Ncr3 (natural cytotoxicity triggering receptor 3) - Rat Genome Database

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Gene: Ncr3 (natural cytotoxicity triggering receptor 3) Rattus norvegicus
Analyze
Symbol: Ncr3
Name: natural cytotoxicity triggering receptor 3
RGD ID: 727881
Description: Predicted to enable identical protein binding activity. Predicted to be involved in immune response-activating cell surface receptor signaling pathway; natural killer cell activation; and positive regulation of natural killer cell mediated cytotoxicity. Predicted to be located in plasma membrane. Predicted to be integral component of membrane. Human ortholog(s) of this gene implicated in malaria. Orthologous to human NCR3 (natural cytotoxicity triggering receptor 3); INTERACTS WITH ammonium chloride; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1C7; natural killer cell p30-related protein; NK receptor 1c7; NK-p30; Nkp30
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
mRatBN7.2203,637,242 - 3,643,748 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl203,638,240 - 3,643,799 (-)Ensembl
Rnor_6.0205,170,169 - 5,175,773 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,170,215 - 5,175,773 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,243,532 - 7,249,195 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,701,807 - 3,707,278 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1203,702,033 - 3,707,505 (-)NCBI
Celera204,382,139 - 4,387,576 (+)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

References - curated
# Reference Title Reference Citation
1. Reduced frequencies of NKp30+NKp46+, CD161+, and NKG2D+ NK cells in acute HCV infection may predict viral clearance. Alter G, etal., J Hepatol. 2011 Aug;55(2):278-88. doi: 10.1016/j.jhep.2010.11.030. Epub 2010 Dec 17.
2. Activating NK cell receptor expression/function (NKp30, NKp46, DNAM-1) during chronic viraemic HCV infection is associated with the outcome of combined treatment. Bozzano F, etal., Eur J Immunol. 2011 Oct;41(10):2905-14. doi: 10.1002/eji.201041361.
3. 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.
4. Phenotypic and functional changes of cytotoxic CD56pos natural T cells determine outcome of acute hepatitis C virus infection. Golden-Mason L, etal., J Virol. 2007 Sep;81(17):9292-8. doi: 10.1128/JVI.00834-07. Epub 2007 Jun 6.
5. Association of NKG2A with treatment for chronic hepatitis C virus infection. Harrison RJ, etal., Clin Exp Immunol. 2010 Aug;161(2):306-14. doi: 10.1111/j.1365-2249.2010.04169.x. Epub 2010 Jun 9.
6. NK cells and transplantation. Hsieh CL, etal., Transpl Immunol. 2002 May;9(2-4):111-4.
7. High frequencies of CD158b+ NK cells are associated with persistent hepatitis C virus infections. Ji HF, etal., Ann Hepatol. 2013 Jul-Aug;12(4):539-47.
8. Surface expression and cytolytic function of natural killer cell receptors is altered in chronic hepatitis C. Nattermann J, etal., Gut. 2006 Jun;55(6):869-77. doi: 10.1136/gut.2005.076463. Epub 2005 Dec 1.
9. NCBI rat LocusLink and RefSeq merged data October 15, 2003 NCBI rat LocusLink and RefSeq merged data October 15, 2003
10. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
11. GOA pipeline RGD automated data pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Study of Natural Cytotoxicity Receptors in Patients with HIV/AIDS and Cancer: A Cross-Sectional Study. Terra Junior ON, etal., ScientificWorldJournal. 2016;2016:2085871. doi: 10.1155/2016/2085871. Epub 2016 Jun 13.
Additional References at PubMed
PMID:10941844   PMID:12548565   PMID:14724446   PMID:15060004   PMID:16304049   PMID:16821237   PMID:18852879   PMID:21106845   PMID:21444796   PMID:22807449   PMID:24275655  


Genomics

Comparative Map Data
Ncr3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2203,637,242 - 3,643,748 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl203,638,240 - 3,643,799 (-)Ensembl
Rnor_6.0205,170,169 - 5,175,773 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,170,215 - 5,175,773 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,243,532 - 7,249,195 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,701,807 - 3,707,278 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1203,702,033 - 3,707,505 (-)NCBI
Celera204,382,139 - 4,387,576 (+)NCBICelera
Cytogenetic Map20p12NCBI
NCR3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38631,588,895 - 31,593,006 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl631,588,895 - 31,593,006 (-)EnsemblGRCh38hg38GRCh38
GRCh37631,556,672 - 31,560,783 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,664,651 - 31,668,741 (-)NCBINCBI36hg18NCBI36
Build 34631,664,651 - 31,668,741NCBI
Celera633,154,875 - 33,158,977 (-)NCBI
Cytogenetic Map6p21.33NCBI
HuRef631,343,391 - 31,347,493 (-)NCBIHuRef
CHM1_1631,558,795 - 31,562,896 (-)NCBICHM1_1
T2T-CHM13v2.0631,441,943 - 31,446,054 (-)NCBI
Ncr3-ps
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,399,512 - 35,403,785 (+)NCBIGRCm39mm39
GRCm39 Ensembl1735,399,511 - 35,403,638 (+)Ensembl
GRCm381735,180,536 - 35,184,809 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,180,535 - 35,184,662 (+)EnsemblGRCm38mm10GRCm38
MGSCv371735,317,481 - 35,321,754 (+)NCBIGRCm37mm9NCBIm37
MGSCv361734,788,588 - 34,792,861 (+)NCBImm8
Celera1738,277,471 - 38,281,742 (+)NCBICelera
Cytogenetic Map17B1NCBI
Ncr3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955437130,360 - 134,751 (-)NCBIChiLan1.0ChiLan1.0
NCR3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1632,139,981 - 32,171,525 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl632,139,981 - 32,171,525 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0631,249,947 - 31,281,613 (-)NCBIMhudiblu_PPA_v0panPan3
NCR3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,086,698 - 1,104,268 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl121,086,841 - 1,089,481 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,223,274 - 1,240,671 (-)NCBI
ROS_Cfam_1.0121,232,079 - 1,249,472 (-)NCBI
UMICH_Zoey_3.1121,090,798 - 1,108,777 (-)NCBI
UNSW_CanFamBas_1.0121,158,747 - 1,176,097 (-)NCBI
UU_Cfam_GSD_1.0121,225,589 - 1,242,958 (-)NCBI
Ncr3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494635,637,531 - 35,638,238 (-)NCBI
SpeTri2.0NW_0049367271,921,452 - 1,924,395 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NCR3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1723,713,333 - 23,716,988 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2727,535,771 - 27,538,596 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NCR3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366604431,491,828 - 31,496,007 (-)NCBIVero_WHO_p1.0
Ncr3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475424,607,623 - 24,612,716 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH132872  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,638,475 - 3,638,774 (-)MAPPERmRatBN7.2
Rnor_6.0205,175,239 - 5,175,537NCBIRnor6.0
Rnor_5.0207,248,505 - 7,248,803UniSTSRnor5.0
RGSC_v3.4203,702,043 - 3,702,341UniSTSRGSC3.4
Celera204,387,042 - 4,387,340UniSTS
RH 3.4 Map2051.3UniSTS
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
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
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
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2026463954597031Rat
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2026463954597031Rat
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
737973Pia21Pristane induced arthritis QTL 214.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2036216564606812Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:35
Count of miRNA genes:33
Interacting mature miRNAs:35
Transcripts:ENSRNOT00000001139
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


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 1 3 1 1
Low 2 21 43 27 16 27 8 10 11 25 32 10 8
Below cutoff 20 14 14 14 1 43 10 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000001139   ⟹   ENSRNOP00000001139
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,638,241 - 3,643,799 (-)Ensembl
Rnor_6.0 Ensembl205,170,215 - 5,175,773 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000114943   ⟹   ENSRNOP00000077827
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,638,240 - 3,639,516 (-)Ensembl
RefSeq Acc Id: NM_181822   ⟹   NP_861543
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,638,240 - 3,643,678 (-)NCBI
Rnor_6.0205,170,336 - 5,175,773 (+)NCBI
Rnor_5.0207,243,532 - 7,249,195 (+)NCBI
RGSC_v3.4203,701,807 - 3,707,278 (-)RGD
Celera204,382,139 - 4,387,576 (+)RGD
Sequence:
RefSeq Acc Id: XM_006256054   ⟹   XP_006256116
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,637,242 - 3,643,748 (-)NCBI
Rnor_6.0205,170,516 - 5,175,773 (+)NCBI
Rnor_5.0207,243,532 - 7,249,195 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601573   ⟹   XP_017457062
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,637,242 - 3,643,748 (-)NCBI
Rnor_6.0205,170,169 - 5,175,773 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039098490   ⟹   XP_038954418
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,637,242 - 3,643,748 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_861543   ⟸   NM_181822
- Peptide Label: precursor
- UniProtKB: R9PXR3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256116   ⟸   XM_006256054
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457062   ⟸   XM_017601573
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000001139   ⟸   ENSRNOT00000001139
RefSeq Acc Id: XP_038954418   ⟸   XM_039098490
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000077827   ⟸   ENSRNOT00000114943
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8CFD9-F1-model_v2 AlphaFold Q8CFD9 1-192 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)
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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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
LE/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: 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)
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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
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_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 5170531 5170532 G A snv ACI/N (MCW), F344/NRrrc (MCW), MR/N (MCW), WKY/N (MCW), WN/N (MCW)
20 5175432 5175433 C T snv ACI/EurMcwi (RGD), FHH/EurMcwi (RGD), LEW/Crl (RGD), LEW/NCrlBR (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), WKY/NHsd (RGD), ACI/EurMcwi (2019), ACI/N (2020), DA/OlaHsd (2019), FHH/EurMcwi (2019), LEW/Crl (2019), WKY/NCrl (2019), WKY/N (2020), WN/N (2020), GH/OmrMcwi (MCW), FHH/EurMcwi (MCW), COP/CrCrl (MCW & UW), ACI/EurMcwi (MCW), CDR, CDS
20 5175438 5175439 C T snv MR/N (MCW), F344/NRrrc (MCW)
20 5175494 5175495 G T snv F344/NRrrc (MCW), MR/N (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 7248698 7248699 C T snv ACI/EurMcwi (MCW), ZFDM (KyushuU), FHH/EurMcwi (MCW), GH/OmrMcwi (MCW), WN/N (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), DA/BklArbNsi (KNAW), FHH/EurMcwi (KNAW), LEW/Crl (KNAW), LEW/NCrl (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), BDIX/NemOda (KyushuU), COP/CrCrl (MCW & UW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 3702148 3702149 G A snv ACI/EurMcwi (MCW), DA/BklArbNsi (ICAHN), FHH/EurMcwi (MDC), ACI/N (KNAW), WKY/N (KNAW), WN/N (KNAW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), ACI/EurMcwi (ICL), FHH/EurMcwi (ICL), LEW/Crl (ICL), LEW/NCrl (ICL), WKY/NCrl (ICL), WKY/Gcrc (ICL), WKY/NHsd (ICL), HCR/1Mco (UMich), LCR/1Mco (UMich), HCR/2Mco (UMich), FHH/EurMcwi (MCW)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 3638581 3638582 G A snv ACI/EurMcwi (2019), ACI/N (2020), DA/OlaHsd (2019), WN/N (2020), LEW/Crl (2019), WKY/NCrl (2019), WKY/N (2020), FHH/EurMcwi (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:727881 AgrOrtholog
BioCyc Gene G2FUF-4657 BioCyc
Ensembl Genes ENSRNOG00000000854 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000001139 ENTREZGENE
  ENSRNOP00000001139.4 UniProtKB/TrEMBL
  ENSRNOP00000077827.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001139 ENTREZGENE
  ENSRNOT00000001139.6 UniProtKB/TrEMBL
  ENSRNOT00000114943.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NCR3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:294251 UniProtKB/TrEMBL
NCBI Gene 294251 ENTREZGENE
PANTHER PTHR47904 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ncr3 PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5XWJ7_RAT UniProtKB/TrEMBL
  NCTR3_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  R9PXR3 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q80WM8 UniProtKB/Swiss-Prot
  Q8CG11 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Ncr3  natural cytotoxicity triggering receptor 3  1C7  NK receptor 1c7  Symbol and Name updated 1299863 APPROVED