517,431 (+)EnsemblGRCm38mm10GRCm38
MGSCv371456,129,285 - 56,136,268 (+)NCBIGRCm37mm9NCBIm37
MGSCv361454,465,431 - 54,471,501 (+)NCBImm8
Celera1453,299,381 - 53,322,268 (+)NCBICelera
Cytogenetic Map14C3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:9430674   PMID:9645480   PMID:9886090   PMID:10349636   PMID:10403379   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:15489334   PMID:16141072  
PMID:16141073   PMID:21087455   PMID:21267068   PMID:21873635   PMID:24457600   PMID:26175110   PMID:27194588   PMID:28344592   PMID:29802203   PMID:30068389   PMID:32325033  


Genomics

Comparative Map Data
Cpne6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391455,747,902 - 55,754,892 (+)NCBIGRCm39mm39
GRCm39 Ensembl1455,747,902 - 55,754,888 (+)Ensembl
GRCm381455,510,445 - 55,517,435 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,510,445 - 55,517,431 (+)EnsemblGRCm38mm10GRCm38
MGSCv371456,129,285 - 56,136,268 (+)NCBIGRCm37mm9NCBIm37
MGSCv361454,465,431 - 54,471,501 (+)NCBImm8
Celera1453,299,381 - 53,322,268 (+)NCBICelera
Cytogenetic Map14C3NCBI
CPNE6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1424,070,837 - 24,078,100 (+)EnsemblGRCh38hg38GRCh38
GRCh381424,069,833 - 24,078,100 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371424,540,158 - 24,547,296 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361423,610,596 - 23,617,136 (+)NCBINCBI36hg18NCBI36
Build 341423,610,595 - 23,617,135NCBI
Celera144,405,233 - 4,411,773 (+)NCBI
Cytogenetic Map14q11.2NCBI
HuRef144,654,979 - 4,662,242 (+)NCBIHuRef
CHM1_11424,538,721 - 24,545,984 (+)NCBICHM1_1
Cpne6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21528,998,293 - 29,005,044 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1528,998,293 - 29,005,044 (+)Ensembl
Rnor_6.01534,187,229 - 34,194,107 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1534,187,223 - 34,194,118 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01538,077,636 - 38,084,718 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41533,641,687 - 33,648,439 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1528,574,328 - 28,581,077 (+)NCBICelera
Cytogenetic Map15p13NCBI
Cpne6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540936,315,353 - 36,322,646 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540936,315,353 - 36,322,646 (-)NCBIChiLan1.0ChiLan1.0
CPNE6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11422,973,157 - 22,980,341 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1422,973,157 - 22,980,341 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0144,848,845 - 4,856,085 (+)NCBIMhudiblu_PPA_v0panPan3
CPNE6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.184,078,240 - 4,084,744 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl84,046,544 - 4,084,744 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha84,000,102 - 4,006,582 (+)NCBI
ROS_Cfam_1.084,188,941 - 4,195,467 (+)NCBI
UMICH_Zoey_3.183,879,648 - 3,886,128 (+)NCBI
UNSW_CanFamBas_1.083,941,388 - 3,947,868 (+)NCBI
UU_Cfam_GSD_1.084,203,499 - 4,209,979 (+)NCBI
Cpne6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864035,926,748 - 35,934,174 (+)NCBI
SpeTri2.0NW_004936722454,818 - 462,324 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CPNE6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl775,213,643 - 75,219,031 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1775,213,643 - 75,219,031 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2780,484,577 - 80,491,174 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CPNE6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1241,053,980 - 1,061,544 (+)NCBI
ChlSab1.1 Ensembl241,054,488 - 1,061,578 (+)Ensembl
Vero_WHO_p1.0NW_02366603612,735,993 - 12,743,598 (+)NCBI
Cpne6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248208,451,588 - 8,458,871 (-)NCBI

Position Markers
AU067659  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381455,517,062 - 55,517,288UniSTSGRCm38
MGSCv371456,135,899 - 56,136,125UniSTSGRCm37
Celera1453,321,899 - 53,322,125UniSTS
Cytogenetic Map14C3UniSTS
Whitehead/MRC_RH14608.27UniSTS
BB076446  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381455,517,235 - 55,517,357UniSTSGRCm38
MGSCv371456,136,072 - 56,136,194UniSTSGRCm37
Celera1453,322,072 - 53,322,194UniSTS
Cytogenetic Map14C3UniSTS
Whitehead/MRC_RH14633.21UniSTS
AB008893  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381455,517,103 - 55,517,288UniSTSGRCm38
MGSCv371456,135,940 - 56,136,125UniSTSGRCm37
Celera1453,321,940 - 53,322,125UniSTS
Cytogenetic Map14C3UniSTS
Whitehead/MRC_RH14610.58UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301489Lbm10_mlean body mass 10 (mouse)Not determined145352385687524089Mouse
1301424Skull21_mskull morphology 21 (mouse)Not determined144272496776725144Mouse
4141400Nilac8_mnicotine induced locomotor activity 8 (mouse)Not determined144282839876828596Mouse
1301777Bglq15_mbody growth late QTL 15 (mouse)Not determined144272496776725144Mouse
1300805Mors3_mmodifier of obesity related sterility 3 (mouse)Not determined144279982176799969Mouse
1357589Kdnw2_mkidney weight 2 (mouse)Not determined1420837405121032392Mouse
4141484Hcbip1_mhexachlorobenzene induced porphyria 1 (mouse)Not determined4709779359725144Mouse
1300605El5_mepilepsy 5 (mouse)Not determined144921797683218107Mouse
1300625Cosz2_mcocaine seizure 2 (mouse)Not determined143532384068548287Mouse
1357527Epfpq1_mepididymal fat percentage QTL 1 (mouse)Not determined142101238271648361Mouse
1300909Ath13_matherosclerosis 13 (mouse)Not determined143009779364097924Mouse
1301091Bbaa21_mB.burgdorferi-associated arthritis 21 (mouse)Not determined144282839876828596Mouse
1300998Cia17_mcollagen induced arthritis 17 (mouse)Not determined143009779364097924Mouse
4142364Pbwg18_mpostnatal body weight growth 18 (mouse)Not determined145204453586044676Mouse
4142419Tgq26_mtriglyceride QTL 26 (mouse)Not determined4009986274099862Mouse
10043886Cia49_mcollagen induced arthritis QTL 49 (mouse)Not determined142975953763759676Mouse
10043887Cia50_mcollagen induced arthritis QTL 50 (mouse)Not determined143719272871192863Mouse
4142485Modor2_mmodifier of ocular retardation 2 (mouse)Not determined142492582457942312Mouse
12880432Fgf23lq3_mFGF23 serum level QTL 3 (mouse)145370000087700000Mouse
27226737Metcl12_mmetatarsal-calcaneal length 12, 10 week (mouse)143350000059200000Mouse
27226774Tibl15_mtibia length 15, 10 week (mouse)143060000087700000Mouse
13506929Recrq10_mrecombination rate in male meiosis QTL 10 (mouse)142820000060900000Mouse
14746973Manh76_mmandible shape 76 (mouse)142256526056565260Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1126
Count of miRNA genes:406
Interacting mature miRNAs:452
Transcripts:ENSMUST00000074225, ENSMUST00000163767, ENSMUST00000165262, ENSMUST00000165725, ENSMUST00000169869, ENSMUST00000170155, ENSMUST00000171643
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


Reference Sequences
RefSeq Acc Id: ENSMUST00000074225   ⟹   ENSMUSP00000073847
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,747,905 - 55,754,888 (+)Ensembl
GRCm38.p6 Ensembl1455,510,448 - 55,517,431 (+)Ensembl
RefSeq Acc Id: ENSMUST00000163767   ⟹   ENSMUSP00000126493
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,748,817 - 55,754,888 (+)Ensembl
GRCm38.p6 Ensembl1455,511,360 - 55,517,431 (+)Ensembl
RefSeq Acc Id: ENSMUST00000165262   ⟹   ENSMUSP00000132999
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,747,902 - 55,754,888 (+)Ensembl
GRCm38.p6 Ensembl1455,510,445 - 55,517,431 (+)Ensembl
RefSeq Acc Id: ENSMUST00000165725   ⟹   ENSMUSP00000130799
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,748,054 - 55,751,149 (+)Ensembl
GRCm38.p6 Ensembl1455,510,597 - 55,513,692 (+)Ensembl
RefSeq Acc Id: ENSMUST00000169869
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,748,768 - 55,754,888 (+)Ensembl
GRCm38.p6 Ensembl1455,511,311 - 55,517,431 (+)Ensembl
RefSeq Acc Id: ENSMUST00000170155
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,747,932 - 55,754,887 (+)Ensembl
GRCm38.p6 Ensembl1455,510,475 - 55,517,430 (+)Ensembl
RefSeq Acc Id: ENSMUST00000171643   ⟹   ENSMUSP00000128555
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,749,442 - 55,754,886 (+)Ensembl
GRCm38.p6 Ensembl1455,511,985 - 55,517,429 (+)Ensembl
RefSeq Acc Id: NM_001136057   ⟹   NP_001129529
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391455,747,902 - 55,754,892 (+)NCBI
GRCm381455,510,445 - 55,517,435 (+)NCBI
MGSCv371456,129,285 - 56,136,268 (+)RGD
Celera1453,299,381 - 53,322,268 (+)RGD
cM Map14 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001146183   ⟹   NP_001139655
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391455,747,902 - 55,754,892 (+)NCBI
GRCm381455,510,445 - 55,517,435 (+)NCBI
MGSCv371456,129,285 - 56,136,268 (+)RGD
Celera1453,299,381 - 53,322,268 (+)RGD
cM Map14 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001360193   ⟹   NP_001347122
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391455,747,902 - 55,754,892 (+)NCBI
GRCm381455,510,445 - 55,517,435 (+)NCBI
Sequence:
RefSeq Acc Id: NM_009947   ⟹   NP_034077
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391455,748,817 - 55,754,892 (+)NCBI
GRCm381455,511,360 - 55,517,435 (+)NCBI
MGSCv371456,129,285 - 56,136,268 (+)RGD
Celera1453,299,381 - 53,322,268 (+)RGD
cM Map14 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_034077   ⟸   NM_009947
- Peptide Label: isoform a
- UniProtKB: Q9Z140 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001129529   ⟸   NM_001136057
- Peptide Label: isoform a
- UniProtKB: Q9Z140 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001139655   ⟸   NM_001146183
- Peptide Label: isoform b
- UniProtKB: Q3UYN2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001347122   ⟸   NM_001360193
- Peptide Label: isoform a
RefSeq Acc Id: ENSMUSP00000126493   ⟸   ENSMUST00000163767
RefSeq Acc Id: ENSMUSP00000073847   ⟸   ENSMUST00000074225
RefSeq Acc Id: ENSMUSP00000128555   ⟸   ENSMUST00000171643
RefSeq Acc Id: ENSMUSP00000130799   ⟸   ENSMUST00000165725
RefSeq Acc Id: ENSMUSP00000132999   ⟸   ENSMUST00000165262
Protein Domains
C2   VWFA

Promoters
RGD ID:8682414
Promoter ID:EPDNEW_M19238
Type:multiple initiation site
Name:Cpne6_1
Description:Mus musculus copine VI , transcript variant 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
GRCm381455,510,624 - 55,510,684EPDNEW
RGD ID:6824793
Promoter ID:MM_KWN:16950
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:NM_009947
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361456,129,271 - 56,130,022 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1334445 AgrOrtholog
Ensembl Genes ENSMUSG00000022212 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000073847 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000126493 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000128555 UniProtKB/Swiss-Prot
  ENSMUSP00000130799 UniProtKB/TrEMBL
  ENSMUSP00000132999 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000074225 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000163767 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000165262 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000165725 UniProtKB/TrEMBL
  ENSMUST00000171643 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.50.410 UniProtKB/TrEMBL
InterPro C2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2B_Copine UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Copine UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VWF_A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:12891 UniProtKB/Swiss-Prot
MGD MGI:1334445 ENTREZGENE
NCBI Gene 12891 ENTREZGENE
Pfam Copine UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cpne6 PhenoGen
PROSITE PS50004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VWFA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VWA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CPNE6_MOUSE UniProtKB/Swiss-Prot
  E9QA77_MOUSE UniProtKB/TrEMBL
  Q3UN71_MOUSE UniProtKB/TrEMBL
  Q3UYN2 ENTREZGENE, UniProtKB/TrEMBL
  Q9Z140 ENTREZGENE