Plcb4 (phospholipase C, beta 4) - Rat Genome Database

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Gene: Plcb4 (phospholipase C, beta 4) Rattus norvegicus
Analyze
Symbol: Plcb4
Name: phospholipase C, beta 4
RGD ID: 3345
Description: Enables mitogen-activated protein kinase binding activity. Involved in negative regulation of potassium ion transport. Located in cytoplasm. Orthologous to human PLCB4 (phospholipase C beta 4); PARTICIPATES IN G protein mediated signaling pathway via Galphaq family; protein kinase C (PKC) signaling pathway; Alzheimer's disease pathway; INTERACTS WITH 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-4; 1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase beta-4; Beta4aa; phosphoinositide phospholipase C; phosphoinositide phospholipase C-beta-4; Phospholipase C (BETA4); Phospholipase C beta4; phospholipase C-beta-4; PLC-beta-4; RATBETA4AA
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Plcb4_v1   Plcb4_v2  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23122,952,965 - 123,322,522 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3122,953,196 - 123,322,392 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3126,861,256 - 127,230,065 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.03135,448,283 - 135,807,045 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.03133,116,870 - 133,485,687 (+)NCBIRnor_WKY
Rnor_6.03128,601,163 - 128,971,720 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3128,756,799 - 128,971,746 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03135,089,551 - 135,459,248 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43123,706,313 - 124,077,381 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13123,611,885 - 123,982,941 (+)NCBI
Celera3121,694,557 - 122,062,160 (+)NCBICelera
Cytogenetic Map3q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(+)-pilocarpine  (ISO)
1,2-dichloroethane  (ISO)
1,3-dinitrobenzene  (EXP)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
6-propyl-2-thiouracil  (EXP)
aconitine  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
aflatoxin M1  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-chloroethyl) sulfide  (EXP)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
chloroprene  (ISO)
cisplatin  (EXP,ISO)
cobalt dichloride  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
crocidolite asbestos  (ISO)
decabromodiphenyl ether  (EXP)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
ethanol  (EXP,ISO)
fingolimod hydrochloride  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
hexachlorophene  (ISO)
hydrogen cyanide  (ISO)
isoprenaline  (ISO)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
mitoxantrone  (ISO)
N,N-diethyl-m-toluamide  (EXP)
nickel atom  (ISO)
oxaliplatin  (EXP)
paracetamol  (EXP,ISO)
PCB138  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (EXP)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
selenium atom  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (ISO)
sphingosine 1-phosphate  (ISO)
succimer  (ISO)
sunitinib  (ISO)
thimerosal  (ISO)
titanium dioxide  (ISO)
toluene  (EXP)
topotecan  (EXP)
tributylstannane  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
vorinostat  (ISO)
XL147  (ISO)
zinc atom  (EXP)
zinc sulfate  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. A unique isoform of phospholipase Cbeta4 highly expressed in the cerebellum and eye. Adamski FM, etal., Biochim Biophys Acta 1999 Jan 18;1444(1):55-60.
2. Fear conditioning is associated with altered integration of PLC and ERK signaling in the hippocampus. Buckley CT and Caldwell KK, Pharmacol Biochem Behav. 2004 Dec;79(4):633-40.
3. Stimulation of 5-HT(2) receptors in prefrontal pyramidal neurons inhibits Ca(v)1.2 L type Ca(2+) currents via a PLCbeta/IP3/calcineurin signaling cascade. Day M, etal., J Neurophysiol 2002 May;87(5):2490-504.
4. Stimulation of phospholipase Cbeta by membrane interactions, interdomain movement, and G protein binding--how many ways can you activate an enzyme? Drin G and Scarlata S, Cell Signal. 2007 Jul;19(7):1383-92. Epub 2007 Apr 29.
5. 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.
6. Bradykinin, but not muscarinic, inhibition of M-current in rat sympathetic ganglion neurons involves phospholipase C-beta 4. Haley JE, etal., J Neurosci. 2000 Nov 1;20(21):RC105.
7. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
8. Cloning of cDNA encoding rat phospholipase C-beta 4, a new member of the phospholipase C. Kim MJ, etal., Biochem Biophys Res Commun 1993 Jul 30;194(2):706-12.
9. A cytosolic, galphaq- and betagamma-insensitive splice variant of phospholipase C-beta4. Kim MJ, etal., J Biol Chem 1998 Feb 6;273(6):3618-24.
10. Purification, molecular cloning, and sequencing of phospholipase C-beta 4. Lee CW, etal., J Biol Chem 1993 Oct 5;268(28):21318-27.
11. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
12. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
14. Translation of clock rhythmicity into neural firing in suprachiasmatic nucleus requires mGluR-PLCbeta4 signaling. Park D, etal., Nat Neurosci 2003 Apr;6(4):337-8.
15. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
16. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
18. Regulation of phosphoinositide-specific phospholipase C. Rhee SG Annu Rev Biochem. 2001;70:281-312.
19. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:11551922   PMID:15579147   PMID:15738151   PMID:19826069   PMID:19856080   PMID:23503970  


Genomics

Comparative Map Data
Plcb4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23122,952,965 - 123,322,522 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3122,953,196 - 123,322,392 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3126,861,256 - 127,230,065 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.03135,448,283 - 135,807,045 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.03133,116,870 - 133,485,687 (+)NCBIRnor_WKY
Rnor_6.03128,601,163 - 128,971,720 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3128,756,799 - 128,971,746 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03135,089,551 - 135,459,248 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43123,706,313 - 124,077,381 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13123,611,885 - 123,982,941 (+)NCBI
Celera3121,694,557 - 122,062,160 (+)NCBICelera
Cytogenetic Map3q36NCBI
PLCB4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38209,068,678 - 9,480,808 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl209,067,825 - 9,504,593 (+)EnsemblGRCh38hg38GRCh38
GRCh37209,049,325 - 9,461,455 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36209,024,932 - 9,409,463 (+)NCBINCBI36Build 36hg18NCBI36
Build 34209,024,931 - 9,409,460NCBI
Celera209,119,817 - 9,531,474 (+)NCBICelera
Cytogenetic Map20p12.3-p12.2NCBI
HuRef209,001,542 - 9,413,398 (+)NCBIHuRef
CHM1_1209,050,899 - 9,462,613 (+)NCBICHM1_1
T2T-CHM13v2.0209,111,633 - 9,523,716 (+)NCBIT2T-CHM13v2.0
Plcb4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392135,500,523 - 135,856,522 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2135,500,931 - 135,856,513 (+)EnsemblGRCm39 Ensembl
GRCm382135,658,603 - 136,014,602 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2135,659,011 - 136,014,593 (+)EnsemblGRCm38mm10GRCm38
MGSCv372135,567,566 - 135,838,804 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362135,433,271 - 135,704,509 (+)NCBIMGSCv36mm8
Celera2136,939,191 - 137,211,347 (+)NCBICelera
Cytogenetic Map2F3NCBI
cM Map266.64NCBI
Plcb4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541519,310,917 - 19,463,098 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541519,108,120 - 19,462,084 (+)NCBIChiLan1.0ChiLan1.0
PLCB4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1208,846,152 - 9,456,443 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl209,192,061 - 9,456,443 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0209,042,127 - 9,454,207 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PLCB4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12412,750,631 - 13,169,697 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2412,752,083 - 13,169,745 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2412,575,552 - 12,993,940 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02413,157,425 - 13,576,878 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2413,157,425 - 13,576,868 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12412,769,385 - 13,187,876 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02412,868,981 - 13,288,064 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02413,206,767 - 13,626,337 (-)NCBIUU_Cfam_GSD_1.0
Plcb4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640161,560,396 - 161,921,708 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049364859,991,731 - 10,353,231 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLCB4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1717,916,110 - 18,402,532 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11717,915,984 - 18,402,540 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21720,428,956 - 20,770,454 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PLCB4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1228,650,604 - 29,059,435 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl228,650,421 - 28,915,290 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607115,510,020 - 15,919,543 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Plcb4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474110,277,805 - 10,430,327 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474110,047,899 - 10,435,088 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
D3Wox21  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23123,321,035 - 123,321,202 (+)MAPPERmRatBN7.2
Rnor_6.03128,970,363 - 128,970,529NCBIRnor6.0
Rnor_5.03135,457,891 - 135,458,057UniSTSRnor5.0
RGSC_v3.43124,076,024 - 124,076,190UniSTSRGSC3.4
Celera3122,060,803 - 122,060,969UniSTS
Cytogenetic Map3q36UniSTS
D3Rat112  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23123,217,730 - 123,217,913 (+)MAPPERmRatBN7.2
Rnor_6.03128,867,047 - 128,867,229NCBIRnor6.0
Rnor_5.03135,354,182 - 135,354,364UniSTSRnor5.0
RGSC_v3.43123,971,719 - 123,971,902RGDRGSC3.4
RGSC_v3.43123,971,720 - 123,971,902UniSTSRGSC3.4
RGSC_v3.13123,877,293 - 123,877,475RGD
Celera3121,956,650 - 121,956,832UniSTS
RH 3.4 Map31081.6RGD
RH 3.4 Map31081.6UniSTS
RH 2.0 Map3724.8RGD
SHRSP x BN Map360.7499RGD
Cytogenetic Map3q36UniSTS
D3Rat157  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23123,067,607 - 123,067,760 (+)MAPPERmRatBN7.2
Rnor_6.03128,716,357 - 128,716,509NCBIRnor6.0
Rnor_5.03135,204,992 - 135,205,144UniSTSRnor5.0
RGSC_v3.43123,822,202 - 123,822,354UniSTSRGSC3.4
RGSC_v3.43123,822,201 - 123,822,354RGDRGSC3.4
RGSC_v3.13123,727,775 - 123,727,927RGD
Celera3121,808,597 - 121,808,709UniSTS
RH 3.4 Map31079.6RGD
RH 3.4 Map31079.6UniSTS
RH 2.0 Map3721.1RGD
SHRSP x BN Map360.7899RGD
FHH x ACI Map376.92RGD
Cytogenetic Map3q36UniSTS
D3Rat255  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23122,980,747 - 122,980,996 (+)MAPPERmRatBN7.2
Rnor_6.03128,628,848 - 128,629,098NCBIRnor6.0
Rnor_5.03135,117,504 - 135,117,754UniSTSRnor5.0
RGSC_v3.43123,734,009 - 123,734,258RGDRGSC3.4
RGSC_v3.43123,734,008 - 123,734,258UniSTSRGSC3.4
RGSC_v3.13123,639,335 - 123,639,846RGD
Celera3121,722,146 - 121,722,386UniSTS
SHRSP x BN Map359.6699RGD
SHRSP x BN Map359.6699UniSTS
Cytogenetic Map3q36UniSTS
RH143113  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23123,238,090 - 123,238,217 (+)MAPPERmRatBN7.2
Rnor_6.03128,887,410 - 128,887,536NCBIRnor6.0
Rnor_5.03135,374,545 - 135,374,671UniSTSRnor5.0
RGSC_v3.43123,992,083 - 123,992,209UniSTSRGSC3.4
Celera3121,977,081 - 121,977,207UniSTS
RH 3.4 Map31084.4UniSTS
Cytogenetic Map3q36UniSTS
AW534127  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23123,139,242 - 123,139,391 (+)MAPPERmRatBN7.2
Rnor_6.03128,788,971 - 128,789,119NCBIRnor6.0
Rnor_5.03135,276,034 - 135,276,182UniSTSRnor5.0
RGSC_v3.43123,893,184 - 123,893,332UniSTSRGSC3.4
Celera3121,878,575 - 121,878,723UniSTS
RH 3.4 Map31081.6UniSTS
Cytogenetic Map3q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1581546Pur13Proteinuria QTL 132.930.0335total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)389772419134772419Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1331758Bp207Blood pressure QTL 2072.848arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3112287552135181505Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1358204Insglur1Insulin/glucose ratio QTL 13.8blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)3115638168135181505Rat
1358204Insglur1Insulin/glucose ratio QTL 13.8blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)3115638168135181505Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3121056165145956249Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:626
Count of miRNA genes:187
Interacting mature miRNAs:226
Transcripts:ENSRNOT00000042853, ENSRNOT00000045393, ENSRNOT00000049855
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 13 4 6 4 3 3 62 21 29 11 3
Low 44 37 13 37 5 8 12 14 12 5
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_024353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235083 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235085 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235089 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235094 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762249 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762251 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591481 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591484 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591485 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591486 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104315 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104316 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104317 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104322 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104327 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF027571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF031370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY011767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L15556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L18962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U57836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000042853   ⟹   ENSRNOP00000048553
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3123,107,067 - 123,322,377 (+)Ensembl
Rnor_6.0 Ensembl3128,756,799 - 128,971,704 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000045393   ⟹   ENSRNOP00000045972
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3123,178,791 - 123,322,392 (+)Ensembl
Rnor_6.0 Ensembl3128,828,331 - 128,971,746 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000049855   ⟹   ENSRNOP00000048775
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3123,107,067 - 123,321,123 (+)Ensembl
Rnor_6.0 Ensembl3128,756,799 - 128,970,450 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095786   ⟹   ENSRNOP00000091621
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3123,107,067 - 123,322,377 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000097572   ⟹   ENSRNOP00000087693
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3122,953,196 - 123,320,907 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000105709   ⟹   ENSRNOP00000076875
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3123,040,696 - 123,322,383 (+)Ensembl
RefSeq Acc Id: NM_024353   ⟹   NP_077329
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,953,220 - 123,322,393 (+)NCBI
Rnor_6.03128,601,330 - 128,971,720 (+)NCBI
Rnor_5.03135,089,551 - 135,459,248 (+)NCBI
RGSC_v3.43123,706,313 - 124,077,381 (+)RGD
Celera3121,694,557 - 122,062,160 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235083   ⟹   XP_006235145
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,953,169 - 123,320,907 (+)NCBI
Rnor_6.03128,601,284 - 128,971,720 (+)NCBI
Rnor_5.03135,089,551 - 135,459,248 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235085   ⟹   XP_006235147
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,952,965 - 123,320,907 (+)NCBI
Rnor_6.03128,601,163 - 128,971,720 (+)NCBI
Rnor_5.03135,089,551 - 135,459,248 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235088   ⟹   XP_006235150
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,060,160 - 123,320,907 (+)NCBI
Rnor_6.03128,711,100 - 128,971,720 (+)NCBI
Rnor_5.03135,089,551 - 135,459,248 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235089   ⟹   XP_006235151
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,064,741 - 123,320,907 (+)NCBI
Rnor_6.03128,716,447 - 128,971,720 (+)NCBI
Rnor_5.03135,089,551 - 135,459,248 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235094   ⟹   XP_006235156
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,953,307 - 123,321,152 (+)NCBI
Rnor_6.03128,601,284 - 128,971,720 (+)NCBI
Rnor_5.03135,089,551 - 135,459,248 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591483   ⟹   XP_017446972
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,956,151 - 123,320,907 (+)NCBI
Rnor_6.03128,603,108 - 128,971,720 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591484   ⟹   XP_017446973
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,027,100 - 123,320,907 (+)NCBI
Rnor_6.03128,675,431 - 128,971,720 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039104315   ⟹   XP_038960243
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,178,801 - 123,322,522 (+)NCBI
RefSeq Acc Id: XM_039104316   ⟹   XP_038960244
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,956,151 - 123,320,907 (+)NCBI
RefSeq Acc Id: XM_039104317   ⟹   XP_038960245
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,953,169 - 123,320,907 (+)NCBI
RefSeq Acc Id: XM_039104319   ⟹   XP_038960247
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,070,667 - 123,320,907 (+)NCBI
RefSeq Acc Id: XM_039104320   ⟹   XP_038960248
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,027,100 - 123,320,907 (+)NCBI
RefSeq Acc Id: XM_039104321   ⟹   XP_038960249
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,953,169 - 123,320,907 (+)NCBI
RefSeq Acc Id: XM_039104322   ⟹   XP_038960250
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,953,169 - 123,320,907 (+)NCBI
RefSeq Acc Id: XM_039104323   ⟹   XP_038960251
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,953,169 - 123,320,907 (+)NCBI
RefSeq Acc Id: XM_039104324   ⟹   XP_038960252
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,060,160 - 123,320,907 (+)NCBI
RefSeq Acc Id: XM_039104325   ⟹   XP_038960253
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23122,952,965 - 123,320,907 (+)NCBI
RefSeq Acc Id: XM_039104326   ⟹   XP_038960254
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,178,801 - 123,320,967 (+)NCBI
RefSeq Acc Id: XM_039104327   ⟹   XP_038960255
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,178,801 - 123,322,522 (+)NCBI
RefSeq Acc Id: XM_039104328   ⟹   XP_038960256
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23123,247,184 - 123,322,522 (+)NCBI
Protein Sequences
Protein RefSeqs NP_077329 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235145 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235147 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235150 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235151 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235156 (Get FASTA)   NCBI Sequence Viewer  
  XP_017446972 (Get FASTA)   NCBI Sequence Viewer  
  XP_017446973 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960243 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960244 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960245 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960247 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960248 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960249 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960250 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960251 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960252 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960253 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960254 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960255 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960256 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC24984 (Get FASTA)   NCBI Sequence Viewer  
  AAC98145 (Get FASTA)   NCBI Sequence Viewer  
  AAD10403 (Get FASTA)   NCBI Sequence Viewer  
  AAK13557 (Get FASTA)   NCBI Sequence Viewer  
  EDL80292 (Get FASTA)   NCBI Sequence Viewer  
  EDL80293 (Get FASTA)   NCBI Sequence Viewer  
  EDL80295 (Get FASTA)   NCBI Sequence Viewer  
  EDL80296 (Get FASTA)   NCBI Sequence Viewer  
  Q9QW07 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_077329   ⟸   NM_024353
- UniProtKB: F1LNK2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235147   ⟸   XM_006235085
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235145   ⟸   XM_006235083
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235156   ⟸   XM_006235094
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006235150   ⟸   XM_006235088
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235151   ⟸   XM_006235089
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017446972   ⟸   XM_017591483
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017446973   ⟸   XM_017591484
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000045972   ⟸   ENSRNOT00000045393
RefSeq Acc Id: ENSRNOP00000048775   ⟸   ENSRNOT00000049855
RefSeq Acc Id: ENSRNOP00000048553   ⟸   ENSRNOT00000042853
RefSeq Acc Id: XP_038960253   ⟸   XM_039104325
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960245   ⟸   XM_039104317
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960250   ⟸   XM_039104322
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960251   ⟸   XM_039104323
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960249   ⟸   XM_039104321
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960244   ⟸   XM_039104316
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960248   ⟸   XM_039104320
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960252   ⟸   XM_039104324
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960247   ⟸   XM_039104319
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960243   ⟸   XM_039104315
- Peptide Label: isoform X1
- UniProtKB: D4A8C5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960255   ⟸   XM_039104327
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038960254   ⟸   XM_039104326
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038960256   ⟸   XM_039104328
- Peptide Label: isoform X5
RefSeq Acc Id: ENSRNOP00000091621   ⟸   ENSRNOT00000095786
RefSeq Acc Id: ENSRNOP00000076875   ⟸   ENSRNOT00000105709
RefSeq Acc Id: ENSRNOP00000087693   ⟸   ENSRNOT00000097572
Protein Domains
C2   PI-PLC X-box   PI-PLC Y-box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9QW07-F1-model_v2 AlphaFold Q9QW07 1-1175 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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3345 AgrOrtholog
BioCyc Gene G2FUF-47732 BioCyc
BioCyc Pathway PWY-6351 [D-myo-inositol (1,4,5)-trisphosphate biosynthesis] BioCyc
  PWY-6367 [D-myo-inositol-5-phosphate metabolism] BioCyc
  PWY-8052 [2-arachidonoylglycerol biosynthesis] BioCyc
Ensembl Genes ENSRNOG00000033119 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000045972 ENTREZGENE
  ENSRNOP00000045972.3 UniProtKB/TrEMBL
  ENSRNOP00000048553 ENTREZGENE
  ENSRNOP00000048553.3 UniProtKB/TrEMBL
  ENSRNOP00000048775 ENTREZGENE
  ENSRNOP00000048775.2 UniProtKB/TrEMBL
  ENSRNOP00000076875.1 UniProtKB/TrEMBL
  ENSRNOP00000087693 ENTREZGENE
  ENSRNOP00000087693.1 UniProtKB/TrEMBL
  ENSRNOP00000091621.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000042853 ENTREZGENE
  ENSRNOT00000042853.6 UniProtKB/TrEMBL
  ENSRNOT00000045393 ENTREZGENE
  ENSRNOT00000045393.5 UniProtKB/TrEMBL
  ENSRNOT00000049855 ENTREZGENE
  ENSRNOT00000049855.4 UniProtKB/TrEMBL
  ENSRNOT00000095786.1 UniProtKB/TrEMBL
  ENSRNOT00000097572 ENTREZGENE
  ENSRNOT00000097572.1 UniProtKB/TrEMBL
  ENSRNOT00000105709.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1230.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.60.40.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.20.20.190 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand-dom_pair UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI-PLC_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLC-beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLC-beta_C_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLC-beta_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLC-beta_PH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLC-like_Pdiesterase_TIM-brl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLC_EF-hand-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLipase_C_PInositol-sp_X_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLipase_C_Pinositol-sp_Y UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25031 UniProtKB/Swiss-Prot
NCBI Gene 25031 ENTREZGENE
PANTHER PTHR10336 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DUF1154 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI-PLC-X UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI-PLC-Y UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Plcb4 PhenoGen
PIRSF PLC-beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS PHPHLIPASEC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PIPLC_X_DOMAIN UniProtKB/Swiss-Prot
  PIPLC_Y_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PLCXc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLCYc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49562 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF51695 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC217862
UniProt A0A8I5Y961_RAT UniProtKB/TrEMBL
  A0A8I6A4W1_RAT UniProtKB/TrEMBL
  A0A8I6AGH0_RAT UniProtKB/TrEMBL
  D3ZCI6_RAT UniProtKB/TrEMBL
  D4A8C5 ENTREZGENE, UniProtKB/TrEMBL
  F1LNK2 ENTREZGENE, UniProtKB/TrEMBL
  PLCB4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary O88356 UniProtKB/Swiss-Prot
  Q9Z0G6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Plcb4  Phospholipase C , beta4      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_homology has 50% amino acid identity with D. melanogastar norpA 633574