Cpne7 (copine 7) - Rat Genome Database

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Gene: Cpne7 (copine 7) Rattus norvegicus
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Symbol: Cpne7
Name: copine 7
RGD ID: 1307466
Description: Predicted to enable calcium-dependent phospholipid binding activity. Predicted to be involved in cellular response to calcium ion. Predicted to be located in cytoplasm and nucleus. Predicted to be active in plasma membrane. Orthologous to human CPNE7 (copine 7); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: copine VII; copine-7; LOC361433
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81968,072,165 - 68,091,197 (+)NCBIGRCr8
mRatBN7.21951,164,316 - 51,182,676 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,166,034 - 51,182,677 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1957,961,280 - 57,977,864 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,641,026 - 58,657,595 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,859,881 - 60,876,466 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,929,555 - 55,946,251 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,929,609 - 55,946,250 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01966,634,960 - 66,651,622 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41953,449,428 - 53,466,072 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11953,454,423 - 53,470,317 (+)NCBI
Celera1950,401,641 - 50,418,280 (+)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (ISO)
nucleus  (ISO)
plasma membrane  (IBA,IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21087455   PMID:23533145   PMID:26175110  


Genomics

Comparative Map Data
Cpne7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81968,072,165 - 68,091,197 (+)NCBIGRCr8
mRatBN7.21951,164,316 - 51,182,676 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,166,034 - 51,182,677 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1957,961,280 - 57,977,864 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,641,026 - 58,657,595 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,859,881 - 60,876,466 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,929,555 - 55,946,251 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,929,609 - 55,946,250 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01966,634,960 - 66,651,622 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41953,449,428 - 53,466,072 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11953,454,423 - 53,470,317 (+)NCBI
Celera1950,401,641 - 50,418,280 (+)NCBICelera
Cytogenetic Map19q12NCBI
CPNE7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381689,575,758 - 89,597,246 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1689,575,758 - 89,597,246 (+)EnsemblGRCh38hg38GRCh38
GRCh371689,642,166 - 89,663,654 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361688,169,677 - 88,191,155 (+)NCBINCBI36Build 36hg18NCBI36
Build 341688,169,676 - 88,191,154NCBI
Celera1674,705,518 - 74,726,398 (+)NCBICelera
Cytogenetic Map16q24.3NCBI
HuRef1675,338,670 - 75,358,493 (+)NCBIHuRef
CHM1_11691,053,456 - 91,074,511 (+)NCBICHM1_1
T2T-CHM13v2.01695,656,186 - 95,677,486 (+)NCBIT2T-CHM13v2.0
Cpne7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398123,844,054 - 123,861,924 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8123,844,113 - 123,861,921 (+)EnsemblGRCm39 Ensembl
GRCm388123,117,313 - 123,135,185 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8123,117,374 - 123,135,182 (+)EnsemblGRCm38mm10GRCm38
MGSCv378125,641,274 - 125,659,085 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368126,003,547 - 126,021,272 (+)NCBIMGSCv36mm8
Celera8127,354,880 - 127,372,744 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map872.06NCBI
Cpne7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555413,159,818 - 3,170,428 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555413,159,485 - 3,170,304 (+)NCBIChiLan1.0ChiLan1.0
CPNE7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21899,359,606 - 99,381,701 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan116105,276,736 - 105,298,863 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01670,327,952 - 70,349,898 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11689,937,091 - 89,951,891 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1689,936,172 - 89,955,115 (+)Ensemblpanpan1.1panPan2
CPNE7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1563,951,547 - 63,978,389 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl563,951,549 - 63,978,601 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha563,964,401 - 63,990,428 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0564,179,595 - 64,205,647 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl564,179,600 - 64,205,968 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1564,199,565 - 64,225,563 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0564,037,029 - 64,063,036 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0564,443,812 - 64,469,864 (-)NCBIUU_Cfam_GSD_1.0
Cpne7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934924,659,779 - 24,673,456 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936641413,759 - 426,507 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936641413,331 - 426,514 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CPNE7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.16393,756 - 410,781 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CPNE7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1574,937,985 - 74,953,406 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666047557,511 - 572,149 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Cpne7
131 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:142
Count of miRNA genes:106
Interacting mature miRNAs:119
Transcripts:ENSRNOT00000068231
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194997648153225766Rat

Markers in Region
RH138554  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21951,182,422 - 51,182,608 (+)MAPPERmRatBN7.2
Rnor_6.01955,945,996 - 55,946,181NCBIRnor6.0
Rnor_5.01966,651,368 - 66,651,553UniSTSRnor5.0
RGSC_v3.41953,465,818 - 53,466,003UniSTSRGSC3.4
Celera1950,418,026 - 50,418,211UniSTS
RH 3.4 Map19710.21UniSTS
Cytogenetic Map19q12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 9 33 24 18 3
Low 3 36 47 31 10 31 8 9 29 11 20 8 8
Below cutoff 7 10 10 10 2 12 3

Sequence


RefSeq Acc Id: ENSRNOT00000068231   ⟹   ENSRNOP00000059993
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1951,166,034 - 51,182,677 (+)Ensembl
Rnor_6.0 Ensembl1955,929,609 - 55,946,250 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077701   ⟹   ENSRNOP00000068558
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1951,166,034 - 51,182,677 (+)Ensembl
Rnor_6.0 Ensembl1955,929,664 - 55,946,250 (+)Ensembl
RefSeq Acc Id: NM_001399095   ⟹   NP_001386024
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81968,074,629 - 68,091,197 (+)NCBI
mRatBN7.21951,166,105 - 51,182,676 (+)NCBI
RefSeq Acc Id: XM_039097880   ⟹   XP_038953808
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81968,074,860 - 68,091,197 (+)NCBI
mRatBN7.21951,166,344 - 51,182,676 (+)NCBI
RefSeq Acc Id: XM_063278156   ⟹   XP_063134226
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81968,072,166 - 68,089,784 (+)NCBI
RefSeq Acc Id: XR_005496670
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81968,072,165 - 68,086,527 (+)NCBI
mRatBN7.21951,164,316 - 51,182,676 (+)NCBI
RefSeq Acc Id: ENSRNOP00000068558   ⟸   ENSRNOT00000077701
RefSeq Acc Id: ENSRNOP00000059993   ⟸   ENSRNOT00000068231
RefSeq Acc Id: XP_038953808   ⟸   XM_039097880
- Peptide Label: isoform X1
- UniProtKB: A6IZV5 (UniProtKB/TrEMBL),   D3ZWR4 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001386024   ⟸   NM_001399095
- UniProtKB: H1UBN0 (UniProtKB/Swiss-Prot),   A6IZV5 (UniProtKB/TrEMBL),   D3ZWR4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134226   ⟸   XM_063278156
- Peptide Label: isoform X2
Protein Domains
C2   VWFA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-H1UBN0-F1-model_v2 AlphaFold H1UBN0 1-556 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307466 AgrOrtholog
BioCyc Gene G2FUF-5346 BioCyc
Ensembl Genes ENSRNOG00000015397 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055020651 UniProtKB/Swiss-Prot
  ENSRNOG00060018633 UniProtKB/Swiss-Prot
  ENSRNOG00065018941 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000068231.3 UniProtKB/TrEMBL
  ENSRNOT00000077701 ENTREZGENE
  ENSRNOT00000077701.2 UniProtKB/Swiss-Prot
  ENSRNOT00055035242 UniProtKB/Swiss-Prot
  ENSRNOT00060032066 UniProtKB/Swiss-Prot
  ENSRNOT00065031830 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.50.410 UniProtKB/Swiss-Prot, 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
  Copine UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Copine UniProtKB/TrEMBL
  VWF_A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:361433 UniProtKB/TrEMBL
NCBI Gene 361433 ENTREZGENE
PANTHER COPINE-7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10857 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Copine UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cpne7 PhenoGen
PROSITE PS50004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VWFA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000015397 RatGTEx
  ENSRNOG00055020651 RatGTEx
  ENSRNOG00060018633 RatGTEx
  ENSRNOG00065018941 RatGTEx
SMART SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VWA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49562 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF53300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6IZV5 ENTREZGENE, UniProtKB/TrEMBL
  CPNE7_RAT UniProtKB/Swiss-Prot
  D3ZWR4 ENTREZGENE, UniProtKB/TrEMBL
  H1UBN0 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-03 Cpne7  copine 7  Cpne7  copine VII  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cpne7  copine VII   Cpne7_predicted  copine VII (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cpne7_predicted  copine VII (predicted)      Symbol and Name status set to approved 70820 APPROVED