Prkcsh (protein kinase C substrate 80K-H) - Rat Genome Database

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Gene: Prkcsh (protein kinase C substrate 80K-H) Rattus norvegicus
Analyze
Symbol: Prkcsh
Name: protein kinase C substrate 80K-H
RGD ID: 1309628
Description: Predicted to enable several functions, including calcium ion binding activity; protein kinase C binding activity; and transmembrane transporter binding activity. Predicted to be involved in N-glycan processing and liver development. Predicted to act upstream of or within in utero embryonic development; negative regulation of neuron projection development; and nitrogen compound metabolic process. Predicted to be located in endoplasmic reticulum. Predicted to be part of glucosidase II complex. Human ortholog(s) of this gene implicated in liver disease and polycystic liver disease. Orthologous to human PRKCSH (protein kinase C substrate 80K-H); PARTICIPATES IN Endoplasmic Reticulum-associated degradation pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,5-hexanedione; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: glucosidase 2 subunit beta; LOC300445
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
mRatBN7.2820,534,787 - 20,546,493 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl820,534,880 - 20,546,492 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0823,014,802 - 23,026,507 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl823,014,956 - 23,026,503 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0823,069,586 - 23,081,291 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4821,107,041 - 21,144,270 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1821,106,881 - 21,117,476 (+)NCBI
Celera821,925,450 - 21,937,160 (+)NCBICelera
Cytogenetic Map8q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Abnormal hepatocystin caused by truncating PRKCSH mutations leads to autosomal dominant polycystic liver disease. Drenth JP, etal., Hepatology. 2004 Apr;39(4):924-31. doi: 10.1002/hep.20141.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Identification of 80K-H as a protein involved in GLUT4 vesicle trafficking. Hodgkinson CP, etal., Biochem J. 2005 Jun 15;388(Pt 3):785-93.
5. Mutations in PRKCSH cause isolated autosomal dominant polycystic liver disease. Li A, etal., Am J Hum Genet. 2003 Mar;72(3):691-703. Epub 2003 Jan 15.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Comprehensive gene review and curation RGD comprehensive gene curation
13. Hepatocystin contributes to interferon-mediated antiviral response to hepatitis B virus by regulating hepatocyte nuclear factor 4α. Shin GC, etal., Biochim Biophys Acta. 2014 Sep;1842(9):1648-57. doi: 10.1016/j.bbadis.2014.04.016. Epub 2014 Apr 25.
Additional References at PubMed
PMID:8702988   PMID:9148925   PMID:10929008   PMID:12477932   PMID:16706842   PMID:19801576   PMID:21685914   PMID:22337885   PMID:27462106  


Genomics

Comparative Map Data
Prkcsh
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2820,534,787 - 20,546,493 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl820,534,880 - 20,546,492 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0823,014,802 - 23,026,507 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl823,014,956 - 23,026,503 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0823,069,586 - 23,081,291 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4821,107,041 - 21,144,270 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1821,106,881 - 21,117,476 (+)NCBI
Celera821,925,450 - 21,937,160 (+)NCBICelera
Cytogenetic Map8q13NCBI
PRKCSH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381911,435,635 - 11,450,968 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1911,435,284 - 11,450,968 (+)EnsemblGRCh38hg38GRCh38
GRCh371911,546,456 - 11,561,783 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361911,407,269 - 11,422,783 (+)NCBINCBI36Build 36hg18NCBI36
Build 341911,407,268 - 11,422,783NCBI
Celera1911,441,004 - 11,456,521 (+)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef1911,121,465 - 11,136,774 (+)NCBIHuRef
CHM1_11911,546,291 - 11,561,813 (+)NCBICHM1_1
T2T-CHM13v2.01911,563,157 - 11,578,487 (+)NCBIT2T-CHM13v2.0
Prkcsh
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39921,914,284 - 21,925,541 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl921,914,102 - 21,925,518 (+)EnsemblGRCm39 Ensembl
GRCm38922,002,988 - 22,014,245 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl922,002,806 - 22,014,222 (+)EnsemblGRCm38mm10GRCm38
MGSCv37921,807,479 - 21,818,666 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36921,753,437 - 21,764,624 (+)NCBIMGSCv36mm8
Celera919,272,723 - 19,283,910 (+)NCBICelera
Cytogenetic Map9A3NCBI
cM Map98.04NCBI
Prkcsh
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554952,331,569 - 2,337,946 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554952,331,075 - 2,338,479 (+)NCBIChiLan1.0ChiLan1.0
PRKCSH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11911,693,620 - 11,707,610 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1911,693,620 - 11,707,728 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01910,981,398 - 10,997,062 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PRKCSH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12049,905,246 - 49,916,551 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2049,905,248 - 49,916,463 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2049,775,959 - 49,787,692 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02050,423,129 - 50,434,871 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2050,423,115 - 50,434,799 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12049,633,425 - 49,645,158 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02050,059,568 - 50,071,314 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02050,302,755 - 50,314,497 (-)NCBIUU_Cfam_GSD_1.0
Prkcsh
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118208,843,072 - 208,853,320 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366591,501,425 - 1,511,634 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRKCSH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl270,097,444 - 70,114,446 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1270,097,424 - 70,114,460 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2270,332,429 - 70,349,468 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PRKCSH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1610,360,392 - 10,375,785 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl610,360,751 - 10,374,208 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660749,511,189 - 9,526,419 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prkcsh
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248283,219,216 - 3,227,369 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248283,219,105 - 3,227,369 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
RH128469  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2820,546,338 - 20,546,488 (+)MAPPERmRatBN7.2
Rnor_6.0823,026,353 - 23,026,502NCBIRnor6.0
Rnor_5.0823,081,137 - 23,081,286UniSTSRnor5.0
Celera821,937,008 - 21,937,157UniSTS
Cytogenetic Map8q13UniSTS
RH129453  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2820,546,305 - 20,546,465 (+)MAPPERmRatBN7.2
Rnor_6.0823,026,320 - 23,026,479NCBIRnor6.0
Rnor_5.0823,081,104 - 23,081,263UniSTSRnor5.0
Celera821,936,975 - 21,937,134UniSTS
RH 3.4 Map8183.7UniSTS
Cytogenetic Map8q13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124597739Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8767057852670578Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)8768895552688955Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8768895552688955Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)8873663553736635Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)8873663553736635Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)8971222053356647Rat
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81490675159906751Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)81629044461290444Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:205
Count of miRNA genes:127
Interacting mature miRNAs:143
Transcripts:ENSRNOT00000018009
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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000018009   ⟹   ENSRNOP00000018009
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl820,534,880 - 20,546,491 (+)Ensembl
Rnor_6.0 Ensembl823,014,956 - 23,026,503 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095656   ⟹   ENSRNOP00000081881
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl820,534,880 - 20,546,492 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000103948   ⟹   ENSRNOP00000086800
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl820,534,890 - 20,546,487 (+)Ensembl
RefSeq Acc Id: NM_001106806   ⟹   NP_001100276
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2820,534,941 - 20,546,491 (+)NCBI
Rnor_6.0823,014,956 - 23,026,505 (+)NCBI
Rnor_5.0823,069,586 - 23,081,291 (+)NCBI
RGSC_v3.4821,107,041 - 21,144,270 (+)RGD
Celera821,925,450 - 21,937,160 (+)RGD
Sequence:
RefSeq Acc Id: XM_006242633   ⟹   XP_006242695
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2820,534,881 - 20,546,493 (+)NCBI
Rnor_6.0823,014,907 - 23,026,507 (+)NCBI
Rnor_5.0823,069,586 - 23,081,291 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242634   ⟹   XP_006242696
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2820,534,787 - 20,546,493 (+)NCBI
Rnor_6.0823,014,802 - 23,026,507 (+)NCBI
Rnor_5.0823,069,586 - 23,081,291 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001100276 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242695 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242696 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI61987 (Get FASTA)   NCBI Sequence Viewer  
  EDL78242 (Get FASTA)   NCBI Sequence Viewer  
  EDL78243 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100276   ⟸   NM_001106806
- Peptide Label: precursor
- UniProtKB: B1WC34 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242696   ⟸   XM_006242634
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006242695   ⟸   XM_006242633
- Peptide Label: isoform X1
- UniProtKB: B1WC34 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000018009   ⟸   ENSRNOT00000018009
RefSeq Acc Id: ENSRNOP00000086800   ⟸   ENSRNOT00000103948
RefSeq Acc Id: ENSRNOP00000081881   ⟸   ENSRNOT00000095656
Protein Domains
EF-hand   MRH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B1WC34-F1-model_v2 AlphaFold B1WC34 1-525 view protein structure

Transcriptome

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

Promoters
RGD ID:13695802
Promoter ID:EPDNEW_R6324
Type:multiple initiation site
Name:Prkcsh_1
Description:protein kinase C substrate 80K-H
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6325  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0823,014,905 - 23,014,965EPDNEW
RGD ID:13695801
Promoter ID:EPDNEW_R6325
Type:multiple initiation site
Name:Prkcsh_2
Description:protein kinase C substrate 80K-H
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6324  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0823,015,312 - 23,015,372EPDNEW

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)
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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
FXLE16/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
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)
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
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)
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
LEXF1C/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
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)
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
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: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 23077401 23077402 C G snv BN/SsNSlc (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309628 AgrOrtholog
BioCyc Gene G2FUF-31396 BioCyc
Ensembl Genes ENSRNOG00000013360 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000018009 ENTREZGENE
  ENSRNOP00000018009.5 UniProtKB/TrEMBL
  ENSRNOP00000081881.1 UniProtKB/TrEMBL
  ENSRNOP00000086800 ENTREZGENE
  ENSRNOP00000086800.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018009 ENTREZGENE
  ENSRNOT00000018009.7 UniProtKB/TrEMBL
  ENSRNOT00000095656.1 UniProtKB/TrEMBL
  ENSRNOT00000103948 ENTREZGENE
  ENSRNOT00000103948.1 UniProtKB/TrEMBL
Gene3D-CATH 2.70.130.10 UniProtKB/TrEMBL
  4.10.400.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9030870 IMAGE-MGC_LOAD
InterPro EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_Ca-bd UniProtKB/TrEMBL
  Gtb1-like UniProtKB/TrEMBL
  LDL_receptor-like_sf UniProtKB/TrEMBL
  LDrepeatLR_classA_rpt UniProtKB/TrEMBL
  Man6P_isomerase_rcpt_bd UniProtKB/TrEMBL
  MRH_dom UniProtKB/TrEMBL
  PRKCSH UniProtKB/TrEMBL
  PRKCSH_N UniProtKB/TrEMBL
KEGG Report rno:300445 UniProtKB/TrEMBL
MGC_CLONE MGC:187806 IMAGE-MGC_LOAD
NCBI Gene 300445 ENTREZGENE
PANTHER PTHR12630 UniProtKB/TrEMBL
Pfam EF_hand_3 UniProtKB/TrEMBL
  PRKCSH-like UniProtKB/TrEMBL
  PRKCSH_1 UniProtKB/TrEMBL
PhenoGen Prkcsh PhenoGen
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
  MRH UniProtKB/TrEMBL
SMART LDLa UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
  SSF50911 UniProtKB/TrEMBL
  SSF57424 UniProtKB/TrEMBL
UniProt A0A8I6ADW9_RAT UniProtKB/TrEMBL
  A0A8I6G8K5_RAT UniProtKB/TrEMBL
  B1WC34 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Prkcsh  protein kinase C substrate 80K-H   Prkcsh_predicted  protein kinase C substrate 80K-H (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Prkcsh_predicted  protein kinase C substrate 80K-H (predicted)      Symbol and Name status set to approved 70820 APPROVED