Wnt3 (Wnt family member 3) - Rat Genome Database

Name: Wnt3
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Wnt3 (Wnt family member 3) Rattus norvegicus

Analyze

Symbol:

Wnt3

Name:

Wnt family member 3

RGD ID:

3972

Description:

Predicted to enable cytokine activity; frizzled binding activity; and protein domain specific binding activity. Predicted to be involved in several processes, including canonical Wnt signaling pathway; limb bud formation; and positive regulation of Wnt signaling pathway. Predicted to act upstream of or within several processes, including axis specification; embryonic morphogenesis; and generation of neurons. Located in cytoplasm. Human ortholog(s) of this gene implicated in tetraamelia syndrome 1. Orthologous to human WNT3 (Wnt family member 3); PARTICIPATES IN Wnt signaling pathway; Wnt signaling, canonical pathway; basal cell carcinoma pathway; INTERACTS WITH bisphenol A; C60 fullerene; curcumin.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

INT4; proto-oncogene Wnt-3; wingless-related MMTV integration site 3; Wingless-type MMTV integration site 3, homolog; wingless-type MMTV integration site family, member 3; wingless-type MMTV integration site family, member 3 (mapped); Wnt3_mapped

RGD Orthologs

Human

Mouse

Dog

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	WNT3 (Wnt family member 3)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Wnt3 (wingless-type MMTV integration site family, member 3)	HGNC	NCBI, HomoloGene, Panther
Canis lupus familiaris (dog):	WNT3 (Wnt family member 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	WNT3 (Wnt family member 3)	HGNC	EggNOG, Ensembl, Inparanoid, OMA, PhylomeDB, Treefam
Alliance orthologs ³
Mus musculus (house mouse):	Wnt3 (wingless-type MMTV integration site family, member 3)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Homo sapiens (human):	WNT3 (Wnt family member 3)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	wnt3 (wingless-type MMTV integration site family, member 3)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	cwn-1	Alliance	DIOPT (InParanoid\|OMA\|OrthoInspector)

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	10	88,680,248 - 88,724,170 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	10	88,680,248 - 88,724,099 (+)	Ensembl
Rnor_6.0	10	91,830,709 - 91,874,907 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	91,830,654 - 91,874,793 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	91,597,106 - 91,641,213 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	92,925,605 - 92,969,613 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	10	87,379,436 - 87,423,461 (+)	NCBI		Celera
Cytogenetic Map	10	q32.1	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Animal Mammary Neoplasms (ISO)

atrial fibrillation (ISO)

bladder exstrophy-epispadias-cloacal exstrophy complex (ISO)

Ectromelia (ISO)

endometrial carcinoma (ISO)

malignant mesothelioma (ISO)

Mammary Neoplasms, Experimental (ISO)

mantle cell lymphoma (ISO)

tetraamelia syndrome 1 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17beta-estradiol (ISO)

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

3,4-methylenedioxymethamphetamine (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

5-aza-2'-deoxycytidine (ISO)

5-fluorouracil (ISO)

6-bromoindirubin-3'-oxime (ISO)

aflatoxin B1 (ISO)

Aflatoxin B2 alpha (ISO)

all-trans-retinoic acid (ISO)

antirheumatic drug (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

benzylpenicillin (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

C60 fullerene (EXP)

celastrol (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

curcumin (EXP)

dexamethasone (ISO)

dextran sulfate (ISO)

disodium selenite (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

ethosuximide (EXP)

folic acid (ISO)

indometacin (ISO)

lithium chloride (ISO)

luteolin (ISO)

Monobutylphthalate (ISO)

nickel atom (ISO)

niclosamide (ISO)

nitrofen (EXP)

paclitaxel (ISO)

panobinostat (ISO)

paracetamol (ISO)

phenylmercury acetate (ISO)

phenytoin (ISO)

Ptaquiloside (ISO)

saccharin (ISO)

SB 431542 (ISO)

sodium arsenite (ISO)

thimerosal (ISO)

trichostatin A (ISO)

trimellitic anhydride (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

anatomical structure formation involved in morphogenesis (ISO)

anterior/posterior axis specification (ISO)

anterior/posterior pattern specification (ISO)

axon guidance (ISO)

canonical Wnt signaling pathway (IBA,ISO)

canonical Wnt signaling pathway involved in mesenchymal stem cell differentiation (IEA,ISO)

canonical Wnt signaling pathway involved in midbrain dopaminergic neuron differentiation (IEA,ISO)

canonical Wnt signaling pathway involved in osteoblast differentiation (IEA,ISO)

canonical Wnt signaling pathway involved in stem cell proliferation (IEA,ISO)

cell fate commitment (IBA)

cell morphogenesis (ISO)

dorsal/ventral axis specification (ISO)

embryonic forelimb morphogenesis (ISO)

embryonic hindlimb morphogenesis (ISO)

gamete generation (ISO)

head morphogenesis (ISO)

limb bud formation (IEA,ISO)

limb development (ISO)

mammary gland epithelium development (IEA,ISO)

mesoderm formation (ISO)

negative regulation of axon extension involved in axon guidance (ISO)

neuron differentiation (IBA)

positive regulation of collateral sprouting in absence of injury (ISO)

positive regulation of gene expression (ISO)

positive regulation of Wnt signaling pathway (ISO)

regulation of cell differentiation (TAS)

regulation of cell growth (TAS)

regulation of neurogenesis (ISO)

Spemann organizer formation at the anterior end of the primitive streak (ISO)

stem cell proliferation (ISO)

Cellular Component

cytoplasm (IDA)

extracellular matrix (ISO)

extracellular space (IBA)

Molecular Function

cytokine activity (IBA)

frizzled binding (IBA,ISO)

molecular_function (ND)

protein binding (ISO)

protein domain specific binding (ISO)

receptor ligand activity (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

basal cell carcinoma pathway (IEA)

Hedgehog signaling pathway (IEA)

Wnt signaling pathway (IEA,ISO)

Wnt signaling, canonical pathway (ISO)

References

References - curated


1.	Bui TD, etal., Br J Cancer. 1997;75(8):1131-6.
2.	Castelo-Branco G, etal., Proc Natl Acad Sci U S A 2003 Oct 28;100(22):12747-52. Epub 2003 Oct 13.
3.	Erdreich-Epstein A and Shackleford GM, Growth Factors 1998;15(2):149-58.
4.	Fujise T, etal., Am J Physiol Gastrointest Liver Physiol. 2007 Apr;292(4):G1150-6. Epub 2006 Dec 28.
5.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6.	MGD data from the GO Consortium
7.	Niemann S, etal., Am J Hum Genet. 2004 Mar;74(3):558-63. Epub 2004 Feb 5.
8.	OMIM Disease Annotation Pipeline
9.	Pipeline to import KEGG annotations from KEGG into RGD
10.	RGD automated data pipeline
11.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12.	RGD automated import pipeline for gene-chemical interactions
13.	RGD comprehensive gene curation
14.	Roel Nusse - Howard Hughes Medical Institute and the Department of Developmental Biology at Stanford University, California, USA
15.	Schroeder JA, etal., Oncogene. 2000 Jun 29;19(28):3193-9.
16.	Shimizu H, etal., Cell Growth Differ. 1997 Dec;8(12):1349-58.
17.	van Amerongen R, etal., Sci Signal. 2008 Sep 2;1(35):re9.

Additional References at PubMed

PMID:1300513	PMID:8167409	PMID:8168088	PMID:10431240	PMID:10557084	PMID:12569130	PMID:15194435	PMID:15588944	PMID:17558443	PMID:17921881	PMID:18028899	PMID:18044981
PMID:18313787	PMID:18403408	PMID:18716223	PMID:19000841	PMID:19690384	PMID:20039315	PMID:22922600	PMID:23324743	PMID:23469192	PMID:24363087	PMID:24562386	PMID:25640183
PMID:27226528	PMID:28733458	PMID:31694396

Genomics

Comparative Map Data

Wnt3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	10	88,680,248 - 88,724,170 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	10	88,680,248 - 88,724,099 (+)	Ensembl
Rnor_6.0	10	91,830,709 - 91,874,907 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	91,830,654 - 91,874,793 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	91,597,106 - 91,641,213 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	92,925,605 - 92,969,613 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	10	87,379,436 - 87,423,461 (+)	NCBI		Celera
Cytogenetic Map	10	q32.1	NCBI

WNT3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	17	46,762,506 - 46,833,154 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	17	46,762,506 - 46,818,692 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	17	44,839,872 - 44,896,058 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Cytogenetic Map	17	q21.31-q21.32	NCBI
HuRef	17	40,218,240 - 40,274,537 (-)	NCBI		HuRef
CHM1_1	17	44,903,996 - 44,960,278 (-)	NCBI		CHM1_1

Wnt3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	103,665,001 - 103,708,847 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	11	103,664,976 - 103,708,783 (+)	Ensembl
GRCm38	11	103,774,175 - 103,818,021 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	103,774,150 - 103,817,957 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	103,635,489 - 103,679,335 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	103,590,314 - 103,634,047 (+)	NCBI			mm8
Celera	11	115,489,203 - 115,533,047 (+)	NCBI		Celera
Cytogenetic Map	11	E1	NCBI
cM Map	11	67.5	NCBI

WNT3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	9	10,073,019 - 10,124,454 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	9	10,077,567 - 10,124,508 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	9	10,173,950 - 10,225,430 (+)	NCBI
ROS_Cfam_1.0	9	11,663,529 - 11,714,749 (-)	NCBI
UMICH_Zoey_3.1	9	10,674,575 - 10,725,693 (-)	NCBI
UNSW_CanFamBas_1.0	9	16,796,275 - 16,847,494 (+)	NCBI
UU_Cfam_GSD_1.0	9	16,743,753 - 16,795,272 (+)	NCBI

Position Markers

M32502

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	88,722,606 - 88,722,689 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	91,873,344 - 91,873,426	NCBI	Rnor6.0
Rnor_5.0	10	91,639,721 - 91,639,803	UniSTS	Rnor5.0
RGSC_v3.4	10	92,968,121 - 92,968,203	UniSTS	RGSC3.4
Celera	10	87,421,969 - 87,422,051	UniSTS
Cytogenetic Map	10	q32.1	UniSTS

Wnt3

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	88,723,759 - 88,723,958 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	91,874,497 - 91,874,695	NCBI	Rnor6.0
Rnor_5.0	10	91,640,874 - 91,641,072	UniSTS	Rnor5.0
RGSC_v3.4	10	92,969,274 - 92,969,472	UniSTS	RGSC3.4
Celera	10	87,423,122 - 87,423,320	UniSTS
Cytogenetic Map	10	q32.1	UniSTS

GDB:196138

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	88,718,377 - 88,718,847 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	91,869,115 - 91,869,584	NCBI	Rnor6.0
Rnor_5.0	10	91,635,492 - 91,635,961	UniSTS	Rnor5.0
RGSC_v3.4	10	92,963,892 - 92,964,361	UniSTS	RGSC3.4
Celera	10	87,417,740 - 87,418,209	UniSTS
Cytogenetic Map	10	q32.1	UniSTS

Wnt3

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	88,718,479 - 88,718,637 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	91,869,217 - 91,869,374	NCBI	Rnor6.0
Rnor_5.0	10	91,635,594 - 91,635,751	UniSTS	Rnor5.0
RGSC_v3.4	10	92,963,994 - 92,964,151	UniSTS	RGSC3.4
Celera	10	87,417,842 - 87,417,999	UniSTS
Cytogenetic Map	10	q32.1	UniSTS

Wnt3

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	88,717,543 - 88,718,499 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	91,868,281 - 91,869,236	NCBI	Rnor6.0
Rnor_5.0	10	91,634,658 - 91,635,613	UniSTS	Rnor5.0
RGSC_v3.4	10	92,963,058 - 92,964,013	UniSTS	RGSC3.4
Celera	10	87,416,909 - 87,417,861	UniSTS
Cytogenetic Map	10	q32.1	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
61427	Cia16	Collagen induced arthritis QTL 16	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	6357896	96121100	Rat
2303118	Mamtr7	Mammary tumor resistance QTL 7		0.003	mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	10	9658275	104670812	Rat
2301967	Cm73	Cardiac mass QTL 73	4.55		heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	10	14487011	89062041	Rat
631268	Cia21	Collagen induced arthritis QTL 21	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	14487011	104060283	Rat
2316949	Gluco60	Glucose level QTL 60	3.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	14487011	107057807	Rat
1554317	Bmd4	Bone mineral density QTL 4	9.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	10	19816042	99406971	Rat
724556	Pur2	Proteinuria QTL 2	5.5		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	10	22427500	90627625	Rat
61354	Pia10	Pristane induced arthritis QTL 10		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
631267	Cia20	Collagen induced arthritis QTL 20	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
61325	Aia5	Adjuvant induced arthritis QTL 5		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
1298069	Bp168	Blood pressure QTL 168	5.5		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	10	26521957	98003205	Rat
631542	Bp82	Blood pressure QTL 82	6.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	26521957	98952741	Rat
1331791	Cm31	Cardiac mass QTL 31	3.84606		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	29299504	107211142	Rat
1576308	Schws1	Schwannoma susceptibility QTL 1		0.0041	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	10	40035094	102359817	Rat
631269	Cia22	Collagen induced arthritis QTL 22	8.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	40035094	104060283	Rat
631270	Cia23	Collagen induced arthritis QTL 23	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	40035094	104060283	Rat
1298078	Stresp5	Stress response QTL 5	2.99	0.00025	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	10	42045676	104670812	Rat
9589030	Epfw9	Epididymal fat weight QTL 9	19.24	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	10	44441699	89441699	Rat
7411614	Foco18	Food consumption QTL 18		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	10	44441699	89441699	Rat
8694173	Bw149	Body weight QTL 149	4.38	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	10	44441699	89441699	Rat
2300218	Hpcl2	Hepatic cholesterol level QTL 2			liver cholesterol amount (VT:0010498)	liver cholesterol level (CMO:0001597)	10	45029650	95600334	Rat
631547	Bp87	Blood pressure QTL 87	4.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	47369470	92369470	Rat
1549846	Scl47	Serum cholesterol level QTL 47	3.6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	50574707	95574707	Rat
70364	Bp72	Blood pressure QTL 72			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	51121100	96121100	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	51770177	107211142	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	51770177	107211142	Rat
1359017	Hrtrt21	Heart rate QTL 21	2.4		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	10	51772940	96772940	Rat
631530	Tls3	T-lymphoma susceptibility QTL 3	0	0.0001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	10	51774612	95600334	Rat
631535	Cm51	Cardiac mass QTL 51	3		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	10	51786282	91669536	Rat
70171	Cari1	Carrageenan-induced inflammation QTL 1	4.9	0.0005	hypodermis integrity trait (VT:0010550)	inflammatory exudate volume (CMO:0001429)	10	53797385	107211142	Rat
70164	Bw21	Body weight QTL 21	4.36	0.00005	body mass (VT:0001259)	body weight (CMO:0000012)	10	53797494	98952626	Rat
1354608	Cm33	Cardiac mass QTL 33	2.8		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	10	54809292	99809292	Rat
2312662	Slep8	Serum leptin concentration QTL 8		0.05	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	10	57134272	102134272	Rat
2312668	Scl65	Serum cholesterol level QTL 65		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	57134272	102134272	Rat
2312672	Insul15	Insulin level QTL 15		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	10	57134272	102134272	Rat
1549831	Bss6	Bone structure and strength QTL 6	4		lumbar vertebra strength trait (VT:0010574)	vertebra ultimate force (CMO:0001678)	10	57576521	102576521	Rat
2293698	Bss43	Bone structure and strength QTL 43	5.33	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	10	59209888	104209888	Rat
2306970	Anxrr22	Anxiety related response QTL 22	5.95		fear/anxiety-related behavior trait (VT:1000241)	number of periods of voluntary immobility (CMO:0001045)	10	61345276	98211570	Rat
6893336	Cm75	Cardiac mass QTL 75	0.1	0.87	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	10	61345276	99703528	Rat
1558643	Cm44	Cardiac mass QTL 44	4.8	0.0000368	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	61345276	99703528	Rat
2313103	Bss80	Bone structure and strength QTL 80	2	0.0001	tibia strength trait (VT:1000284)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	10	62057807	107057807	Rat
2313105	Bss79	Bone structure and strength QTL 79	1.8	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	10	62057807	107057807	Rat
61449	Ciaa2	CIA Autoantibody QTL 2	7.1		blood autoantibody amount (VT:0003725)	calculated serum anti-type 2 collagen antibody titer (CMO:0001279)	10	63221094	107211142	Rat
1357344	Bp249	Blood pressure QTL 249		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	66743655	98003205	Rat
2317029	Aia19	Adjuvant induced arthritis QTL 19	2.98		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	10	66978955	107211142	Rat
2317039	Aia6	Adjuvant induced arthritis QTL 6	4.31		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	10	66978955	107211142	Rat
10450498	Bp384	Blood pressure QTL 384		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	67750049	107211142	Rat
1642980	Bp300	Blood pressure QTL 300			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	68383129	107211142	Rat
61396	Bp9	Blood pressure QTL 9	4.8	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	68420376	107211142	Rat
2300172	Bmd57	Bone mineral density QTL 57	9.8	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	10	69738412	107211142	Rat
2293646	Bss25	Bone structure and strength QTL 25	10.96	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	10	69738412	107211142	Rat
2293663	Bss33	Bone structure and strength QTL 33	9.34	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	10	69738412	107211142	Rat
6893366	Bw106	Body weight QTL 106	0.3	0.47	body mass (VT:0001259)	body weight (CMO:0000012)	10	70199100	107211142	Rat
70193	Mcs7	Mammary carcinoma susceptibility QTL 7	2.38		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	10	72224939	107211142	Rat
2298548	Neuinf7	Neuroinflammation QTL 7	3.4		nervous system integrity trait (VT:0010566)	spinal cord RT1-B protein level (CMO:0002132)	10	72224939	107211142	Rat
2306793	Ean5	Experimental allergic neuritis QTL 5	4.7		nervous system integrity trait (VT:0010566)	IFNG-secreting splenocyte count (CMO:0002122)	10	72552416	93995749	Rat
1358188	Ept9	Estrogen-induced pituitary tumorigenesis QTL 9	3.9		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	10	73453136	96120911	Rat
2292617	Ept18	Estrogen-induced pituitary tumorigenesis QTL 18	3.9		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	10	73453136	96120911	Rat
1579919	Bp281	Blood pressure QTL 281		0.01	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	74372084	94965338	Rat
10450495	Bp383	Blood pressure QTL 383		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	94965338	Rat
2292438	Bp311	Blood pressure QTL 311			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	107211142	Rat
1302404	Cia27	Collagen induced arthritis QTL 27	2.6	0.0045	joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	10	76452683	107211142	Rat
4889492	Pancm2	Pancreatic morphology QTL 2	3.2		pancreatic beta cell morphology trait (VT:0005217)	ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)	10	76748906	107211142	Rat
1300107	Rf18	Renal function QTL 18	3.41		urine output (VT:0003620)	timed urine volume (CMO:0000260)	10	78775516	98279596	Rat
631555	Bp134	Blood pressure QTL 134		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	80515287	91230079	Rat
6893357	Bw102	Body weight QTL 102	0.5	0.36	body mass (VT:0001259)	body weight (CMO:0000012)	10	80515287	101325465	Rat
2303589	Bw87	Body weight QTL 87	2		body mass (VT:0001259)	body weight (CMO:0000012)	10	81285008	107211142	Rat
4889948	Bss91	Bone structure and strength QTL 91	4		tibia area (VT:1000281)	tibia midshaft total cross-sectional area (CMO:0001715)	10	82564856	92369470	Rat
2317754	Glom25	Glomerulus QTL 25	3.5		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	10	82685200	107211142	Rat
12880055	Am11	Aortic mass QTL 11		0.004	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	10	84007272	95933025	Rat
2301398	Kidm38	Kidney mass QTL 38		0.002	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	10	84007272	95933025	Rat
2306792	Ean4	Experimental allergic neuritis QTL 4	4		nervous system integrity trait (VT:0010566)	IFNG-secreting splenocyte count (CMO:0002122)	10	84022321	93995963	Rat
1600367	Mcs15	Mammary carcinoma susceptibility QTL 15	4.5		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	10	85565469	103884409	Rat
631538	Oia5	Oil induced arthritis QTL 5			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	87055121	107211142	Rat
2313856	Bp342	Blood pressure QTL 342	4.4	0.0001	life span trait (VT:0005372)	age at time of death (CMO:0001193)	10	87307617	96121100	Rat
61363	Oia3	Oil induced arthritis QTL 3		0.001	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	87307617	107211142	Rat
634320	Niddm49	Non-insulin dependent diabetes mellitus QTL 49	4.41		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	10	88539139	107211142	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	556
Count of miRNA genes:	264
Interacting mature miRNAs:	327
Transcripts:	ENSRNOT00000005176
Prediction methods:	Microtar, 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	hemolymphoid system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium							6
Low	3						68		22
Below cutoff		8	13	17	2	3		21	15	8	2

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001105715	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017597028	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039085240	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC131613	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473948	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000220	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000005176 ⟹ ENSRNOP00000005176

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	10	88,680,248 - 88,724,099 (+)	Ensembl
Rnor_6.0 Ensembl	10	91,830,654 - 91,874,793 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000096241 ⟹ ENSRNOP00000097138

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	10	88,716,834 - 88,724,099 (+)	Ensembl

RefSeq Acc Id:

NM_001105715 ⟹ NP_001099185

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	88,680,248 - 88,724,099 (+)	NCBI
Rnor_6.0	10	91,830,709 - 91,874,836 (+)	NCBI
Rnor_5.0	10	91,597,106 - 91,641,213 (+)	NCBI
RGSC_v3.4	10	92,925,605 - 92,969,613 (+)	RGD
Celera	10	87,379,436 - 87,423,461 (+)	RGD

Sequence:

show sequence

CCTCTTCATGATCGCCGGCAAACTTCCTCCTCGGCGCTGCTTCTAATGGAGCCCCACCTGCTCG
GGCTGCTACTCGGCCTCCTGCTCAGTGGCACCAGGGTCCTCGCCGGCTACCCAATTTGGTGGTC
CCTGGCCCTGGGCCAGCAGTACACGTCTCTGGCCTCCCAGCCTCTGCTCTGCGGCTCTATCCCA
GGCCTGGTCCCCAAGCAACTGCGTTTCTGCCGCAATTACATCGAGATCATGCCCAGTGTAGCGG
AAGGCGTGAAGCTGGGCATCCAGGAGTGCCAGCATCAGTTCCGGGGACGCCGCTGGAACTGTAC
CACCATAGATGACAGCCTGGCCATCTTTGGGCCTGTCCTGGACAAAGCCACCCGCGAATCGGCC
TTCGTGCATGCCATCGCCTCGGCTGGTGTAGCCTTCGCAGTCACGCGCTCCTGTGCCGAGGGAA
CCTCTACCATCTGCGGCTGCGACTCGCATCATAAGGGGCCACCTGGAGAAGGCTGGAAATGGGG
CGGCTGCAGCGAGGACGCCGACTTCGGGGTGCTGGTGTCCCGGGAGTTTGCGGATGCACGGGAG
AACAGGCCAGATGCCCGCTCAGCTATGAACAAGCACAACAACGAGGCAGGCCGAACGACCATCC
TGGATCACATGCACCTGAAGTGCAAATGCCATGGGTTGTCTGGCAGCTGTGAGGTGAAGACCTG
CTGGTGGGCCCAGCCTGACTTCCGAGCCATTGGTGACTTCCTCAAGGACAAGTACGACAGTGCC
TCAGAGATGGTGGTGGAGAAGCATCGGGAGTCCCGAGGCTGGGTGGAGACCCTTCGGGCCAAGT
ATGCACTCTTTAAGCCACCCACGGAGAGGGACCTGGTCTACTACGAGAACTCCCCCAACTTTTG
TGAGCCCAACCCAGAGACGGGCTCCTTTGGTACCAGGGACCGGACTTGCAATGTCACCTCCCAC
GGCATTGATGGCTGCGATCTGCTGTGCTGTGGCAGGGGCCACAACACCAGGACGGAGAAGCGGA
AGGAGAAATGTCATTGCGTCTTCCACTGGTGCTGCTACGTCAGCTGCCAGGAGTGCATTCGCAT
CTACGATGTACACACCTGCAAGTAGGGAAGCCAGGGCACAGGGAAGGGGTAGATTGTACGGCTG
GATCCATTCGTCGAAGTCCCATGGGAAGCAGGATCTAGATCTGGGCCAGCCTTTGACACGGGCC
AGCAAGGAGCAAGGACGATTGCCAGCTGCATGTGATAAACAACCTGGACCCAGCTGGCCTCGGA
TGGGCGGCTTCTTTCTCAACTAACGTCTCTCACCCTGCTCTGGATGGTGTGTGGCTTCACAGAG
GGGCTTTCTTTATGGTTTCCCAGGGTCTGCTGGGGACAGACCTGAGGCTTACCTTTGCACATGT
TAAAGAAAATAAAAATGAAAAAAAAAATCTACTGCAACAGAACAGGCTGGGCTAGTGTGAGCTC
TTGGCCTGGTGGGAGAGACAAGAACATGGCGAGATTCTGTGTCCAAGCTGCCTCTTGCTCGTGA
CATTCCAAGATGCCTCTGAGGTAGGAATTGTAAAATAGGATAAGACCCCTGCAGTCTCCTTTTG
TCCGTTGACTTCCATTCAAATTGGGCACACTTTGCCACTCTCAGAAAAGCCATAGGTATAGCCG
GGATGCAGTGGTGGGGAGGCCCTTGGCCAACGGTCTTGAGTTTTGAAGACCTCAGAGATCTGGG
CAGCTTGGGAAGCCATCTGCAGAACAGCTGAGTTCCTTGTAGCTCATGTTTTCTCTAGCCCTGC
TCTGCTGTAGTCAGATCTCCACACCCCTTTCTGTTGTTCTGCATTGCCCCCCTTTACTACGCAT
TTTTCATGATGACCATCTAAATAGGTTAGATGTCTAGGTTAGGCAAGGCTCTTCGGGCTCCATC
CACCATATGCAGAAAGAATGGCTGTTCTGCCCTTCTCAGCCCTGCTAACCGACAGACACTAGGG
AGAGCAGCTGGGCAAGTCTATGTGGCCGGCAGGTGGGGAGGGTGAAGAGACCCTTTTTCCTTCG
TGTTAGGAAGCAGGCCACCCTGCGTCCTTTTCTCCCATTGGCTGAAGTAACCCAAAAGACAAGA
GATCCTCCCTGACTTGTGAATGGGATAGCCTATCTCAGTTCCCAAGGATCTGGACTAGATCTTC
AAAAGAGGCAAGCAGTGAATGGACACAGCTCCCAGCTCCGTTCCTGATGCATGATGGTCCTGGT
TGGGGTCAGTAAGATGGGCGGGGCAGCATGGATCGATTCATCAACTCTGTCTTGAGGAAAATCA
GAAGGAGGAGATAAAATGGGGGGAACAAGGCGGAACAAAGACTTTGTCCTTCCCCCGCTTCTGT
CTGGGGTCTGTTAATGCTGACTTGATGTGGGGTCAGCCACTTATGCTGCAGTTGTGCAGTTAGC
TTGCCAAGCAGGCTCCAATAGGCCCTTGCCTGCACTCTCTACCCTATGACCATGAGCACTGCTC
TCCGTACACCTCCCATCCCTTCCTAGCACCCCAAACGCCCCTTCCCATCTCTCCTTCCGGAAGT
TGGAAATCAAGTCAACTGGATAACGCTTGCTTGTTGTGAGGACTTGAGCAGAACGGATACAACA
ATTTACAAGTCTCTTCATATCTATGTATTCTATATTAAAGGTGATAAAGTCATGTTTCTGGGGC
GTATTCAAGTAGCTGACAAGTAATTATTTAATAATAGTACCTGAGCGCATTGTAATTTTCCTCG
CTATAGTCAGGATAGTTGGGAGTTTCCTGCCAACCTGCTGTATCCAAAGTTTTGTAAAAAGTTG
TAGAAGTTGTTGATCTTTTTGATTTTATATTCAAAAAGTCTCTTTTTATAAATATTATTTATTA
TACAATGTATATACCTTTGAGTTAACTAAGATTATATATTATATAAATATATATATATT

hide sequence

RefSeq Acc Id:

XM_017597028 ⟹ XP_017452517

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	88,714,509 - 88,724,170 (+)	NCBI
Rnor_6.0	10	91,867,179 - 91,874,907 (+)	NCBI

Sequence:

show sequence

CGAAAGGGCCCGGAGGCCCGGATCACCGCCGCGCGCAGTCTGCGGGCCTGGCTCGACTGCTGCG
CCAGCTCCCGCTCCGCGCTCCCCGCCGGGCTGCGGGGAAAGTGGGACGCGCCCCTGCTGTGCAG
GTGGCGCACGAGGGCTTCGTGTCTGCAAAGGCTTCTGTGGCTCTGAGTATCTCGTTCCCTGCAT
ATTCAGGACGGGTCACGACCTAGGAAAGGAGATCCGGGTCCAACCACCTGTGCAGTATAGCACG
ACCCGCTCTGGGGACCTATAATAAGAGATGGCCGGGCCTCTGGCCTCGCCGGGCCCTGTCCGTA
AAATAGGGTTTAGAACATTGTATGGAATAAAGCATACGAAAGACAGATCTGCGCGTATGCAGCA
TTCAGGGAGTGGCTTTCACTGTAACAAGGCTGGTGATACCCGTTGAGAATCTCCTGTTCTCCGA
ACCCTGGGCCCGAGGCTGAGAAACTGCCTTGTCTTGACCCCTTTGAAGGAGGAGGAGGACAGGG
AATGGGCAGCCATGGCTGAAGATGCTGTACCATTTTACAGAGTGTACTGTGAGGCGCAATGAGG
AATCTGCCTATGGGGAACTGAGGTTCGGGCGGAATGGCTGCATTAGTAGGTTAAGGCTGCAGGT
CCCAGTCTCCAGAATGGAAGGCACTGAATTGATTGGTGGAGTGCTTGCGAAGGTGCAAGGTTGG
AAGCCAAGAGCCCAAGGACAGGGTGTGGCCAATTTAGCTCTTCAGGGAGCATTCCGGTCCCATC
ATAGACCCCTCTATCTTAGCATTGTAGCCCTGAACTCAGTCTGCCCATCCACAAAGAGAATAAT
ACTAAGGTCTGGACTCTTAAGAGCAACAGGAGGGAGTCTGGCTCTTCACCCCATGACTGCCACC
CGCGAATCGGCCTTCGTGCATGCCATCGCCTCGGCTGGTGTAGCCTTCGCAGTCACGCGCTCCT
GTGCCGAGGGAACCTCTACCATCTGCGGCTGCGACTCGCATCATAAGGGGCCACCTGGAGAAGG
CTGGAAATGGGGCGGCTGCAGCGAGGACGCCGACTTCGGGGTGCTGGTGTCCCGGGAGTTTGCG
GATGCACGGGAGAACAGGCCAGATGCCCGCTCAGCTATGAACAAGCACAACAACGAGGCAGGCC
GAACGACCATCCTGGATCACATGCACCTGAAGTGCAAATGCCATGGGTTGTCTGGCAGCTGTGA
GGTGAAGACCTGCTGGTGGGCCCAGCCTGACTTCCGAGCCATTGGTGACTTCCTCAAGGACAAG
TACGACAGTGCCTCAGAGATGGTGGTGGAGAAGCATCGGGAGTCCCGAGGCTGGGTGGAGACCC
TTCGGGCCAAGTATGCACTCTTTAAGCCACCCACGGAGAGGGACCTGGTCTACTACGAGAACTC
CCCCAACTTTTGTGAGCCCAACCCAGAGACGGGCTCCTTTGGTACCAGGGACCGGACTTGCAAT
GTCACCTCCCACGGCATTGATGGCTGCGATCTGCTGTGCTGTGGCAGGGGCCACAACACCAGGA
CGGAGAAGCGGAAGGAGAAATGTCATTGCGTCTTCCACTGGTGCTGCTACGTCAGCTGCCAGGA
GTGCATTCGCATCTACGATGTACACACCTGCAAGTAGGGAAGCCAGGGCACAGGGAAGGGGTAG
ATTGTACGGCTGGATCCATTCGTCGAAGTCCCATGGGAAGCAGGATCTAGATCTGGGCCAGCCT
TTGACACGGGCCAGCAAGGAGCAAGGACGATTGCCAGCTGCATGTGATAAACAACCTGGACCCA
GCTGGCCTCGGATGGGCGGCTTCTTTCTCAACTAACGTCTCTCACCCTGCTCTGGATGGTGTGT
GGCTTCACAGAGGGGCTTTCTTTATGGTTTCCCAGGGTCTGCTGGGGACAGACCTGAGGCTTAC
CTTTGCACATGTTAAAGAAAATAAAAATGAAAAAAAAAATCTACTGCAACAGAACAGGCTGGGC
TAGTGTGAGCTCTTGGCCTGGTGGGAGAGACAAGAACATGGCGAGATTCTGTGTCCAAGCTGCC
TCTTGCTCGTGACATTCCAAGATGCCTCTGAGGTAGGAATTGTAAAATAGGATAAGACCCCTGC
AGTCTCCTTTTGTCCGTTGACTTCCATTCAAATTGGGCACACTTTGCCACTCTCAGAAAAGCCA
TAGGTATAGCCGGGATGCAGTGGTGGGGAGGCCCTTGGCCAACGGTCTTGAGTTTTGAAGACCT
CAGAGATCTGGGCAGCTTGGGAAGCCATCTGCAGAACAGCTGAGTTCCTTGTAGCTCATGTTTT
CTCTAGCCCTGCTCTGCTGTAGTCAGATCTCCACACCCCTTTCTGTTGTTCTGCATTGCCCCCC
TTTACTACGCATTTTTCATGATGACCATCTAAATAGGTTAGATGTCTAGGTTAGGCAAGGCTCT
TCGGGCTCCATCCACCATATGCAGAAAGAATGGCTGTTCTGCCCTTCTCAGCCCTGCTAACCGA
CAGACACTAGGGAGAGCAGCTGGGCAAGTCTATGTGGCCGGCAGGTGGGGAGGGTGAAGAGACC
CTTTTTCCTTCGTGTTAGGAAGCAGGCCACCCTGCGTCCTTTTCTCCCATTGGCTGAAGTAACC
CAAAAGACAAGAGATCCTCCCTGACTTGTGAATGGGATAGCCTATCTCAGTTCCCAAGGATCTG
GACTAGATCTTCAAAAGAGGCAAGCAGTGAATGGACACAGCTCCCAGCTCCGTTCCTGATGCAT
GATGGTCCTGGTTGGGGTCAGTAAGATGGGCGGGGCAGCATGGATCGATTCATCAACTCTGTCT
TGAGGAAAATCAGAAGGAGGAGATAAAATGGGGGGAACAAGGCGGAACAAAGACTTTGTCCTTC
CCCCGCTTCTGTCTGGGGTCTGTTAATGCTGACTTGATGTGGGGTCAGCCACTTATGCTGCAGT
TGTGCAGTTAGCTTGCCAAGCAGGCTCCAATAGGCCCTTGCCTGCACTCTCTACCCTATGACCA
TGAGCACTGCTCTCCGTACACCTCCCATCCCTTCCTAGCACCCCAAACGCCCCTTCCCATCTCT
CCTTCCGGAAGTTGGAAATCAAGTCAACTGGATAACGCTTGCTTGTTGTGAGGACTTGAGCAGA
ACGGATACAACAATTTACAAGTCTCTTCATATCTATGTATTCTATATTAAAGGTGATAAAGTCA
TGTTTCTGGGGCGTATTCAAGTAGCTGACAAGTAATTATTTAATAATAGTACCTGAGCGCATTG
TAATTTTCCTCGCTATAGTCAGGATAGTTGGGAGTTTCCTGCCAACCTGCTGTATCCAAAGTTT
TGTAAAAAGTTGTAGAAGTTGTTGATCTTTTTGATTTTATATTCAAAAAGTCTCTTTTTATAAA
TATTATTTATTATACAATGTATATACCTTTGAGTTAACTAAGATTATATATTATATAAATATAT
ATATATTTGGAGAAAATCTATTTCATCATGCAGTTTTTTTCTGTTAAATCATTAAAGAGAAGGT
AAACTTCAGACGGA

hide sequence

RefSeq Acc Id:

XM_039085240 ⟹ XP_038941168

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	88,714,509 - 88,719,455 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001099185	(Get FASTA)	NCBI Sequence Viewer
	XP_017452517	(Get FASTA)	NCBI Sequence Viewer
	XP_038941168	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM06286	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001099185 ⟸ NM_001105715

- UniProtKB:

D3ZCR1 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MEPHLLGLLLGLLLSGTRVLAGYPIWWSLALGQQYTSLASQPLLCGSIPGLVPKQLRFCRNYIE
IMPSVAEGVKLGIQECQHQFRGRRWNCTTIDDSLAIFGPVLDKATRESAFVHAIASAGVAFAVT
RSCAEGTSTICGCDSHHKGPPGEGWKWGGCSEDADFGVLVSREFADARENRPDARSAMNKHNNE
AGRTTILDHMHLKCKCHGLSGSCEVKTCWWAQPDFRAIGDFLKDKYDSASEMVVEKHRESRGWV
ETLRAKYALFKPPTERDLVYYENSPNFCEPNPETGSFGTRDRTCNVTSHGIDGCDLLCCGRGHN
TRTEKRKEKCHCVFHWCCYVSCQECIRIYDVHTCK

hide sequence

RefSeq Acc Id:

XP_017452517 ⟸ XM_017597028

- Peptide Label:

isoform X1

- Sequence:

show sequence

MLYHFTECTVRRNEESAYGELRFGRNGCISRLRLQVPVSRMEGTELIGGVLAKVQGWKPRAQGQ
GVANLALQGAFRSHHRPLYLSIVALNSVCPSTKRIILRSGLLRATGGSLALHPMTATRESAFVH
AIASAGVAFAVTRSCAEGTSTICGCDSHHKGPPGEGWKWGGCSEDADFGVLVSREFADARENRP
DARSAMNKHNNEAGRTTILDHMHLKCKCHGLSGSCEVKTCWWAQPDFRAIGDFLKDKYDSASEM
VVEKHRESRGWVETLRAKYALFKPPTERDLVYYENSPNFCEPNPETGSFGTRDRTCNVTSHGID
GCDLLCCGRGHNTRTEKRKEKCHCVFHWCCYVSCQECIRIYDVHTCK

hide sequence

RefSeq Acc Id:

ENSRNOP00000005176 ⟸ ENSRNOT00000005176

RefSeq Acc Id:	XP_038941168 ⟸ XM_039085240
- Peptide Label:	isoform X1

RefSeq Acc Id:

ENSRNOP00000097138 ⟸ ENSRNOT00000096241

Transcriptome

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

Promoters

RGD ID:

13697816

Promoter ID:

EPDNEW_R8340

Type:

single initiation site

Name:

Wnt3_1

Description:

Wnt family member 3

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	10	91,830,731 - 91,830,791	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (2019)

Visual

CSV

TAB

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Sequenced By:	MCW
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/EurMcwi (MCW)

Visual

CSV

TAB

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

Visual

CSV

TAB

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (2020)

Visual

CSV

TAB

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Sequenced By:	MCW
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

ACI/N (MCW)

Visual

CSV

TAB

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

Visual

CSV

TAB

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN-Lx/CubMcwi (2019)

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Sequenced By:	MCW
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)

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Sequenced By:	MCW
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)

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Sequenced By:	MCW
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)

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Sequenced By:	MCW
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/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BUF/N (2020)

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Sequenced By:	MCW
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)

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Sequenced By:	MCW
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)

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Sequenced By:	MCW
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

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

DA/OlaHsd (2019)

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Sequenced By:	MCW
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)

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Sequenced By:	MCW
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)

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Sequenced By:	MCW
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)

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Sequenced By:	MCW
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/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

F344/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (2019)

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Sequenced By:	MCW
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

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FXLE16/Stm (2020)

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Sequenced By:	MCW
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)

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Sequenced By:	MCW
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

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/FarMcwi (2019)

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Sequenced By:	MCW
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

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

HXB10/IpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB2/IpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB20/IpcvMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB31/IpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB4/IpcvMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (2019)

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Sequenced By:	MCW
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

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (2019)

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Sequenced By:	MCW
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

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEXF10A/StmMcwi (2020)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrcAek (2020)

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Sequenced By:	MCW
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/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrcAek (2020)

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Sequenced By:	MCW
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/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrcAek (2020)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

M520/NRrrcMcwi (2019)

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Sequenced By:	MCW
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

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (2020)

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Sequenced By:	MCW
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

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MWF/Hsd (2019)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/OlalpcvMcwi (2019)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (2020)

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Sequenced By:	MCW
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

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (2019)

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Sequenced By:	MCW
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

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/RijCrl (2020)

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Sequenced By:	MCW
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/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (2020)

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Sequenced By:	MCW
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/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (2019)

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Sequenced By:	MCW
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/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (2020)

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Sequenced By:	MCW
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

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:3972	AgrOrtholog
Ensembl Genes	ENSRNOG00000003845	Ensembl, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000005176	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000005176	UniProtKB/TrEMBL
Gene3D-CATH	3.30.2460.20	UniProtKB/TrEMBL
InterPro	Wnt	UniProtKB/TrEMBL
	Wnt3	UniProtKB/TrEMBL
	Wnt_C	UniProtKB/TrEMBL
	Wnt_grthfactor_CS	UniProtKB/TrEMBL
KEGG Report	rno:24882	UniProtKB/TrEMBL
NCBI Gene	24882	ENTREZGENE
PANTHER	Wnt	UniProtKB/TrEMBL
Pfam	wnt	UniProtKB/TrEMBL
PhenoGen	Wnt3	PhenoGen
PRINTS	WNT3PROTEIN	UniProtKB/TrEMBL
	WNTPROTEIN	UniProtKB/TrEMBL
PROSITE	WNT1	UniProtKB/TrEMBL
SMART	WNT1	UniProtKB/TrEMBL
UniProt	D3ZCR1	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2017-03-29	Wnt3	Wnt family member 3	Wnt3	wingless-type MMTV integration site family, member 3	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-11-14	Wnt3	wingless-type MMTV integration site family, member 3	Wnt3	wingless-related MMTV integration site 3	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-02-18	Wnt3	wingless-related MMTV integration site 3	Wnt3_predicted	wingless-type MMTV integration site family, member 3 (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2007-04-17	Wnt3_predicted	wingless-type MMTV integration site family, member 3 (predicted)	Wnt3	wingless-type MMTV integration site family, member 3	Symbol and name updated to reflect predicted status	1299863	APPROVED
2007-02-19	Wnt3	wingless-type MMTV integration site family, member 3	Wnt3_mapped	wingless-type MMTV integration site family, member 3 (mapped)	Symbol and Name updated to reflect Human and Mouse nomenclature	1299863	PROVISIONAL
2007-02-19	Wnt3_mapped	wingless-type MMTV integration site family, member 3 (mapped)	Wnt3_retired	wingless-type MMTV integration site family, member 3 (mapped)	Data Merged	737654	PROVISIONAL
2007-02-19	Wnt3_retired		Wnt3	wingless-type MMTV integration site family, member 3 (mapped)	Symbol updated	1299863	PROVISIONAL
2006-11-20	Wnt3	wingless-type MMTV integration site family, member 3 (mapped)			Symbol and Name status set to provisional	70820	PROVISIONAL
2005-11-17	Wnt3_mapped	wingless-type MMTV integration site family, member 3 (mapped)			Symbol and Name updated	1556543	APPROVED
2003-04-09	Wnt3	wingless-type MMTV integration site family, member 3		Wingless-type MMTV integration site 3, homolog	Name updated	629478	APPROVED
2002-06-10	Wnt3	Wingless-type MMTV integration site 3, homolog			Symbol and Name status set to approved	70586	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_product	predicted to be a member of the Wnt family of glycoproteins which regulate cell proliferation, cell differentiation, and determination of cell fate	1300513

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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)