Ppp2cb (protein phosphatase 2 catalytic subunit beta)

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer VCMap Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Ppp2cb (protein phosphatase 2 catalytic subunit beta) Rattus norvegicus

Analyze

Symbol:

Ppp2cb

Name:

protein phosphatase 2 catalytic subunit beta

RGD ID:

3381

Description:

Enables protein C-terminus binding activity and protein serine/threonine phosphatase activity. Involved in several processes, including negative regulation of Ras protein signal transduction; positive regulation of microtubule binding activity; and response to lead ion. Predicted to be located in cytoplasm. Predicted to be part of protein phosphatase type 2A complex. Predicted to be active in cytosol. Orthologous to human PPP2CB (protein phosphatase 2 catalytic subunit beta); PARTICIPATES IN dopamine signaling pathway; phosphatidylinositol 3-kinase-Akt signaling pathway; transforming growth factor-beta Smad dependent signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

MGC94855; PP2A-beta; Pp2a2; Protein phosphatase 2 (formerly 2A) catalytic subunit beta isoform; protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform; protein phosphatase 2, catalytic subunit, beta isoform; protein phosphatase 2, catalytic subunit, beta isozyme; protein phosphatase 2A catalytic alpha subunit; protein phosphatase 2a, catalytic subunit, beta isoform; protein phosphatase-2A-beta; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform

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 Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	16	58,558,119 - 58,579,325 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	16	58,558,122 - 58,579,576 (-)	Ensembl
Rnor_6.0	16	62,273,276 - 62,294,767 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	16	62,273,276 - 62,294,769 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	16	61,933,984 - 61,955,475 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	16	62,330,513 - 62,351,968 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	16	62,330,587 - 62,352,043 (-)	NCBI
Celera	16	56,594,208 - 56,615,135 (-)	NCBI		Celera
Cytogenetic Map	16	q12.3	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17beta-hydroxy-5alpha-androstan-3-one (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

5-aza-2'-deoxycytidine (ISO)

5-fluorouracil (ISO)

acrylamide (ISO)

ammonium chloride (EXP)

antirheumatic drug (ISO)

aristolochic acid (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenous acid (ISO)

atrazine (ISO)

bexarotene (EXP)

bisphenol A (EXP,ISO)

bufalin (ISO)

cadmium dichloride (EXP)

clozapine (EXP)

cobalt dichloride (ISO)

cocaine (ISO)

copper atom (ISO)

copper(0) (ISO)

copper(II) sulfate (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

diarsenic trioxide (ISO)

diazinon (ISO)

dibutyl phthalate (EXP)

dichlorine (EXP)

Echimidine (ISO)

enniatin (EXP)

ethanol (ISO)

ethyl methanesulfonate (ISO)

finasteride (EXP)

flavonoids (EXP)

flutamide (EXP)

gentamycin (EXP)

haloperidol (EXP)

hydrogen peroxide (ISO)

ionomycin (ISO)

ivermectin (ISO)

ketoconazole (EXP)

Lasiocarpine (ISO)

lead(0) (ISO)

lead(2+) (ISO)

menadione (ISO)

methotrexate (ISO)

methyl methanesulfonate (ISO)

miconazole (EXP)

monocrotaline (ISO)

N-methyl-4-phenylpyridinium (ISO)

nefazodone (EXP)

nickel atom (ISO)

niclosamide (ISO)

nitroglycerin (EXP)

obeticholic acid (ISO)

ozone (EXP)

paracetamol (ISO)

paraquat (ISO)

phenobarbital (ISO)

phorbol 13-acetate 12-myristate (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

pregnenolone 16alpha-carbonitrile (EXP)

resveratrol (ISO)

riddelliine (ISO)

silver atom (ISO)

silver(0) (ISO)

sodium arsenite (ISO)

streptozocin (ISO)

sulindac (EXP)

tert-butyl hydroperoxide (ISO)

tetrachloromethane (EXP,ISO)

tetrahydropalmatine (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trichloroethene (ISO)

tunicamycin (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

apoptotic mitochondrial changes (ISO)

mitotic cell cycle (IBA)

negative regulation of gene expression (ISO)

negative regulation of NF-kappaB transcription factor activity (ISO)

negative regulation of Ras protein signal transduction (IDA)

negative regulation of tumor necrosis factor-mediated signaling pathway (ISO)

positive regulation of microtubule binding (IMP)

proteasome-mediated ubiquitin-dependent protein catabolic process (ISO)

protein dephosphorylation (IDA)

regulation of gene expression (ISO)

response to antibiotic (ISO)

response to endoplasmic reticulum stress (ISO)

response to hydrogen peroxide (ISO)

response to lead ion (IDA)

Cellular Component

chromosome, centromeric region (IEA)

cytoplasm (ISO)

cytosol (IBA)

nucleus (IEA)

protein phosphatase type 2A complex (ISO)

spindle pole (IEA)

Molecular Function

metal ion binding (IEA)

myosin phosphatase activity (IEA)

phosphoprotein phosphatase activity (IDA)

protein binding (ISO)

protein C-terminus binding (IPI)

protein heterodimerization activity (ISS)

protein serine/threonine phosphatase activity (IBA,IDA,IMP)

Molecular Pathway Annotations Click to see Annotation Detail View

Chagas disease pathway (IEA)

dopamine signaling pathway (ISO)

hepatitis C pathway (IEA)

long term depression (IEA)

mRNA decay pathway (IEA)

phosphatidylinositol 3-kinase-Akt signaling pathway (ISO)

transforming growth factor-beta Smad dependent signaling pathway (ISO)

transforming growth factor-beta superfamily mediated signaling pathway (IEA)

Wnt signaling pathway (IEA)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Gong CX, etal., Brain Res. 2000 Jan 24;853(2):299-309.
3.	Hall DD, etal., Biochemistry. 2006 Mar 14;45(10):3448-59.
4.	Kitagawa Y, etal., Biochem Biophys Res Commun 1988 Dec 15;157(2):821-7.
5.	MGD data from the GO Consortium
6.	Nanahoshi M, etal., Biochem Biophys Res Commun. 1998 Oct 20;251(2):520-6.
7.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
8.	Pipeline to import KEGG annotations from KEGG into RGD
9.	Pipeline to import Pathway Interaction Database annotations from NCI into RGD
10.	Rahman A, etal., Neurotoxicology. 2012 Jun;33(3):370-83. doi: 10.1016/j.neuro.2012.02.014. Epub 2012 Mar 1.
11.	RGD automated data pipeline
12.	RGD automated import pipeline for gene-chemical interactions
13.	Sasaki K, etal., Biochem Biophys Res Commun 1990 Jul 16;170(1):169-75.
14.	Seshacharyulu P, etal., Cancer Lett. 2013 Jul 10;335(1):9-18. doi: 10.1016/j.canlet.2013.02.036. Epub 2013 Feb 20.
15.	Ugi S, etal., Mol Cell Biol 2002 Apr;22(7):2375-87.
16.	Yger M and Girault JA, Front Behav Neurosci. 2011 Sep 8;5:56. doi: 10.3389/fnbeh.2011.00056. eCollection 2011.

Additional References at PubMed

PMID:2174876	PMID:2554256	PMID:10781942	PMID:12477932	PMID:12716901	PMID:15375154	PMID:15489334	PMID:16717086	PMID:16875859	PMID:17085438	PMID:17906371	PMID:18245083
PMID:22871113	PMID:23349830	PMID:23376485	PMID:30361391

Genomics

Comparative Map Data

Ppp2cb
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	16	58,558,119 - 58,579,325 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	16	58,558,122 - 58,579,576 (-)	Ensembl
Rnor_6.0	16	62,273,276 - 62,294,767 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	16	62,273,276 - 62,294,769 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	16	61,933,984 - 61,955,475 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	16	62,330,513 - 62,351,968 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	16	62,330,587 - 62,352,043 (-)	NCBI
Celera	16	56,594,208 - 56,615,135 (-)	NCBI		Celera
Cytogenetic Map	16	q12.3	NCBI

PPP2CB
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	30,785,616 - 30,812,818 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	8	30,774,457 - 30,814,314 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	30,643,132 - 30,670,334 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	30,762,668 - 30,789,894 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	8	30,762,668 - 30,789,894	NCBI
Celera	8	29,603,219 - 29,630,439 (-)	NCBI
Cytogenetic Map	8	p12	NCBI
HuRef	8	29,189,574 - 29,216,794 (-)	NCBI		HuRef
CHM1_1	8	30,844,570 - 30,871,782 (-)	NCBI		CHM1_1

Ppp2cb
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	8	34,089,649 - 34,109,832 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	8	34,089,653 - 34,109,469 (+)	Ensembl
GRCm38	8	33,599,621 - 33,619,804 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	8	33,599,625 - 33,619,441 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	8	34,710,093 - 34,730,276 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	8	35,065,560 - 35,085,738 (+)	NCBI			mm8
Celera	8	36,244,600 - 36,253,763 (+)	NCBI		Celera
Cytogenetic Map	8	A4	NCBI
cM Map	8	20.63	NCBI

Ppp2cb
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955463	7,226,912 - 7,249,490 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955463	7,229,717 - 7,249,490 (-)	NCBI	ChiLan1.0	ChiLan1.0

PPP2CB
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	8	27,288,250 - 27,302,606 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	27,288,263 - 27,302,606 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	8	30,099,605 - 30,126,917 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

PPP2CB
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	16	33,532,703 - 33,567,011 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	16	33,532,958 - 33,566,640 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	16	33,992,179 - 34,026,212 (+)	NCBI
ROS_Cfam_1.0	16	35,558,843 - 35,592,945 (+)	NCBI
ROS_Cfam_1.0 Ensembl	16	35,558,838 - 35,592,943 (+)	Ensembl
UMICH_Zoey_3.1	16	33,657,510 - 33,691,593 (+)	NCBI
UNSW_CanFamBas_1.0	16	34,231,924 - 34,265,951 (+)	NCBI
UU_Cfam_GSD_1.0	16	34,350,519 - 34,384,589 (+)	NCBI

Ppp2cb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404943	56,729,981 - 56,742,299 (+)	NCBI
SpeTri2.0	NW_004936792	622,105 - 633,800 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PPP2CB
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	15	54,294,995 - 54,325,213 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	15	54,295,786 - 54,325,220 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	15	61,676,897 - 61,697,557 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PPP2CB
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	8	28,903,074 - 28,930,300 (-)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	8	28,903,240 - 28,930,376 (-)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666052	13,168,625 - 13,195,901 (+)	NCBI	Vero_WHO_p1.0

Ppp2cb
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624780	13,332,636 - 13,369,301 (+)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

RH127900

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	16	58,558,146 - 58,558,353 (+)	MAPPER	mRatBN7.2
Rnor_6.0	16	62,273,301 - 62,273,507	NCBI	Rnor6.0
Rnor_5.0	16	61,934,009 - 61,934,215	UniSTS	Rnor5.0
RGSC_v3.4	16	62,330,538 - 62,330,744	UniSTS	RGSC3.4
Celera	16	56,594,233 - 56,594,439	UniSTS
RH 3.4 Map	16	542.31	UniSTS
Cytogenetic Map	16	q12.3	UniSTS

BF397059

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	16	58,569,971 - 58,570,146 (+)	MAPPER	mRatBN7.2
Rnor_6.0	16	62,285,126 - 62,285,300	NCBI	Rnor6.0
Rnor_5.0	16	61,945,834 - 61,946,008	UniSTS	Rnor5.0
RGSC_v3.4	16	62,342,363 - 62,342,537	UniSTS	RGSC3.4
Celera	16	56,606,056 - 56,606,230	UniSTS
RH 3.4 Map	16	542.9	UniSTS
Cytogenetic Map	16	q12.3	UniSTS

UniSTS:235869

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	16	58,558,404 - 58,558,590 (+)	MAPPER	mRatBN7.2
Rnor_6.0	16	62,273,559 - 62,273,744	NCBI	Rnor6.0
Rnor_5.0	16	61,934,267 - 61,934,452	UniSTS	Rnor5.0
RGSC_v3.4	16	62,330,796 - 62,330,981	UniSTS	RGSC3.4
Celera	16	56,594,491 - 56,594,676	UniSTS
Cytogenetic Map	16	q12.3	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor depth of invasion (CMO:0001888)	16	17696791	82635055	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor depth of invasion (CMO:0001888)	16	17696791	82635055	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor diameter (CMO:0001889)	16	17696791	82635055	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor diameter (CMO:0001889)	16	17696791	82635055	Rat
70215	Niddm29	Non-insulin dependent diabetes mellitus QTL 29	3.54		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	16	19004435	75226532	Rat
2302057	Pia29	Pristane induced arthritis QTL 29	3.6	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	16	21735975	66735975	Rat
737826	Alc11	Alcohol consumption QTL 11	3.2		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	16	4227609	60252231	Rat
2312660	Bw95	Body weight QTL 95		0.05	inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	16	832236	59492508	Rat
2312663	Slep9	Serum leptin concentration QTL 9		0.001	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	16	832236	59492508	Rat
2312666	Insul16	Insulin level QTL 16		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	16	832236	59492508	Rat
2312669	Stl23	Serum triglyceride level QTL 23		0.01	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	16	832236	59492508	Rat
1298529	Arunc1	Aerobic running capacity QTL 1	4		exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	16	31951520	60148445	Rat
631525	Pia14	Pristane induced arthritis QTL 14	4.4		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	16	55711087	83402471	Rat
2300163	Bmd64	Bone mineral density QTL 64	5.3	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	16	37752156	82752156	Rat
2293690	Bss45	Bone structure and strength QTL 45	5.13	0.0001	lumbar vertebra morphology trait (VT:0010494)	lumbar vertebra cortical cross-sectional area (CMO:0001690)	16	37752156	82752156	Rat
1600378	Arunc4	Aerobic running capacity QTL 4		0.03	exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	16	380245	80345693	Rat
1578768	Stresp22	Stress response QTL 22	2.8		thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	16	35288870	80288870	Rat
6903294	Stl30	Serum triglyceride level QTL 30	2.6	0.0013	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	16	25152793	70152793	Rat
8694429	Bw164	Body weight QTL 164	5	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	16	52726464	84729064	Rat
8694364	Abfw7	Abdominal fat weight QTL 7	12.22	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	16	52726464	84729064	Rat
7411648	Foco22	Food consumption QTL 22	15	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	16	52726464	84729064	Rat
8694453	Bw172	Body weight QTL 172	8.33	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	16	24325513	69325513	Rat
7205510	Activ5	Activity QTL 5	3.78	0.00028	locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	16	42396345	84729064	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	99
Count of miRNA genes:	76
Interacting mature miRNAs:	92
Transcripts:	ENSRNOT00000020663
Prediction methods:	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

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_017040	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AY749432	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC085926	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473970	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ225122	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ229111	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ231171	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000283	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M23591	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M58439	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	X14087	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000020663 ⟹ ENSRNOP00000020663

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	16	58,558,122 - 58,579,576 (-)	Ensembl
Rnor_6.0 Ensembl	16	62,273,276 - 62,294,769 (-)	Ensembl

RefSeq Acc Id:

NM_017040 ⟹ NP_058736

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	16	58,558,119 - 58,579,325 (-)	NCBI
Rnor_6.0	16	62,273,276 - 62,294,767 (-)	NCBI
Rnor_5.0	16	61,933,984 - 61,955,475 (-)	NCBI
RGSC_v3.4	16	62,330,513 - 62,351,968 (-)	RGD
Celera	16	56,594,208 - 56,615,135 (-)	RGD

Sequence:

show sequence

GGCACGAGCGCCGAGAGAACCGCGGCCAGAGCGCGGAGAGGCCTGCGGGCGGCGACGGCAGCGG
GAGGGCGGGCGCCGTCGGGCCGGAGCCTCCCCCGAGCCGCGCCGCGCTCTGGCTCCGAGCCGTG
AGCCCTTTTTGCCGCGCCCCGAGCGCGTGGCCGGGGGCCGGGCGGGGCGGGCGCTCCCGGAGGC
CGGGGCCGGCGGCTGCCCGCTGGGCTTGGGCGGGGCGCGGGCTGCCCGCTCCGCGGCTCGGTGG
TCCCGCCGGGGGCCGGCGGCGGGGGAGGCGGCGGGGACGCGCGGCTCGCCGCCATGGACGACAA
GGCGTTCACCAAGGAGCTGGACCAGTGGGTGGAGCAGCTGAACGAGTGTAAGCAGCTGAACGAG
AACCAAGTGCGGACGCTGTGCGAGAAGGCTAAGGAAATTTTAACAAAAGAATCAAATGTACAAG
AGGTTCGCTGTCCTGTTACCGTCTGTGGAGATGTGCATGGCCAATTCCATGACCTTATGGAACT
CTTCAGAATTGGTGGAAAATCACCAGACACCAACTATCTATTCATGGGTGACTATGTAGACAGA
GGATATTATTCTGTGGAGACCGTGACTCTTCTTGTAGCATTAAAGGTGCGCTATCCAGAGCGTA
TCACAATATTGCGAGGAAATCATGAAAGCCGGCAGATCACACAAGTATATGGCTTTTATGATGA
ATGCCTACGAAAGTATGGGAACGCCAACGTGTGGAAATACTTTACAGATCTCTTTGATTATCTT
CCACTTACAGCTTTAGTAGATGGACAGATATTCTGCCTCCACGGTGGCCTCTCTCCATCCATAG
ATACACTGGATCACATAAGAGCCCTGGATCGCTTACAGGAAGTTCCACATGAGGGCCCAATGTG
TGATCTCTTATGGTCAGATCCAGATGACCGTGGTGGCTGGGGCATTTCTCCACGTGGTGCTGGC
TACACATTTGGACAAGACATTTCTGAAACATTTAACCATGCCAACGGCCTCACACTGGTGTCCC
GTGCTCACCAGCTTGTAATGGAAGGATATAATTGGTGCCATGATCGGAATGTGGTCACCATTTT
TAGTGCACCCAATTACTGCTACCGCTGTGGGAACCAGGCTGCTATCATGGAATTAGACGACACT
TTAAAATACTCTTTTCTTCAGTTTGACCCAGCACCTCGTCGTGGAGAGCCTCATGTGACCCGGC
GCACCCCAGACTACTTCCTATAAATTCCTCCCCAGGACCTGTCTTTGTATGTTGAAGTATACCT
GGCTTTTTAAAAAATATATATACATATATATATTTAAAAACAACAGTTATCTGTGTGTCTCTGT
AACAAATTGTGCTATGTCTTGACGTTAAAACACATCATGGACCAAAACGTGCCATACTAATGGT
GAGCCATCAGCACGGTGTGAACTTGAGTCCACTGTCCTAGCCGAGTCAACCAGGCAGCCGCCTG
CCCGCCTGCCTGCTGTAGTAGCCGTCCTTCGTGACTGGTTAAGGGAAAGGGTCACTGGTGGCTT
CATCTCCTTTGCGCTTACTTGGAAATTTAGTTACAAGTTTAACTGGCATGGATTATAGAGTTGG
AGTTTTATTTTTAAGAATTGACAAGCTGACTTCCACTTAAATTCATAACCCTTTATTTTGTTGA
AATGTATGACTAACTGAAGAAGAGATTCTTGGAGTATGTTGTCATAACACTAAGATTTCCTTTC
AAGTTTCCTGAACTGAATTACTGTTGGATGTTGACCTGCACATTCTGTATATTTGTCCTGACAG
TGTTGCATCCTCCTTGCTGTACTGAACAAATAAACTTCCCAATTTAGAGAG

hide sequence

Protein Sequences


Protein RefSeqs	NP_058736	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA41912	(Get FASTA)	NCBI Sequence Viewer
	AAA41913	(Get FASTA)	NCBI Sequence Viewer
	AAH85926	(Get FASTA)	NCBI Sequence Viewer
	AAV91199	(Get FASTA)	NCBI Sequence Viewer
	CAA32249	(Get FASTA)	NCBI Sequence Viewer
	EDM09140	(Get FASTA)	NCBI Sequence Viewer
	P62716	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_058736 ⟸ NM_017040

- UniProtKB:

P62716 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MDDKAFTKELDQWVEQLNECKQLNENQVRTLCEKAKEILTKESNVQEVRCPVTVCGDVHGQFHD
LMELFRIGGKSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYPERITILRGNHESRQITQVYG
FYDECLRKYGNANVWKYFTDLFDYLPLTALVDGQIFCLHGGLSPSIDTLDHIRALDRLQEVPHE
GPMCDLLWSDPDDRGGWGISPRGAGYTFGQDISETFNHANGLTLVSRAHQLVMEGYNWCHDRNV
VTIFSAPNYCYRCGNQAAIMELDDTLKYSFLQFDPAPRRGEPHVTRRTPDYFL

hide sequence

RefSeq Acc Id:

ENSRNOP00000020663 ⟸ ENSRNOT00000020663

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P62716-F1-model_v2	AlphaFold	P62716	1-309	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)

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)

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

LEXF11/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

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)

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

LEXF3/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

LEXF4/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

LH/MavRrrcAek (2020)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

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

M520/NRrrcMcwi (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

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)

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

PVG/Seac (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

SHR/OlalpcvMcwi (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

SHRSP/A3NCrl (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

SR/JrHsd (2020)

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

SS/JrHsdMcwi (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

WAG/RijCrl (2020)

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

WKY/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

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)

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:3381	AgrOrtholog
BioCyc Gene	G2FUF-11118	BioCyc
Ensembl Genes	ENSRNOG00000015182	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000020663	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000020663	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	3.60.21.10	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7109733	IMAGE-MGC_LOAD
InterPro	Calcineurin-like_PHP_ApaH	UniProtKB/Swiss-Prot
	Metallo-depent_PP-like	UniProtKB/Swiss-Prot
	Ser/Thr-sp_prot-phosphatase	UniProtKB/Swiss-Prot
KEGG Report	rno:24673	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:94855	IMAGE-MGC_LOAD
NCBI Gene	24673	ENTREZGENE
Pfam	Metallophos	UniProtKB/Swiss-Prot
PhenoGen	Ppp2cb	PhenoGen
PRINTS	STPHPHTASE	UniProtKB/Swiss-Prot
PROSITE	SER_THR_PHOSPHATASE	UniProtKB/Swiss-Prot
SMART	PP2Ac	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF56300	UniProtKB/Swiss-Prot
UniProt	P62716	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	P11082	UniProtKB/Swiss-Prot
	Q6LDK0	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-17	Ppp2cb	protein phosphatase 2 catalytic subunit beta	Ppp2cb	protein phosphatase 2, catalytic subunit, beta isozyme	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-06-26	Ppp2cb	protein phosphatase 2, catalytic subunit, beta isozyme	Ppp2cb	protein phosphatase 2, catalytic subunit, beta isoform	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2010-04-23	Ppp2cb	protein phosphatase 2, catalytic subunit, beta isoform	Ppp2cb	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Ppp2cb	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform		protein phosphatase 2a, catalytic subunit, beta isoform	Name updated	1299863	APPROVED
2002-06-10	Ppp2cb	Protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform			Symbol and Name status set to approved	70586	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_physical_interaction	forms complex with Shc by interacting with Shc PTB domain	729591

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

RGD Manual Annotations

Imported Annotations - KEGG (archival)

Imported Annotations - PID (archival)

Send us a Message

RGD Manual Annotations

Imported Annotations - KEGG (archival)

Imported Annotations - PID (archival)