Cpne7 (copine 7) - Rat Genome Database

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Gene: Cpne7 (copine 7) Rattus norvegicus
Analyze
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 and synapse. 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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81968,072,165 - 68,091,197 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1968,074,545 - 68,091,197 (+)EnsemblGRCr8
mRatBN7.21951,164,316 - 51,182,676 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,166,034 - 51,182,677 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1957,961,280 - 57,977,864 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,641,026 - 58,657,595 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,859,881 - 60,876,466 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,929,555 - 55,946,251 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,929,609 - 55,946,250 (+)Ensemblrn6Rnor6.0
Rnor_5.01966,634,960 - 66,651,622 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41953,449,428 - 53,466,072 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1950,401,641 - 50,418,280 (+)NCBICelera
RGSC_v3.11953,454,423 - 53,470,317 (+)NCBI
Cytogenetic Map19q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO)
nucleus  (IEA,ISO)
plasma membrane  (IBA,IEA,ISO)
synapse  (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 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1968,074,545 - 68,091,197 (+)EnsemblGRCr8
mRatBN7.21951,164,316 - 51,182,676 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,166,034 - 51,182,677 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1957,961,280 - 57,977,864 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,641,026 - 58,657,595 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,859,881 - 60,876,466 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,929,555 - 55,946,251 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,929,609 - 55,946,250 (+)Ensemblrn6Rnor6.0
Rnor_5.01966,634,960 - 66,651,622 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41953,449,428 - 53,466,072 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1950,401,641 - 50,418,280 (+)NCBICelera
RGSC_v3.11953,454,423 - 53,470,317 (+)NCBI
Cytogenetic Map19q12NCBI
CPNE7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381689,575,758 - 89,597,246 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1689,575,732 - 89,597,247 (+)Ensemblhg38GRCh38
GRCh371689,642,166 - 89,663,654 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361688,169,677 - 88,191,155 (+)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm388123,117,313 - 123,135,185 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8123,117,374 - 123,135,182 (+)Ensemblmm10GRCm38
MGSCv378125,641,274 - 125,659,085 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (+)Ensembl
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 (+)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha563,964,401 - 63,990,428 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0564,179,595 - 64,205,647 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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
Cpne7
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11742,737,498 - 42,754,100 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)194622677874246245Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)192409397369093973Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat
2303628Vencon9Ventilatory control QTL 90.005respiration trait (VT:0001943)minute ventilation (CMO:0000132)192318858668188586Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194438513474246245Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)196124916174246245Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
1554318Bmd5Bone mineral density QTL 512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)192318858668188586Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)194172254674246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat

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

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
17 12 75 176 91 90 59 139 59 6 444 247 11 165 113 107 31 27 27

Sequence


Ensembl 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
Ensembl Acc Id: ENSRNOT00000077701   ⟹   ENSRNOP00000068558
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1968,074,545 - 68,091,197 (+)Ensembl
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
Ensembl Acc Id: ENSRNOP00000068558   ⟸   ENSRNOT00000077701
Ensembl 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
Ensembl Transcript ENSRNOT00000077701 ENTREZGENE
  ENSRNOT00000077701.2 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.150 UniProtKB/Swiss-Prot
  3.40.50.410 UniProtKB/Swiss-Prot
InterPro C2_dom UniProtKB/Swiss-Prot
  C2_domain_sf UniProtKB/Swiss-Prot
  C2B_Copine UniProtKB/Swiss-Prot
  Copine UniProtKB/Swiss-Prot
  Copine UniProtKB/Swiss-Prot
  VWF_A UniProtKB/Swiss-Prot
  vWFA_dom_sf UniProtKB/Swiss-Prot
NCBI Gene 361433 ENTREZGENE
PANTHER COPINE-7 UniProtKB/Swiss-Prot
  PTHR10857 UniProtKB/Swiss-Prot
Pfam Copine UniProtKB/Swiss-Prot
  PF00168 UniProtKB/Swiss-Prot
PhenoGen Cpne7 PhenoGen
PROSITE PS50004 UniProtKB/Swiss-Prot
  VWFA UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000015397 RatGTEx
SMART SM00239 UniProtKB/Swiss-Prot
  VWA UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49562 UniProtKB/Swiss-Prot
  SSF53300 UniProtKB/Swiss-Prot
UniProt A6IZV5 ENTREZGENE, UniProtKB/TrEMBL
  CPNE7_RAT UniProtKB/Swiss-Prot
  D3ZWR4 ENTREZGENE
  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