Cpne5 (copine 5) - Rat Genome Database

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Gene: Cpne5 (copine 5) Rattus norvegicus
Analyze
Symbol: Cpne5
Name: copine 5
RGD ID: 1308021
Description: Predicted to enable calcium-dependent phospholipid binding activity. Predicted to be involved in cellular response to calcium ion and positive regulation of dendrite extension. Predicted to be located in neuron projection and neuronal cell body. Predicted to be active in plasma membrane. Orthologous to human CPNE5 (copine 5); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; benzo[a]pyrene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: copine 5 protein; copine V; copine-5; LOC309650
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2207,206,742 - 7,289,309 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl207,206,742 - 7,288,883 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx207,917,922 - 7,999,959 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0207,279,786 - 7,361,822 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0207,754,579 - 7,836,796 (-)NCBIRnor_WKY
Rnor_6.0206,419,033 - 6,500,843 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl206,419,033 - 6,500,523 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0208,664,244 - 8,745,448 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4207,453,643 - 7,535,366 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1207,455,846 - 7,535,503 (-)NCBI
Celera208,756,578 - 8,838,868 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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 MGI mouse gene data--August 2006 MGD 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:18250453   PMID:18614158   PMID:19056867   PMID:23533145   PMID:23999003  


Genomics

Comparative Map Data
Cpne5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2207,206,742 - 7,289,309 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl207,206,742 - 7,288,883 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx207,917,922 - 7,999,959 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0207,279,786 - 7,361,822 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0207,754,579 - 7,836,796 (-)NCBIRnor_WKY
Rnor_6.0206,419,033 - 6,500,843 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl206,419,033 - 6,500,523 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0208,664,244 - 8,745,448 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4207,453,643 - 7,535,366 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1207,455,846 - 7,535,503 (-)NCBI
Celera208,756,578 - 8,838,868 (-)NCBICelera
Cytogenetic Map20p12NCBI
CPNE5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38636,740,775 - 36,839,998 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl636,740,775 - 36,839,444 (-)EnsemblGRCh38hg38GRCh38
GRCh37636,708,552 - 36,807,774 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36636,816,533 - 36,915,198 (-)NCBINCBI36Build 36hg18NCBI36
Build 34636,816,532 - 36,915,198NCBI
Celera638,263,598 - 38,362,252 (-)NCBICelera
Cytogenetic Map6p21.2NCBI
HuRef636,426,825 - 36,525,533 (-)NCBIHuRef
CHM1_1636,710,493 - 36,809,144 (-)NCBICHM1_1
T2T-CHM13v2.0636,561,362 - 36,660,596 (-)NCBIT2T-CHM13v2.0
Cpne5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391729,375,495 - 29,456,764 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1729,374,530 - 29,457,141 (-)EnsemblGRCm39 Ensembl
GRCm381729,156,521 - 29,237,790 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1729,155,556 - 29,238,167 (-)EnsemblGRCm38mm10GRCm38
MGSCv371729,293,466 - 29,374,735 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361728,883,833 - 28,964,802 (-)NCBIMGSCv36mm8
Celera1729,707,300 - 29,787,838 (-)NCBICelera
Cytogenetic Map17A3.3NCBI
Cpne5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554376,153,486 - 6,219,096 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554376,153,486 - 6,218,774 (+)NCBIChiLan1.0ChiLan1.0
CPNE5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1637,499,020 - 37,597,583 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl637,500,515 - 37,597,281 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0636,287,945 - 36,402,371 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CPNE5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1125,812,460 - 5,902,467 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl125,811,503 - 5,910,343 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha125,831,510 - 5,921,508 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0126,161,527 - 6,251,534 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl126,161,527 - 6,251,474 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1125,816,127 - 5,906,521 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0125,895,662 - 5,985,995 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0125,993,806 - 6,084,221 (-)NCBIUU_Cfam_GSD_1.0
Cpne5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494641,286,989 - 41,376,974 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493647622,584,837 - 22,673,143 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CPNE5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl732,409,688 - 32,508,380 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1732,396,735 - 32,510,242 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2737,301,474 - 37,412,793 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CPNE5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11735,296,046 - 35,392,450 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1735,296,196 - 35,390,970 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604436,687,767 - 36,784,175 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cpne5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475420,995,413 - 21,068,130 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475420,995,407 - 21,067,853 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
BE110298  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2207,211,704 - 7,212,126 (+)MAPPERmRatBN7.2
Rnor_6.0206,423,994 - 6,424,415NCBIRnor6.0
Rnor_5.0208,669,205 - 8,669,626UniSTSRnor5.0
RGSC_v3.4207,458,604 - 7,459,025UniSTSRGSC3.4
Celera208,761,536 - 8,761,957UniSTS
RH 3.4 Map2077.84UniSTS
Cytogenetic Map20p12UniSTS
RH141863  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2207,208,173 - 7,208,362 (+)MAPPERmRatBN7.2
Rnor_6.0206,420,465 - 6,420,653NCBIRnor6.0
Rnor_5.0208,665,676 - 8,665,864UniSTSRnor5.0
RGSC_v3.4207,455,075 - 7,455,263UniSTSRGSC3.4
Celera208,758,007 - 8,758,195UniSTS
RH 3.4 Map2077.84UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20669170617489458Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:934
Count of miRNA genes:313
Interacting mature miRNAs:413
Transcripts:ENSRNOT00000000629
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.


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 42 11
Low 1 32 11 10 4 10 32 20 28 5
Below cutoff 2 11 44 29 15 29 8 9 15 2 6 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000629   ⟹   ENSRNOP00000000629
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl207,206,742 - 7,288,883 (-)Ensembl
Rnor_6.0 Ensembl206,419,033 - 6,500,523 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101285   ⟹   ENSRNOP00000079746
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl207,206,742 - 7,288,883 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108791   ⟹   ENSRNOP00000090957
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl207,206,742 - 7,288,883 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110640   ⟹   ENSRNOP00000085748
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl207,206,742 - 7,288,883 (-)Ensembl
RefSeq Acc Id: NM_001107616   ⟹   NP_001101086
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2207,206,742 - 7,288,962 (-)NCBI
Rnor_6.0206,419,033 - 6,500,523 (-)NCBI
Rnor_5.0208,664,244 - 8,745,448 (-)NCBI
RGSC_v3.4207,453,643 - 7,535,366 (-)RGD
Celera208,756,578 - 8,838,868 (-)RGD
Sequence:
RefSeq Acc Id: XM_017601646   ⟹   XP_017457135
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2207,208,095 - 7,289,309 (-)NCBI
Rnor_6.0206,420,388 - 6,500,843 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601647   ⟹   XP_017457136
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2207,208,095 - 7,289,307 (-)NCBI
Rnor_6.0206,420,388 - 6,500,425 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601649   ⟹   XP_017457138
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2207,208,095 - 7,228,684 (-)NCBI
Rnor_6.0206,420,388 - 6,441,182 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039098709   ⟹   XP_038954637
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2207,208,095 - 7,221,951 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101086   ⟸   NM_001107616
- UniProtKB: D3ZGN2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457135   ⟸   XM_017601646
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457136   ⟸   XM_017601647
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017457138   ⟸   XM_017601649
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000000629   ⟸   ENSRNOT00000000629
RefSeq Acc Id: XP_038954637   ⟸   XM_039098709
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000090957   ⟸   ENSRNOT00000108791
RefSeq Acc Id: ENSRNOP00000079746   ⟸   ENSRNOT00000101285
RefSeq Acc Id: ENSRNOP00000085748   ⟸   ENSRNOT00000110640
Protein Domains
C2   VWFA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZGN2-F1-model_v2 AlphaFold D3ZGN2 1-593 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 7456205 7456206 G T snv FHL/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308021 AgrOrtholog
BioCyc Gene G2FUF-4388 BioCyc
Ensembl Genes ENSRNOG00000000522 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000629 ENTREZGENE
  ENSRNOP00000000629.3 UniProtKB/TrEMBL
  ENSRNOP00000079746.1 UniProtKB/TrEMBL
  ENSRNOP00000085748 ENTREZGENE
  ENSRNOP00000085748.1 UniProtKB/TrEMBL
  ENSRNOP00000090957 ENTREZGENE
  ENSRNOP00000090957.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000629 ENTREZGENE
  ENSRNOT00000000629.5 UniProtKB/TrEMBL
  ENSRNOT00000101285.1 UniProtKB/TrEMBL
  ENSRNOT00000108791 ENTREZGENE
  ENSRNOT00000108791.1 UniProtKB/TrEMBL
  ENSRNOT00000110640 ENTREZGENE
  ENSRNOT00000110640.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.150 UniProtKB/TrEMBL
InterPro C2_Ca-dep UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/TrEMBL
  C2B_Copine UniProtKB/TrEMBL
  Copine UniProtKB/TrEMBL
  Copine UniProtKB/TrEMBL
  VWF_A UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
KEGG Report rno:309650 UniProtKB/TrEMBL
NCBI Gene 309650 ENTREZGENE
PANTHER PTHR10857 UniProtKB/TrEMBL
Pfam Copine UniProtKB/TrEMBL
  PF00168 UniProtKB/TrEMBL
PhenoGen Cpne5 PhenoGen
PROSITE PS50004 UniProtKB/TrEMBL
  VWFA UniProtKB/TrEMBL
SMART SM00239 UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
Superfamily-SCOP SSF49562 UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
UniProt A0A8I5ZN81_RAT UniProtKB/TrEMBL
  A0A8I6A0U5_RAT UniProtKB/TrEMBL
  A0A8I6AER2_RAT UniProtKB/TrEMBL
  D3ZGN2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-03 Cpne5  copine 5  Cpne5  copine V  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cpne5  copine V   Cpne5_predicted  copine V (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cpne5_predicted  copine V (predicted)      Symbol and Name status set to approved 70820 APPROVED