Stac3 (SH3 and cysteine rich domain 3)

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Gene: Stac3 (SH3 and cysteine rich domain 3) Rattus norvegicus

Analyze

Symbol:

Stac3

Name:

SH3 and cysteine rich domain 3

RGD ID:

1308964

Description:

Predicted to enable identical protein binding activity. Predicted to be involved in several processes, including neuromuscular synaptic transmission; positive regulation of protein localization to plasma membrane; and positive regulation of voltage-gated calcium channel activity. Predicted to act upstream of or within skeletal muscle fiber development. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of voltage-gated calcium channel complex. Predicted to be extrinsic component of cytoplasmic side of plasma membrane. Human ortholog(s) of this gene implicated in Native American myopathy. Orthologous to human STAC3 (SH3 and cysteine rich domain 3); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-diaminodiphenylmethane.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

LOC362895; SH3 and cysteine-rich domain-containing protein 3

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

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):	STAC3 (SH3 and cysteine rich domain 3)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Stac3 (SH3 and cysteine rich domain 3)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Stac3 (SH3 and cysteine rich domain 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	STAC3 (SH3 and cysteine rich domain 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	STAC3 (SH3 and cysteine rich domain 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Stac3 (SH3 and cysteine rich domain 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	STAC3 (SH3 and cysteine rich domain 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	STAC3 (SH3 and cysteine rich domain 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Stac3 (SH3 and cysteine rich domain 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	STAC3 (SH3 and cysteine rich domain 3)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Stac3 (SH3 and cysteine rich domain 3)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	stac3 (SH3 and cysteine rich domain 3)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	CG43729	Alliance	DIOPT (OrthoInspector\|PANTHER)

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	7	63,343,078 - 63,350,590 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	7	63,343,186 - 63,350,589 (+)	Ensembl
Rnor_6.0	7	70,807,427 - 70,815,271 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	70,807,867 - 70,815,270 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	70,981,174 - 70,988,656 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	67,478,506 - 67,485,909 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	67,500,312 - 67,506,640 (+)	NCBI
Celera	7	60,482,101 - 60,489,521 (+)	NCBI		Celera
Cytogenetic Map	7	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

COVID-19 (ISO)

Experimental Liver Cirrhosis (ISO)

genetic disease (ISO)

Hepatomegaly (ISO)

Liver Neoplasms (ISO)

Native American myopathy (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1-naphthyl isothiocyanate (EXP)

17beta-estradiol (ISO)

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

4,4'-diaminodiphenylmethane (EXP)

acetamide (EXP)

aflatoxin B1 (EXP)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP)

bromobenzene (EXP)

buspirone (EXP)

cadmium dichloride (EXP)

chlordecone (ISO)

dimethyl sulfoxide (ISO)

Echimidine (EXP)

endosulfan (EXP)

finasteride (EXP)

fipronil (EXP)

flutamide (EXP)

furan (EXP)

glafenine (EXP)

Heliotrine (EXP)

indole-3-methanol (EXP)

Lasiocarpine (EXP)

leflunomide (EXP)

linezolid (EXP)

N-nitrosodiethylamine (EXP)

N-nitrosodimethylamine (EXP)

nefazodone (EXP)

nimesulide (EXP)

orphenadrine (EXP)

oxycodone (EXP)

paracetamol (EXP)

phenformin (EXP)

pioglitazone (ISO)

rotenone (EXP)

senecionine (EXP)

Senkirkine (EXP)

sodium dichromate (EXP)

streptozocin (EXP)

sulindac (EXP)

tetrachloromethane (EXP)

thioacetamide (EXP)

titanium dioxide (ISO)

tolcapone (EXP)

triphenyl phosphate (EXP)

valdecoxib (EXP)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

intracellular signal transduction (IEA)

neuromuscular synaptic transmission (ISO)

positive regulation of protein localization to plasma membrane (IBA,ISO)

positive regulation of voltage-gated calcium channel activity (IBA,ISO)

skeletal muscle contraction (IBA,ISO)

skeletal muscle fiber development (ISO)

Cellular Component

cytosol (ISO)

extrinsic component of cytoplasmic side of plasma membrane (IBA,ISO)

nucleoplasm (IEA,ISO)

sarcolemma (IEA)

synapse (IEA)

voltage-gated calcium channel complex (ISO)

Molecular Function

identical protein binding (ISO)

protein binding (ISO)

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.	OMIM Disease Annotation Pipeline
3.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:16189514	PMID:23626854	PMID:23736855	PMID:25416956	PMID:27621462	PMID:28112192	PMID:29467163

Genomics

Comparative Map Data

Stac3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	63,343,078 - 63,350,590 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	7	63,343,186 - 63,350,589 (+)	Ensembl
Rnor_6.0	7	70,807,427 - 70,815,271 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	70,807,867 - 70,815,270 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	70,981,174 - 70,988,656 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	67,478,506 - 67,485,909 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	67,500,312 - 67,506,640 (+)	NCBI
Celera	7	60,482,101 - 60,489,521 (+)	NCBI		Celera
Cytogenetic Map	7	q22	NCBI

STAC3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	12	57,243,453 - 57,251,188 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	12	57,243,453 - 57,251,188 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	12	57,637,241 - 57,644,970 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	55,923,509 - 55,931,236 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	12	55,923,508 - 55,931,236	NCBI
Celera	12	57,291,469 - 57,299,250 (-)	NCBI
Cytogenetic Map	12	q13.3	NCBI
HuRef	12	54,676,118 - 54,683,830 (-)	NCBI		HuRef
CHM1_1	12	57,605,339 - 57,613,080 (-)	NCBI		CHM1_1

Stac3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	10	127,337,505 - 127,344,692 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	10	127,337,555 - 127,344,692 (+)	Ensembl
GRCm38	10	127,501,617 - 127,508,823 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	10	127,501,686 - 127,508,823 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	10	126,938,773 - 126,945,871 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	10	126,904,666 - 126,911,764 (+)	NCBI			mm8
Celera	10	129,893,229 - 129,900,583 (+)	NCBI		Celera
Cytogenetic Map	10	D3	NCBI

Stac3
(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_004955458	4,971,450 - 4,980,262 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955458	4,971,450 - 4,980,262 (-)	NCBI	ChiLan1.0	ChiLan1.0

STAC3
(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	12	31,928,955 - 31,936,257 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	12	31,928,955 - 31,936,251 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	12	31,674,537 - 31,683,917 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

STAC3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	1,370,340 - 1,377,769 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	1,434,018 - 1,441,443 (-)	NCBI
ROS_Cfam_1.0	10	1,380,726 - 1,388,155 (-)	NCBI
UMICH_Zoey_3.1	10	1,357,308 - 1,364,738 (-)	NCBI
UNSW_CanFamBas_1.0	10	1,599,294 - 1,606,729 (-)	NCBI
UU_Cfam_GSD_1.0	10	1,724,219 - 1,731,673 (-)	NCBI

Stac3
(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_024404945	57,424,374 - 57,433,731 (+)	NCBI
SpeTri2.0	NW_004936646	1,436,505 - 1,444,712 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

STAC3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	22,549,008 - 22,556,194 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	22,549,008 - 22,556,330 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	24,376,741 - 24,390,343 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

STAC3
(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	11	53,149,572 - 53,163,036 (-)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	11	53,154,755 - 53,163,090 (-)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666037	192,809,786 - 192,817,153 (+)	NCBI	Vero_WHO_p1.0

Stac3
(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_004624802	10,694,539 - 10,704,320 (+)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

RH133730

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	63,350,363 - 63,350,564 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	70,815,045 - 70,815,245	NCBI	Rnor6.0
Rnor_5.0	7	70,988,430 - 70,988,630	UniSTS	Rnor5.0
RGSC_v3.4	7	67,485,684 - 67,485,884	UniSTS	RGSC3.4
Celera	7	60,489,296 - 60,489,496	UniSTS
Cytogenetic Map	7	q22	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
634336	Anxrr17	Anxiety related response QTL 17	3.66		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	924703	115097879	Rat
1643004	Pain2	Pain QTL 2	1		mechanical nociception trait (VT:0002734)	self mutilation severity score (CMO:0002145)	7	9462246	98011544	Rat
1300132	Bp182	Blood pressure QTL 182	3.49		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	7	19654317	84928080	Rat
7411569	Bw137	Body weight QTL 137		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	7	21921195	66921195	Rat
1641885	Alcrsp9	Alcohol response QTL 9			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	7	24099606	69099606	Rat
1549840	Bss5	Bone structure and strength QTL 5	9.8		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	7	24751841	69751841	Rat
70190	Mcs6	Mammary carcinoma susceptibility QTL 6	2.29		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	7	26737401	63902784	Rat
10402855	Bp379	Blood pressure QTL 379		0.21	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	29409683	74409683	Rat
1300127	Srn1	Serum renin concentration QTL 1	3.87		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	7	29409683	84928080	Rat
10755453	Coatc12	Coat color QTL 12		0	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	7	31112832	76112832	Rat
7411605	Foco14	Food consumption QTL 14	24.1	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	34293282	79293282	Rat
631534	Lnnr1	Liver neoplastic nodule remodeling QTL 1	3.85	0.001	liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)	7	34293282	79293282	Rat
631513	Scl7	Serum cholesterol level QTL 7	4.1		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	37960569	82960569	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	41333674	119109060	Rat
634326	Hc3	Hypercalciuria QTL 3	2.1		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	7	42787314	87787314	Rat
10053722	Scort27	Serum corticosterone level QTL 27	2.41	0.0083	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	7	43228750	88228750	Rat
1358361	Sradr5	Stress Responsive Adrenal Weight QTL 5	5.55		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	7	43747012	108555253	Rat
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	43747012	135012528	Rat
1300149	Cm6	Cardiac mass QTL 6	4.09		heart mass (VT:0007028)	heart left ventricle weight to body weight ratio (CMO:0000530)	7	43747099	102228765	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	44421311	118198041	Rat
61428	Scl3	Serum cholesterol level QTL 3	3.2		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	44867533	89867533	Rat
738030	Anxrr8	Anxiety related response QTL 8	4.1		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	46590070	91590070	Rat
10059605	Kidm47	Kidney mass QTL 47	2.91	0.05	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	7	47251783	65728867	Rat
2293696	Bmd32	Bone mineral density QTL 32	5.1	0.0001	femur strength trait (VT:0010010)	femoral neck polar moment of inertia (CMO:0001670)	7	47651439	92651439	Rat
2293707	Bss32	Bone structure and strength QTL 32	7.64	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	7	47651439	92651439	Rat
2300178	Bmd54	Bone mineral density QTL 54	5.3	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	7	47651439	92651439	Rat
2293644	Bmd29	Bone mineral density QTL 29	5.4	0.0001	femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	7	47651439	92651439	Rat
2293667	Bss42	Bone structure and strength QTL 42	7.25	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	7	47651439	92651439	Rat
2293678	Bss24	Bone structure and strength QTL 24	6.71	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	7	47651439	92651439	Rat
2293685	Bmd21	Bone mineral density QTL 21	4.2	0.0003	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	7	47651439	92651439	Rat
1300151	Bp181	Blood pressure QTL 181	3.36		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	7	53612714	103945643	Rat
2317035	Aia16	Adjuvant induced arthritis QTL 16	2.71		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	7	59238038	104238038	Rat
1298528	Bp169	Blood pressure QTL 169		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	61074194	106074194	Rat
1559283	Emca4	Estrogen-induced mammary cancer QTL 4	3.7		mammary gland integrity trait (VT:0010552)	percentage of study population developing mammary tumors during a period of time (CMO:0000948)	7	62004452	101773158	Rat
1576303	Ept7	Estrogen-induced pituitary tumorigenesis QTL 7	3.7		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	7	62004452	101773158	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	203
Count of miRNA genes:	141
Interacting mature miRNAs:	157
Transcripts:	ENSRNOT00000010639
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium		2	9	9		9	8	11					8
Low	1	14	34	23	16	23			46	17	32	11
Below cutoff	2	27	14	9	3	9			26	18	8

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001130558	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006241486	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006241488	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008765415	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017594944	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039079512	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216646	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224725	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000185	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000010639 ⟹ ENSRNOP00000010639

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	63,343,186 - 63,350,589 (+)	Ensembl
Rnor_6.0 Ensembl	7	70,807,867 - 70,815,270 (+)	Ensembl

RefSeq Acc Id:

NM_001130558 ⟹ NP_001124030

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	63,343,186 - 63,350,589 (+)	NCBI
Rnor_6.0	7	70,807,867 - 70,815,270 (+)	NCBI
Rnor_5.0	7	70,981,174 - 70,988,656 (+)	NCBI
RGSC_v3.4	7	67,478,506 - 67,485,909 (+)	RGD
Celera	7	60,482,101 - 60,489,521 (+)	RGD

Sequence:

show sequence

ACTGTCCTCCAACTCTGTCACTTCAGCTCTACCACCACGTTTCTCCCAAACCCTCCCCTTCAAG
GGCCACCCTACTGTGCGGCAGGAACACTGGGATAGAATTAGATCTCATAGTGGGGTCCAACCTC
TTGTAGGATGACAGAAAAGGAGGTGGTGGAGTCCCCTCAGCCCCCCTTTCCAGGAGAGACTCCG
CAAAGTGGGCTACAGCGACTGAAGCAATTATTCAAGAAGGGCTCTCCAGAGACAACCGAGATGG
AGCCTCCCCCAGAGCCCCAGGCCAATGGAGAAGCCGTGGGGGCTGGGGGTGGCCCCATCTACTA
TATCTATGAGGAAGAAGAAGAGGAGGAGGAAGAGGAAGAACCACCCCCAGAACCTCCTAAGCTT
GTCAATGACAAGCCCCACAAGTTCAAAGATCATTTCTTCAAGAAGCCCAAGTTCTGTGATGTCT
GTGCCCGGATGATTGTGCTCAATAACAAGTTTGGACTCCGCTGTAAGAACTGCAAAACCAACAT
CCATGAACACTGTCAGTCCTACGTGGAGATGCAGAAATGCTTCGGCAAGATCCCACCTGGTTTC
CATCGGGCCTATAGCTCCCCACTCTACAGCAACCAGCAGTATGCTTGTGTCTCTGCTGCCAATC
GCAATGACCCTGTGTTTGAAACCCTACGCGTCGGGGTGATCATGGCAAACAAGGAACGGAAGAA
GGGGCAGGCAGATAAGAAAAATCCTCTGGCAGCCATGATGGAGGAGGAGCCAGAGTCAGCCAGG
CCAGAGGAGGGCAAGTCACAGGATGGAAACGATGCAGAAAAGGACAAGAAGGCTGAGAAGAAAA
CACCTGATGATAAAAACAAGCAACCTGGTTTCCAGCAGTCTCATTACTTTGTGGCTCTCTATCG
GTTCAAAGCCCTGGAGAAGGATGATCTGGATTTCCCACCAGGGGAGAAGATCACAGTCATTGAT
GACTCCAATGAGGAGTGGTGGCGGGGGAAAATCGGAGAGAAGGTGGGATTCTTCCCTCCAAACT
TCATCATTCGGGTCCGGGCTGGAGAACGTGTGCACCGTGTAACCAGATCCTTTGTGGGAAACCG
CGAGATTGGGCAGATCACTCTCAAGAAGGACCAGATCGTAGTGCAGAAAGGAGATGAAGCTGGT
GGCTACGTCAAGGTCTACACCGGCCGCAAGGTGGGGCTGTTTCCCACCGACTTCCTGGAGGAGA
TTTAGGTGTACTGGCGCCTGCTGGCGGGAGACACCCACGCCCCGTTCTGGGCGGGGCCCAGTGC
GGGCTGGGGAGGGAAGGGGCAGGGGGACGAGGAGGGTCGGAAAGGCCCACCAGAGCATAATGAC
GTTTCTGGGGAGGGTCTGGCTCCTACCTCTCCCCTGCCTAGGGCTTCGGATACCTGGTGCGCTG
AGCATCCTGCACCGATAAGGCCCACACTTCAGGTCCATCCAAACCTCAAGAGCTTTGGGGTGAG
GGTGGGGAAGCATCTCCATAAGGAGGGGCAGAGCTGTCAAATGTTTGGAATTTATTAAAGTTTT
GACAAAAGTT

hide sequence

RefSeq Acc Id:

XM_006241486 ⟹ XP_006241548

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	63,343,085 - 63,350,590 (+)	NCBI
Rnor_6.0	7	70,807,428 - 70,815,271 (+)	NCBI
Rnor_5.0	7	70,981,174 - 70,988,656 (+)	NCBI

Sequence:

show sequence

GAGAGACGCTGTCTGGGGGGACGTGGGGGGAGGAAATAAAATCCAAGAACATGACTGAAATGAG
CCCAGGGAGAGTAGAATTGGAACGGTTATTTGAACCTTAATGGGGAGAGTATGGGGCCTTCATT
GTCAGATCTAAAGTTCCCTCATGTAACTGTGTCCTGAACAGAAGTTCCTTTCCTGCTGTGGGTA
TAGCTTAGTGGTCCAGCACACAATTAGCATGACAAAACCCTAGGTTCAATTCCTGGTACTTGGG
AGTGGGGTGGGGTGCTACAGTGTTCGGTAGAAAATGCCCCTTCCTGATAAGCCAGTACTGACCT
GCTTGGGTGTAAACACTCAGAGAAGAGCAGCTCTGGGGGGATGGGAGGAGTCAGGGTCGAGCCC
TGCCCCAGACCTCCTGGTTCCAATTTCTGCCTGTCAGCTGTGCTCTCAGCTGTCCACTGTCCTC
CAACTCTGTCACTTCAGCTCTACCACCACGGTGAGAGGTTCCAAGGCCTACTAATACAGTCTGC
ATAGCTGGTGTGGGTCCAGAAGGTTGCAGAAGGGGGGCTTACCCAGAAGAAAGAGGGCTGGCCC
TCCCCAGCAGCACCATCGAGGTCTTAGGGACGCCCTTTCCACAGCGAACTGATTTAGGGAGTCT
CAAAAGATGACAGAAAAGGAGGTGGTGGAGTCCCCTCAGCCCCCCTTTCCAGGAGAGACTCCGC
AAAGTGGGCTACAGCGACTGAAGCAATTATTCAAGAAGGGCTCTCCAGAGACAACCGAGATGGA
GCCTCCCCCAGAGCCCCAGGCCAATGGAGAAGCCGTGGGGGCTGGGGGTGGCCCCATCTACTAT
ATCTATGAGGAAGAAGAAGAGGAGGAGGAAGAGGAAGAACCACCCCCAGAACCTCCTAAGCTTG
TCAATGACAAGCCCCACAAGTTCAAAGATCATTTCTTCAAGAAGCCCAAGTTCTGTGATGTCTG
TGCCCGGATGATTGTGCTCAATAACAAGTTTGGACTCCGCTGTAAGAACTGCAAAACCAACATC
CATGAACACTGTCAGTCCTACGTGGAGATGCAGAAATGCTTCGGCAAGATCCCACCTGGTTTCC
ATCGGGCCTATAGCTCCCCACTCTACAGCAACCAGCAGTATGCTTGTGTCTCTGCTGCCAATCG
CAATGACCCTGTGTTTGAAACCCTACGCGTCGGGGTGATCATGGCAAACAAGGAACGGAAGAAG
GGGCAGGCAGATAAGAAAAATCCTCTGGCAGCCATGATGGAGGAGGAGCCAGAGTCAGCCAGGC
CAGAGGAGGGCAAGTCACAGGATGGAAACGATGCAGAAAAGGACAAGAAGGCTGAGAAGAAAAC
ACCTGATGATAAAAACAAGCAACCTGGTTTCCAGCAGTCTCATTACTTTGTGGCTCTCTATCGG
TTCAAAGCCCTGGAGAAGGATGATCTGGATTTCCCACCAGGGGAGAAGATCACAGTCATTGATG
ACTCCAATGAGGAGTGGTGGCGGGGGAAAATCGGAGAGAAGGTGGGATTCTTCCCTCCAAACTT
CATCATTCGGGTCCGGGCTGGAGAACGTGTGCACCGTGTAACCAGATCCTTTGTGGGAAACCGC
GAGATTGGGCAGATCACTCTCAAGAAGGACCAGATCGTAGTGCAGAAAGGAGATGAAGCTGGTG
GCTACGTCAAGGTCTACACCGGCCGCAAGGTGGGGCTGTTTCCCACCGACTTCCTGGAGGAGAT
TTAGGTGTACTGGCGCCTGCTGGCGGGAGACACCCACGCCCCGTTCTGGGCGGGGCCCAGTGCG
GGCTGGGGAGGGAAGGGGCAGGGGGACGAGGAGGGTCGGAAAGGCCCACCAGAGCATAATGACG
TTTCTGGGGAGGGTCTGGCTCCTACCTCTCCCCTGCCTAGGGCTTCGGATACCTGGTGCGCTGA
GCATCCTGCACCGATAAGGCCCACACTTCAGGTCCATCCAAACCTCAAGAGCTTTGGGGTGAGG
GTGGGGAAGCATCTCCATAAGGAGGGGCAGAGCTGTCAAATGTTTGGAATTTATTAAAGTTTTG
ACAAAAGTTA

hide sequence

RefSeq Acc Id:

XM_006241488 ⟹ XP_006241550

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	63,343,088 - 63,350,590 (+)	NCBI
Rnor_6.0	7	70,807,428 - 70,815,271 (+)	NCBI
Rnor_5.0	7	70,981,174 - 70,988,656 (+)	NCBI

Sequence:

show sequence

GAGAGACGCTGTCTGGGGGGACGTGGGGGGAGGAAATAAAATCCAAGAACATGACTGAAATGAG
CCCAGGGAGAGTAGAATTGGAACGGTTATTTGAACCTTAATGGGGAGAGTATGGGGCCTTCATT
GTCAGATCTAAAGTTCCCTCATGTAACTGTGTCCTGAACAGAAGTTCCTTTCCTGCTGTGGGTA
TAGCTTAGTGGTCCAGCACACAATTAGCATGACAAAACCCTAGGTTCAATTCCTGGTACTTGGG
AGTGGGGTGGGGTGCTACAGTGTTCGGTAGAAAATGCCCCTTCCTGATAAGCCAGTACTGACCT
GCTTGGGTGTAAACACTCAGAGAAGAGCAGCTCTGGGGGGATGGGAGGAGTCAGGGTCGAGCCC
TGCCCCAGACCTCCTGGTTCCAATTTCTGCCTGTCAGCTGTGCTCTCAGCTGTCCACTGTCCTC
CAACTCTGTCACTTCAGCTCTACCACCACGGTGAGAGGTTCCAAGGCCTACTAATACAGTCTGC
ATAGCTGGTGTGGGTCCAGAAGGTTGCAGAAGGGGGGCTTACCCAGAAGAAAGAGGGCTGGCCC
TCCCCAGCAGCACCATCGAGGTCTTAGGGACGCCCTTTCCACAGCGAACTGATTTAGGGAGTCT
CAAAACTACAGCGACTGAAGCAATTATTCAAGAAGGGCTCTCCAGAGACAACCGAGATGGAGCC
TCCCCCAGAGCCCCAGGCCAATGGAGAAGCCGTGGGGGCTGGGGGTGGCCCCATCTACTATATC
TATGAGGAAGAAGAAGAGGAGGAGGAAGAGGAAGAACCACCCCCAGAACCTCCTAAGCTTGTCA
ATGACAAGCCCCACAAGTTCAAAGATCATTTCTTCAAGAAGCCCAAGTTCTGTGATGTCTGTGC
CCGGATGATTGTGCTCAATAACAAGTTTGGACTCCGCTGTAAGAACTGCAAAACCAACATCCAT
GAACACTGTCAGTCCTACGTGGAGATGCAGAAATGCTTCGGCAAGATCCCACCTGGTTTCCATC
GGGCCTATAGCTCCCCACTCTACAGCAACCAGCAGTATGCTTGTGTCTCTGCTGCCAATCGCAA
TGACCCTGTGTTTGAAACCCTACGCGTCGGGGTGATCATGGCAAACAAGGAACGGAAGAAGGGG
CAGGCAGATAAGAAAAATCCTCTGGCAGCCATGATGGAGGAGGAGCCAGAGTCAGCCAGGCCAG
AGGAGGGCAAGTCACAGGATGGAAACGATGCAGAAAAGGACAAGAAGGCTGAGAAGAAAACACC
TGATGATAAAAACAAGCAACCTGGTTTCCAGCAGTCTCATTACTTTGTGGCTCTCTATCGGTTC
AAAGCCCTGGAGAAGGATGATCTGGATTTCCCACCAGGGGAGAAGATCACAGTCATTGATGACT
CCAATGAGGAGTGGTGGCGGGGGAAAATCGGAGAGAAGGTGGGATTCTTCCCTCCAAACTTCAT
CATTCGGGTCCGGGCTGGAGAACGTGTGCACCGTGTAACCAGATCCTTTGTGGGAAACCGCGAG
ATTGGGCAGATCACTCTCAAGAAGGACCAGATCGTAGTGCAGAAAGGAGATGAAGCTGGTGGCT
ACGTCAAGGTCTACACCGGCCGCAAGGTGGGGCTGTTTCCCACCGACTTCCTGGAGGAGATTTA
GGTGTACTGGCGCCTGCTGGCGGGAGACACCCACGCCCCGTTCTGGGCGGGGCCCAGTGCGGGC
TGGGGAGGGAAGGGGCAGGGGGACGAGGAGGGTCGGAAAGGCCCACCAGAGCATAATGACGTTT
CTGGGGAGGGTCTGGCTCCTACCTCTCCCCTGCCTAGGGCTTCGGATACCTGGTGCGCTGAGCA
TCCTGCACCGATAAGGCCCACACTTCAGGTCCATCCAAACCTCAAGAGCTTTGGGGTGAGGGTG
GGGAAGCATCTCCATAAGGAGGGGCAGAGCTGTCAAATGTTTGGAATTTATTAAAGTTTTGACA
AAAGTTA

hide sequence

RefSeq Acc Id:

XM_008765415 ⟹ XP_008763637

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	63,343,448 - 63,350,590 (+)	NCBI
Rnor_6.0	7	70,808,069 - 70,815,271 (+)	NCBI

Sequence:

show sequence

AAAAGTAAGTCGTCTCTTTATTACCCTTCCATTTCTCCTATCCTGAGTCTGTTGGGCCTCTTCG
TCTCTCTCCCCACCTGATGACAGAAAAGGAGGTGGTGGAGTCCCCTCAGCCCCCCTTTCCAGGA
GAGACTCCGCAAAGTGGGCTACAGCGACTGAAGCAATTATTCAAGAAGGGCTCTCCAGAGACAA
CCGAGATGGAGCCTCCCCCAGAGCCCCAGGCCAATGGAGAAGCCGTGGGGGCTGGGGGTGGCCC
CATCTACTATATCTATGAGGAAGAAGAAGAGGAGGAGGAAGAGGAAGAACCACCCCCAGAACCT
CCTAAGCTTGTCAATGACAAGCCCCACAAGTTCAAAGATCATTTCTTCAAGAAGCCCAAGTTCT
GTGATGTCTGTGCCCGGATGATTGTGCTCAATAACAAGTTTGGACTCCGCTGTAAGAACTGCAA
AACCAACATCCATGAACACTGTCAGTCCTACGTGGAGATGCAGAAATGCTTCGGCAAGATCCCA
CCTGGTTTCCATCGGGCCTATAGCTCCCCACTCTACAGCAACCAGCAGTATGCTTGTGTCTCTG
CTGCCAATCGCAATGACCCTGTGTTTGAAACCCTACGCGTCGGGGTGATCATGGCAAACAAGGA
ACGGAAGAAGGGGCAGGCAGATAAGAAAAATCCTCTGGCAGCCATGATGGAGGAGGAGCCAGAG
TCAGCCAGGCCAGAGGAGGGCAAGTCACAGGATGGAAACGATGCAGAAAAGGACAAGAAGGCTG
AGAAGAAAACACCTGATGATAAAAACAAGCAACCTGGTTTCCAGCAGTCTCATTACTTTGTGGC
TCTCTATCGGTTCAAAGCCCTGGAGAAGGATGATCTGGATTTCCCACCAGGGGAGAAGATCACA
GTCATTGATGACTCCAATGAGGAGTGGTGGCGGGGGAAAATCGGAGAGAAGGTGGGATTCTTCC
CTCCAAACTTCATCATTCGGGTCCGGGCTGGAGAACGTGTGCACCGTGTAACCAGATCCTTTGT
GGGAAACCGCGAGATTGGGCAGATCACTCTCAAGAAGGACCAGATCGTAGTGCAGAAAGGAGAT
GAAGCTGGTGGCTACGTCAAGGTCTACACCGGCCGCAAGGTGGGGCTGTTTCCCACCGACTTCC
TGGAGGAGATTTAGGTGTACTGGCGCCTGCTGGCGGGAGACACCCACGCCCCGTTCTGGGCGGG
GCCCAGTGCGGGCTGGGGAGGGAAGGGGCAGGGGGACGAGGAGGGTCGGAAAGGCCCACCAGAG
CATAATGACGTTTCTGGGGAGGGTCTGGCTCCTACCTCTCCCCTGCCTAGGGCTTCGGATACCT
GGTGCGCTGAGCATCCTGCACCGATAAGGCCCACACTTCAGGTCCATCCAAACCTCAAGAGCTT
TGGGGTGAGGGTGGGGAAGCATCTCCATAAGGAGGGGCAGAGCTGTCAAATGTTTGGAATTTAT
TAAAGTTTTGACAAAAGTTA

hide sequence

RefSeq Acc Id:

XM_017594944 ⟹ XP_017450433

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	63,343,078 - 63,350,590 (+)	NCBI
Rnor_6.0	7	70,807,427 - 70,815,271 (+)	NCBI

Sequence:

show sequence

AGAGAGACGCTGTCTGGGGGGACGTGGGGGGAGGAAATAAAATCCAAGAACATGACTGAAATGA
GCCCAGGGAGAGTAGAATTGGAACGGTTATTTGAACCTTAATGGGGAGAGTATGGGGCCTTCAT
TGTCAGATCTAAAGTTCCCTCATGTAACTGTGTCCTGAACAGAAGTTCCTTTCCTGCTGTGGGT
ATAGCTTAGTGGTCCAGCACACAATTAGCATGACAAAACCCTAGGTTCAATTCCTGGTACTTGG
GAGTGGGGTGGGGTGCTACAGTGTTCGGTAGAAAATGCCCCTTCCTGATAAGCCAGTACTGACC
TGCTTGGGTGTAAACACTCAGAGAAGAGCAGCTCTGGGGGGATGGGAGGAGTCAGGGTCGAGCC
CTGCCCCAGACCTCCTGGTTCCAATTTCTGCCTGTCAGCTGTGCTCTCAGCTGTCCACTGTCCT
CCAACTCTGTCACTTCAGCTCTACCACCACGGTGAGAGGTTCCAAGGCCTACTAATACAGTCTG
CATAGCTGGTGTGGGTCCAGAAGGTTGCAGAAGGGGGGCTTACCCAGAAGAAAGAGGGCTGGCC
CTCCCCAGCAGCACCATCGAGGTCTTAGGGACGCCCTTTCCACAGCGAACTGATTTAGGGAGTC
TCAAAAGATGACAGAAAAGGAGGTGGTGGAGTCCCCTCAGCCCCCCTTTCCAGGAGAGACTCCG
CAAAGTGGGCTACAGCGACTGAAGCAATTATTCAAGAAGGGCTCTCCAGAGACAACCGAGATGG
AGCCTCCCCCAGAGCCCCAGGCCAATGGAGAAGCCGTGGGGGCTGGGGGTGGCCCCATCTACTA
TATCTATGAGGAAGAAGAAGAGGAGGAGGAAGAGGAAGAACCACCCCCAGAACCTCCTAAGCTT
GTCAATGACAAGCCCCACAAGTTCAAAGATCATTTCTTCAAGAAGCCCAAGTTCTGTGATGTCT
GTGCCCGGATGATTGTGCTCAATAACAAGTTTGGACTCCGCTGTAAGAACTGCAAAACCAACAT
CCATGAACACTGTCAGTCCTACGTGGAGATGCAGAAATGCTTCGGCAAGATCCCACCTGGTTTC
CATCGGGCCTATAGCTCCCCACTCTACAGCAACCAGCAGTATGCTTGTGTCTCTGCTGCCAATC
GCAATGACCCTGTGTTTGAAACCCTACGCGTCGGGGTGATCATGGCAAACAAGGAACGGAAGAA
GGGGCAGGCAGATAAGAAAAATCCTCTGGCAGCCATGATGGAGGAGGAGCCAGAGTCAGCCAGG
CCAGAGGAGGGCAAGTCACAGGATGGAAACGATGCAGAAAAGGACAAGAAGGCTGAGAAGAAAA
CACCTGATGATAAAAACAAGCAACCTGGTTTCCAGCAGTCTCATTACTTTGTGGCTCTCTATCG
GTTCAAAGCCCTGGAGAAGGATGATCTGGATTTCCCACCAGGGGAGAAGATCACAGTCATTGAT
GACTCCAATGAGGAGTGGTGGCGGGGGAAAATCGGAGAGAAGGTGGGATTCTTCCCTCCAAACT
TCATCATTCGGGTCCGGGCTGGAGAACGTGTGCACCGTGTAACCAGATCCTTTGTGGGAAACCG
CGAGATTGGGCAGATCACTCTCAAGAAGGACCAGATCGTAGTGCAGAAAGGAGATGAAGCTGGT
GGCTACGTCAAGGTCTACACCGGCCGCAAGGGCTTCGGATACCTGGTGCGCTGAGCATCCTGCA
CCGATAAGGCCCACACTTCAGGTCCATCCAAACCTCAAGAGCTTTGGGGTGAGGGTGGGGAAGC
ATCTCCATAAGGAGGGGCAGAGCTGTCAAATGTTTGGAATTTATTAAAGTTTTGACAAAAGTTA

hide sequence

RefSeq Acc Id:

XM_039079512 ⟹ XP_038935440

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	63,343,079 - 63,350,590 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001124030	(Get FASTA)	NCBI Sequence Viewer
	XP_006241548	(Get FASTA)	NCBI Sequence Viewer
	XP_006241550	(Get FASTA)	NCBI Sequence Viewer
	XP_008763637	(Get FASTA)	NCBI Sequence Viewer
	XP_017450433	(Get FASTA)	NCBI Sequence Viewer
	XP_038935440	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM16465	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001124030 ⟸ NM_001130558

- UniProtKB:

D3ZQN6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MTEKEVVESPQPPFPGETPQSGLQRLKQLFKKGSPETTEMEPPPEPQANGEAVGAGGGPIYYIY
EEEEEEEEEEEPPPEPPKLVNDKPHKFKDHFFKKPKFCDVCARMIVLNNKFGLRCKNCKTNIHE
HCQSYVEMQKCFGKIPPGFHRAYSSPLYSNQQYACVSAANRNDPVFETLRVGVIMANKERKKGQ
ADKKNPLAAMMEEEPESARPEEGKSQDGNDAEKDKKAEKKTPDDKNKQPGFQQSHYFVALYRFK
ALEKDDLDFPPGEKITVIDDSNEEWWRGKIGEKVGFFPPNFIIRVRAGERVHRVTRSFVGNREI
GQITLKKDQIVVQKGDEAGGYVKVYTGRKVGLFPTDFLEEI

hide sequence

RefSeq Acc Id:	XP_006241548 ⟸ XM_006241486
- Peptide Label:	isoform X1
- UniProtKB:	D3ZQN6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTEKEVVESPQPPFPGETPQSGLQRLKQLFKKGSPETTEMEPPPEPQANGEAVGAGGGPIYYIY EEEEEEEEEEEPPPEPPKLVNDKPHKFKDHFFKKPKFCDVCARMIVLNNKFGLRCKNCKTNIHE HCQSYVEMQKCFGKIPPGFHRAYSSPLYSNQQYACVSAANRNDPVFETLRVGVIMANKERKKGQ ADKKNPLAAMMEEEPESARPEEGKSQDGNDAEKDKKAEKKTPDDKNKQPGFQQSHYFVALYRFK ALEKDDLDFPPGEKITVIDDSNEEWWRGKIGEKVGFFPPNFIIRVRAGERVHRVTRSFVGNREI GQITLKKDQIVVQKGDEAGGYVKVYTGRKVGLFPTDFLEEI hide sequence

RefSeq Acc Id:

XP_006241550 ⟸ XM_006241488

- Peptide Label:

isoform X3

- Sequence:

show sequence

MEPPPEPQANGEAVGAGGGPIYYIYEEEEEEEEEEEPPPEPPKLVNDKPHKFKDHFFKKPKFCD
VCARMIVLNNKFGLRCKNCKTNIHEHCQSYVEMQKCFGKIPPGFHRAYSSPLYSNQQYACVSAA
NRNDPVFETLRVGVIMANKERKKGQADKKNPLAAMMEEEPESARPEEGKSQDGNDAEKDKKAEK
KTPDDKNKQPGFQQSHYFVALYRFKALEKDDLDFPPGEKITVIDDSNEEWWRGKIGEKVGFFPP
NFIIRVRAGERVHRVTRSFVGNREIGQITLKKDQIVVQKGDEAGGYVKVYTGRKVGLFPTDFLE
EI

hide sequence

RefSeq Acc Id:	XP_008763637 ⟸ XM_008765415
- Peptide Label:	isoform X1
- UniProtKB:	D3ZQN6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTEKEVVESPQPPFPGETPQSGLQRLKQLFKKGSPETTEMEPPPEPQANGEAVGAGGGPIYYIY EEEEEEEEEEEPPPEPPKLVNDKPHKFKDHFFKKPKFCDVCARMIVLNNKFGLRCKNCKTNIHE HCQSYVEMQKCFGKIPPGFHRAYSSPLYSNQQYACVSAANRNDPVFETLRVGVIMANKERKKGQ ADKKNPLAAMMEEEPESARPEEGKSQDGNDAEKDKKAEKKTPDDKNKQPGFQQSHYFVALYRFK ALEKDDLDFPPGEKITVIDDSNEEWWRGKIGEKVGFFPPNFIIRVRAGERVHRVTRSFVGNREI GQITLKKDQIVVQKGDEAGGYVKVYTGRKVGLFPTDFLEEI hide sequence

RefSeq Acc Id:

XP_017450433 ⟸ XM_017594944

- Peptide Label:

isoform X2

- Sequence:

show sequence

MTEKEVVESPQPPFPGETPQSGLQRLKQLFKKGSPETTEMEPPPEPQANGEAVGAGGGPIYYIY
EEEEEEEEEEEPPPEPPKLVNDKPHKFKDHFFKKPKFCDVCARMIVLNNKFGLRCKNCKTNIHE
HCQSYVEMQKCFGKIPPGFHRAYSSPLYSNQQYACVSAANRNDPVFETLRVGVIMANKERKKGQ
ADKKNPLAAMMEEEPESARPEEGKSQDGNDAEKDKKAEKKTPDDKNKQPGFQQSHYFVALYRFK
ALEKDDLDFPPGEKITVIDDSNEEWWRGKIGEKVGFFPPNFIIRVRAGERVHRVTRSFVGNREI
GQITLKKDQIVVQKGDEAGGYVKVYTGRKGFGYLVR

hide sequence

RefSeq Acc Id:

ENSRNOP00000010639 ⟸ ENSRNOT00000010639

RefSeq Acc Id:	XP_038935440 ⟸ XM_039079512
- Peptide Label:	isoform X4

Protein Domains

Phorbol-ester/DAG-type SH3

Transcriptome

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

Promoters

RGD ID:

13695261

Promoter ID:

EPDNEW_R5786

Type:

initiation region

Name:

Stac3_1

Description:

SH3 and cysteine rich domain 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	7	70,807,886 - 70,807,946	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)

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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)

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

BN/NHsdMcwi (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

BN/NHsdMcwi (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:	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:1308964	AgrOrtholog
Ensembl Genes	ENSRNOG00000008050	Ensembl, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000010639	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000010639	UniProtKB/TrEMBL
InterPro	Prot_Kinase_C-like_PE/DAG-bd	UniProtKB/TrEMBL
	SH3-like_dom	UniProtKB/TrEMBL
	SH3_domain	UniProtKB/TrEMBL
	STAC1/2/3	UniProtKB/TrEMBL
	Stac3_SH3_1	UniProtKB/TrEMBL
KEGG Report	rno:362895	UniProtKB/TrEMBL
NCBI Gene	362895	ENTREZGENE
PANTHER	PTHR15135	UniProtKB/TrEMBL
Pfam	C1_1	UniProtKB/TrEMBL
	SH3_1	UniProtKB/TrEMBL
	SH3_2	UniProtKB/TrEMBL
PhenoGen	Stac3	PhenoGen
PRINTS	SH3DOMAIN	UniProtKB/TrEMBL
PROSITE	SH3	UniProtKB/TrEMBL
	ZF_DAG_PE_1	UniProtKB/TrEMBL
	ZF_DAG_PE_2	UniProtKB/TrEMBL
SMART	SH3	UniProtKB/TrEMBL
	SM00109	UniProtKB/TrEMBL
Superfamily-SCOP	SH3	UniProtKB/TrEMBL
UniProt	D3ZQN6	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-04-30	Stac3	SH3 and cysteine rich domain 3	Stac3_predicted	SH3 and cysteine rich domain 3 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Stac3_predicted	SH3 and cysteine rich domain 3 (predicted)			Symbol and Name status set to approved	70820	APPROVED

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

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM