Pvalb (parvalbumin) - Rat Genome Database

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

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Gene: Pvalb (parvalbumin) Rattus norvegicus

Analyze

Symbol:

Pvalb

Name:

parvalbumin

RGD ID:

3457

Description:

Enables calcium ion binding activity and identical protein binding activity. Involved in cochlea development. Located in several cellular components, including cuticular plate; neuronal cell body; and stereocilium. Part of protein-containing complex. Orthologous to human PVALB (parvalbumin); PARTICIPATES IN calcium/calcium-mediated signaling pathway; INTERACTS WITH (+)-pilocarpine; 6-propyl-2-thiouracil; acrylamide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

PALB1; Parvalbumin (calcium binding protein); parvalbumin alpha; Pva

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):	PVALB (parvalbumin)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OrthoDB, Panther, PhylomeDB
Mus musculus (house mouse):	Pvalb (parvalbumin)	HGNC	EggNOG, NCBI, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Pvalb (parvalbumin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PVALB (parvalbumin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PVALB (parvalbumin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Pvalb (parvalbumin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PVALB (parvalbumin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	PVALB (parvalbumin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Pvalb (parvalbumin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Pvalb (parvalbumin)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Homo sapiens (human):	PVALB (parvalbumin)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	pvalb6 (parvalbumin 6)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	pvalb7 (parvalbumin 7)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER)

Allele / Splice:

Pvalb^{em1(flpo)Berke}

Genetic Models:

LE-Pvalb^{em1(flpo)Berke}/Rrrc

Is Marker For:

Strains: LE-Tg(Pvalb-icre)2Ottc

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	109,772,939 - 109,787,954 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	7	109,772,593 - 109,784,561 (-)	Ensembl
Rnor_6.0	7	119,428,657 - 119,443,674 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	119,429,019 - 119,441,487 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	119,420,581 - 119,435,235 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	116,115,034 - 116,127,508 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	116,148,899 - 116,163,894 (-)	NCBI
Celera	7	106,113,144 - 106,125,613 (-)	NCBI		Celera
RH 3.4 Map	7	812.5	RGD
Cytogenetic Map	7	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

bipolar disorder (ISO)

oxyphilic adenoma (ISO)

psychotic disorder (ISO)

renal cell carcinoma (ISO)

schizophrenia (ISO)

visual epilepsy (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-pilocarpine (EXP)

(S)-nicotine (ISO)

1,1-dichloroethene (ISO)

17beta-estradiol (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

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

6-propyl-2-thiouracil (EXP)

acrylamide (EXP)

ammonium chloride (EXP)

amphetamine (EXP)

apocynin (ISO)

apomorphine (EXP)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP)

butanal (ISO)

cannabidiol (EXP)

carbon nanotube (ISO)

Citreoviridin (ISO)

clozapine (EXP)

cocaine (EXP,ISO)

copper atom (EXP)

copper(0) (EXP)

crocidolite asbestos (ISO)

Cuprizon (EXP)

dexamethasone (ISO)

dichloroacetic acid (ISO)

diethylstilbestrol (EXP)

diuron (EXP)

domoic acid (ISO)

dorsomorphin (ISO)

ethanol (ISO)

genistein (EXP)

graphite (ISO)

haloperidol (EXP)

ketamine (ISO)

L-ascorbic acid (EXP)

lead diacetate (EXP)

lead(0) (EXP)

lead(2+) (EXP)

mancozeb (ISO)

manganese atom (ISO)

manganese(0) (ISO)

manganese(II) chloride (ISO)

mercury atom (ISO)

mercury(0) (ISO)

methylmercury chloride (ISO)

morphine (ISO)

N-methyl-4-phenylpyridinium (EXP)

nicotine (ISO)

PCB138 (ISO)

phencyclidine (EXP)

phenylmercury acetate (ISO)

picrotoxin (EXP)

pioglitazone (ISO)

poly(I:C) (EXP)

propiconazole (ISO)

rotenone (EXP)

SB 431542 (ISO)

SKF 38393 (EXP)

sodium fluoride (ISO)

Soman (EXP)

testosterone enanthate (ISO)

tetrachloroethene (ISO)

tetrodotoxin (EXP)

triptonide (ISO)

valproic acid (EXP,ISO)

vancomycin (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cochlea development (IEP)

excitatory chemical synaptic transmission (ISO)

gene expression (ISO)

inhibitory chemical synaptic transmission (ISO)

Cellular Component

axon (ISO)

cuticular plate (IDA)

cytoplasm (IBA,IDA,ISO)

neuronal cell body (IDA)

nucleus (IBA,IDA)

protein-containing complex (IDA)

stereocilium (IDA)

terminal bouton (HDA)

Molecular Function

calcium ion binding (IBA,IDA)

identical protein binding (IPI)

protein-containing complex binding (IDA)

Molecular Pathway Annotations Click to see Annotation Detail View

calcium/calcium-mediated signaling pathway (ISO)

References

References - curated


1.	Berchtold MW, etal., J Biol Chem 1987 Jun 25;262(18):8696-701.
2.	Epstein P, etal., J Biol Chem 1986 May 5;261(13):5886-91.
3.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4.	Hackney CM, etal., J Neurosci. 2005 Aug 24;25(34):7867-75.
5.	Henzl MT, etal., Biochemistry. 2004 Aug 31;43(34):10906-17.
6.	Henzl MT, etal., Protein Sci 2002 Jan;11(1):158-73.
7.	Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
8.	MGD data from the GO Consortium
9.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
10.	Permyakov SE, etal., Cell Calcium. 2009 Sep;46(3):163-75. Epub 2009 Aug 3.
11.	RGD automated data pipeline
12.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13.	RGD automated import pipeline for gene-chemical interactions
14.	Rickman DW J Neurobiol. 1999 Nov 15;41(3):376-84.
15.	Schwaller B, Cold Spring Harb Perspect Biol. 2010 Nov;2(11):a004051. doi: 10.1101/cshperspect.a004051. Epub 2010 Oct 13.
16.	Spencer RF, etal., Hear Res 2002 Sep;171(1-2):129-141.
17.	Toury R, etal., Bone. 1996 Sep;19(3):245-53.
18.	Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.

Additional References at PubMed

PMID:3707914	PMID:3856270	PMID:6754379	PMID:8289291	PMID:10036163	PMID:12115678	PMID:12149208	PMID:12477932	PMID:12577320	PMID:12653564	PMID:12716955	PMID:12974622
PMID:14978725	PMID:15005610	PMID:15287728	PMID:15479642	PMID:16040009	PMID:16459206	PMID:17177263	PMID:17198372	PMID:17545482	PMID:17594127	PMID:17706751	PMID:18218708
PMID:18637710	PMID:18789377	PMID:18977019	PMID:19004479	PMID:19168302	PMID:19397388	PMID:19885653	PMID:20882544	PMID:20883785	PMID:21411124	PMID:21561603	PMID:21679927
PMID:21915341	PMID:21930674	PMID:21933624	PMID:22037839	PMID:22221733	PMID:22306612	PMID:23044920	PMID:23047329	PMID:23152631	PMID:23376485	PMID:23628656	PMID:23718120
PMID:24657285	PMID:25553513	PMID:26650043	PMID:26698582	PMID:27432008	PMID:29107660	PMID:29788232	PMID:30176502	PMID:31804491

Genomics

Comparative Map Data

Pvalb
(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	109,772,939 - 109,787,954 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	7	109,772,593 - 109,784,561 (-)	Ensembl
Rnor_6.0	7	119,428,657 - 119,443,674 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	119,429,019 - 119,441,487 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	119,420,581 - 119,435,235 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	116,115,034 - 116,127,508 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	116,148,899 - 116,163,894 (-)	NCBI
Celera	7	106,113,144 - 106,125,613 (-)	NCBI		Celera
RH 3.4 Map	7	812.5	RGD
Cytogenetic Map	7	q34	NCBI

PVALB
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	22	36,800,684 - 36,819,479 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	22	36,800,703 - 36,819,499 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	22	37,196,747 - 37,215,543 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	22	35,526,691 - 35,545,463 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	22	35,521,245 - 35,540,017	NCBI
Celera	22	20,994,687 - 21,013,451 (-)	NCBI
Cytogenetic Map	22	q12.3	NCBI
HuRef	22	20,158,898 - 20,177,656 (-)	NCBI		HuRef
CHM1_1	22	37,150,960 - 37,169,738 (-)	NCBI		CHM1_1

Pvalb
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	78,075,312 - 78,090,600 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	15	78,075,314 - 78,090,600 (-)	Ensembl
GRCm38	15	78,191,112 - 78,206,400 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	78,191,114 - 78,206,400 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	78,021,547 - 78,036,781 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	15	78,018,372 - 78,033,606 (-)	NCBI			mm8
Celera	15	79,652,042 - 79,667,286 (-)	NCBI		Celera
Cytogenetic Map	15	E1	NCBI
cM Map	15	36.93	NCBI

Pvalb
(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_004955413	23,329,467 - 23,345,487 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955413	23,329,467 - 23,345,487 (-)	NCBI	ChiLan1.0	ChiLan1.0

PVALB
(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	22	35,551,448 - 35,568,316 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	35,551,448 - 35,568,316 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	22	17,715,109 - 17,731,587 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

PVALB
(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	27,655,896 - 27,674,309 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	27,655,905 - 27,707,332 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	27,610,209 - 27,628,586 (+)	NCBI
ROS_Cfam_1.0	10	28,447,846 - 28,466,434 (+)	NCBI
UMICH_Zoey_3.1	10	28,169,344 - 28,187,929 (+)	NCBI
UNSW_CanFamBas_1.0	10	28,477,867 - 28,496,446 (+)	NCBI
UU_Cfam_GSD_1.0	10	28,656,677 - 28,675,084 (+)	NCBI

Pvalb
(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	11,038,062 - 11,053,610 (+)	NCBI
SpeTri2.0	NW_004936492	4,048,459 - 4,064,024 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PVALB
(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	10,955,491 - 10,973,289 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	10,953,559 - 10,973,300 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	8,553,390 - 8,573,107 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PVALB
(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	19	19,501,100 - 19,520,031 (-)	NCBI
ChlSab1.1	19	19,501,100 - 19,520,031 (-)	NCBI
ChlSab1.1 Ensembl	19	19,501,293 - 19,517,340 (-)	Ensembl
Vero_WHO_p1.0	NW_023666045	106,347,684 - 106,364,427 (+)	NCBI

Pvalb
(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_004624752	10,969,746 - 10,985,437 (+)	NCBI

Position Markers

RH94476

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	109,788,050 - 109,788,237 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	119,443,767 - 119,443,953	NCBI	Rnor6.0
Rnor_5.0	7	119,435,354 - 119,435,540	UniSTS	Rnor5.0
RGSC_v3.4	7	116,129,788 - 116,129,974	UniSTS	RGSC3.4
Celera	7	106,127,893 - 106,128,079	UniSTS
RH 3.4 Map	7	812.5	UniSTS
Cytogenetic Map	7	q34	UniSTS

X59382

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	109,773,294 - 109,773,429 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	119,429,011 - 119,429,145	NCBI	Rnor6.0
Rnor_5.0	7	119,420,598 - 119,420,732	UniSTS	Rnor5.0
RGSC_v3.4	7	116,115,027 - 116,115,161	UniSTS	RGSC3.4
Celera	7	106,113,137 - 106,113,271	UniSTS
Cytogenetic Map	7	q34	UniSTS

RH135405

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	109,773,134 - 109,773,328 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	119,428,851 - 119,429,044	NCBI	Rnor6.0
Rnor_5.0	7	119,420,438 - 119,420,631	UniSTS	Rnor5.0
RGSC_v3.4	7	116,114,867 - 116,115,060	UniSTS	RGSC3.4
Celera	7	106,112,977 - 106,113,170	UniSTS
RH 3.4 Map	7	813.1	UniSTS
Cytogenetic Map	7	q34	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
2306821	Bp335	Blood pressure QTL 335		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	106571501	135012528	Rat
2316947	Rf58	Renal function QTL 58	7.8		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	7	68938720	113886318	Rat
2316952	Pur22	Proteinuria QTL 22	5.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	7	68938720	113886318	Rat
2316955	Stl24	Serum triglyceride level QTL 24	7.1		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	7	68938720	113886318	Rat
631687	Hcas1	Hepatocarcinoma susceptibility QTL 1	3.9	0.001	liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	7	91412594	129807172	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	81737938	126737938	Rat
731174	Uae23	Urinary albumin excretion QTL 23	2.4	0.0042	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	7	104603555	135012528	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
634322	Bw12	Body weight QTL 12	0		body mass (VT:0001259)	body weight (CMO:0000012)	7	83153392	128153392	Rat
634331	Pia17	Pristane induced arthritis QTL 17	4.7		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	7	73829340	130221005	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	43747012	135012528	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	80221299	124373579	Rat
1331731	Bp216	Blood pressure QTL 216	2.851		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	102297359	133492884	Rat
1331746	Kidm9	Kidney mass QTL 9	3.934		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	7	80221299	112308525	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	80221299	125221299	Rat
1357336	Gluco6	Glucose level QTL 6	3.4		blood glucose amount (VT:0000188)	serum glucose level (CMO:0000543)	7	94811326	116294265	Rat
1357338	Stl17	Serum triglyceride level QTL 17	3.23		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	69736356	112729554	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	90482196	135012528	Rat
1558655	Swd4	Spike wave discharge measurement QTL 4	3.68	0.0002	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge severity grade (CMO:0001988)	7	86983365	131983365	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	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
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	64002457	135012528	Rat
71114	Niddm14	Non-insulin dependent diabetes mellitus QTL 14	4.5		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	7	84257275	129257275	Rat
70159	Bp61	Blood pressure QTL 61		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	103146217	116738842	Rat
2298475	Eau6	Experimental allergic uveoretinitis QTL 6		0.0029	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	7	84257275	129257275	Rat
2299163	Iddm34	Insulin dependent diabetes mellitus QTL 34	2.71		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	7	91281130	135012528	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	96670164	135012528	Rat
2313102	Bmd79	Bone mineral density QTL 79	2.3	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	7	94811085	116738842	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	69736226	117455174	Rat
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

Related Rat Strains

The following Strains have been annotated to Pvalb

LE-Tg(Pvalb-icre)2Ottc

Genetic Models

This gene Pvalb is modified in the following models/strains

LE-Pvalb^{em1(flpo)Berke}/Rrrc

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	260
Count of miRNA genes:	163
Interacting mature miRNAs:	186
Transcripts:	ENSRNOT00000067635
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	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High							8	11	4				8
Medium		2	1		1				22		2	6
Low	2	7	23	8	15	8			22	8	15	5
Below cutoff		17	6	6	2	6			10	3	15

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_022499	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006241929	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039078454	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AH002223	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AH002224	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC126090	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212120	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214597	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214667	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214901	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214909	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215072	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215101	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215172	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215177	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215250	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215353	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215367	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215388	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215455	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215472	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215487	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215608	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215681	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215732	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215806	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215845	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216147	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216186	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216201	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216260	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216338	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216339	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216448	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216459	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216533	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216659	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216751	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216789	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216830	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216843	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216867	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216872	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216903	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216906	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216960	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216981	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217053	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217064	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217099	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217132	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217209	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217210	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217263	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217278	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217298	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217358	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217373	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217384	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217418	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217424	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217446	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217489	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217527	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217562	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217576	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217645	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217652	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217677	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217690	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217743	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217749	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217760	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217770	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217787	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217845	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217858	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217860	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217861	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217880	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217886	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217934	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217966	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217976	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217991	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218022	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218035	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218057	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223582	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223596	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223603	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223630	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223664	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223669	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223695	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223712	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223723	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223798	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223803	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223861	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223863	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223909	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223941	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223961	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223988	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223989	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223990	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224014	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224025	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224028	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224037	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224053	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224059	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224083	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224113	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224136	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224173	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224181	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224187	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224242	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224248	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224294	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224303	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224322	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224356	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224363	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224417	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224430	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224435	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224463	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224483	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224485	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224488	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224492	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224510	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224541	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224580	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224584	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224600	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224613	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224634	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224643	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224673	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224675	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224722	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224723	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224767	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224773	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224778	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224913	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000186	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M12725	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000067635 ⟹ ENSRNOP00000058825

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	109,772,593 - 109,784,561 (-)	Ensembl
Rnor_6.0 Ensembl	7	119,429,019 - 119,441,487 (-)	Ensembl

RefSeq Acc Id:

NM_022499 ⟹ NP_071944

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	109,773,302 - 109,785,771 (-)	NCBI
Rnor_6.0	7	119,429,018 - 119,441,487 (-)	NCBI
Rnor_5.0	7	119,420,581 - 119,435,235 (-)	NCBI
RGSC_v3.4	7	116,115,034 - 116,127,508 (-)	RGD
Celera	7	106,113,144 - 106,125,613 (-)	RGD

Sequence:

show sequence

AACAGTTGCAGGATGTCGATGACAGACTTGCTCAGCGCTGAGGACATCAAGAAGGCGATAGGAG
CCTTTACTGCTGCAGACTCCTTCGACCACAAAAAGTTCTTCCAGATGGTGGGCCTGAAGAAAAA
GAGTGCGGATGATGTGAAGAAGGTGTTCCACATTCTGGACAAAGACAAAAGTGGCTTCATTGAG
GAGGATGAGCTGGGGTCCATTCTGAAGGGCTTCTCCTCAGATGCCAGAGACTTGTCTGCTAAGG
AAACAAAGACGCTGATGGCTGCTGGAGACAAGGACGGGGATGGCAAGATTGGGGTTGAAGAATT
CTCCACTCTGGTGGCCGAAAGCTAAGTGGCGCTGACTGCTTGGGTCTCCCACCTCTCCACCCCC
CATGCCCCATCTCAGCCCTTCTCGCGGCCCTCCTGGGTTTCTGTTCAGTTTGTTTATGTTATTT
TTTACTCCCCCATCCTTTATGGCCCTCGAATGACACCACTCTTCTGGAAAATGCTGGAGAAACA
ATAAAGGCTGTACCCATCGGACACCAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006241929 ⟹ XP_006241991

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	109,772,939 - 109,787,954 (-)	NCBI
Rnor_6.0	7	119,428,657 - 119,443,674 (-)	NCBI
Rnor_5.0	7	119,420,581 - 119,435,235 (-)	NCBI

Sequence:

show sequence

TATTTAAGTGACTGTCCCACCACAAGTCTCATTTCCCAACAGGATCTCCCACCAGCCCAGCTTT
TCTATATAGGCTCTGACCTCTGGTCATCCAAGTTGCAGGATGTCGATGACAGACTTGCTCAGCG
CTGAGGACATCAAGAAGGCGATAGGAGCCTTTACTGCTGCAGACTCCTTCGACCACAAAAAGTT
CTTCCAGATGGTGGGCCTGAAGAAAAAGAGTGCGGATGATGTGAAGAAGGTGTTCCACATTCTG
GACAAAGACAAAAGTGGCTTCATTGAGGAGGATGAGCTGGGGTCCATTCTGAAGGGCTTCTCCT
CAGATGCCAGAGACTTGTCTGCTAAGGAAACAAAGACGCTGATGGCTGCTGGAGACAAGGACGG
GGATGGCAAGATTGGGGTTGAAGAATTCTCCACTCTGGTGGCCGAAAGCTAAGTGGCGCTGACT
GCTTGGGTCTCCCACCTCTCCACCCCCCATGCCCCATCTCAGCCCTTCTCGCGGCCCTCCTGGG
TTTCTGTTCAGTTTGTTTATGTTATTTTTTACTCCCCCATCCTTTATGGCCCTCGAATGACACC
ACTCTTCTGGAAAATGCTGGAGAAACAATAAAGGCTGTACCCATCGGACACCACCTGTAGGGAG
GACCCAGGCCTGGTAGGGTGTTGGTTTGGCAAGTTTTTCCGGACAGCAGTGGGGGTATAGTAGA
AAAAGTGAGAGAGAGCGAAGGACCACGCCCTGATATTTCCTGCCTGCTTGGTACCGAGTGGTCA
CGTGGGCCACCTTGTTCAGTCTTTGTGCCTTTCCTACAAGGGGATGGGATGGCGCAGGGGATTT
TAAAGATGCAGAAACTGCCTTTTAAAGAGCAGAACGGAAGGGGCTGAGTCCACAGGTGATTACT
TTATGTCCCTGAGGAATAACTAGGTCGAAGGACTCAAATGACACTCTATCAATTGCTTTTGACT
TTGCTGTGATAAAATTCCTGATAAGAGAAA

hide sequence

RefSeq Acc Id:

XM_039078454 ⟹ XP_038934382

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	109,776,887 - 109,787,954 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_071944	(Get FASTA)	NCBI Sequence Viewer
	XP_006241991	(Get FASTA)	NCBI Sequence Viewer
	XP_038934382	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA41797	(Get FASTA)	NCBI Sequence Viewer
	AAA41799	(Get FASTA)	NCBI Sequence Viewer
	AAA41800	(Get FASTA)	NCBI Sequence Viewer
	AAI26091	(Get FASTA)	NCBI Sequence Viewer
	EDM15886	(Get FASTA)	NCBI Sequence Viewer
	EDM15887	(Get FASTA)	NCBI Sequence Viewer
	EDM15888	(Get FASTA)	NCBI Sequence Viewer
	EDM15889	(Get FASTA)	NCBI Sequence Viewer
	P02625	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_071944 ⟸ NM_022499
- UniProtKB:	P02625 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MSMTDLLSAEDIKKAIGAFTAADSFDHKKFFQMVGLKKKSADDVKKVFHILDKDKSGFIEEDEL GSILKGFSSDARDLSAKETKTLMAAGDKDGDGKIGVEEFSTLVAES hide sequence

RefSeq Acc Id:	XP_006241991 ⟸ XM_006241929
- Peptide Label:	isoform X2
- UniProtKB:	P02625 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MSMTDLLSAEDIKKAIGAFTAADSFDHKKFFQMVGLKKKSADDVKKVFHILDKDKSGFIEEDEL GSILKGFSSDARDLSAKETKTLMAAGDKDGDGKIGVEEFSTLVAES hide sequence

RefSeq Acc Id:

ENSRNOP00000058825 ⟸ ENSRNOT00000067635

RefSeq Acc Id:	XP_038934382 ⟸ XM_039078454
- Peptide Label:	isoform X1

Protein Domains

EF-hand

Transcriptome

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

Promoters

RGD ID:

13695457

Promoter ID:

EPDNEW_R5982

Type:

multiple initiation site

Name:

Pvalb_1

Description:

parvalbumin

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	119,441,505 - 119,441,565	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/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

ACI/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)

ACI/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

ACI/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

ACI/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

BBDP/Wor (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

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:3457	AgrOrtholog
Ensembl Genes	ENSRNOG00000006471	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000058825	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000067635	ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7321065	IMAGE-MGC_LOAD
InterPro	EF-hand-dom_pair	UniProtKB/Swiss-Prot
	EF_Hand_1_Ca_BS	UniProtKB/Swiss-Prot
	EF_hand_dom	UniProtKB/Swiss-Prot
	Parvalbumin	UniProtKB/Swiss-Prot
KEGG Report	rno:25269	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:156648	IMAGE-MGC_LOAD
NCBI Gene	25269	ENTREZGENE
PANTHER	PTHR11653	UniProtKB/Swiss-Prot
Pfam	EF-hand_7	UniProtKB/Swiss-Prot
PhenoGen	Pvalb	PhenoGen
PROSITE	EF_HAND_1	UniProtKB/Swiss-Prot
	EF_HAND_2	UniProtKB/Swiss-Prot
SMART	EFh	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF47473	UniProtKB/Swiss-Prot
UniProt	P02625	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	A0JN21	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2004-09-10	Pvalb	parvalbumin	Pva		Symbol updated	1299863	APPROVED
2003-04-09	Pva	parvalbumin	Pvalb	Parvalbumin (calcium binding protein)	Symbol and Name updated	629477	APPROVED
2002-06-10	Pvalb	Parvalbumin (calcium binding protein)			Symbol and Name status set to approved	70586	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 - CTD

RGD Manual Annotations

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Imported Disease Annotations - CTD

RGD Manual Annotations