Ncald (neurocalcin delta) - Rat Genome Database

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

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Gene: Ncald (neurocalcin delta) Rattus norvegicus

Analyze

Symbol:

Ncald

Name:

neurocalcin delta

RGD ID:

1560287

Description:

Exhibits actin binding activity and alpha-tubulin binding activity. Predicted to be involved in calcium-mediated signaling and regulation of systemic arterial blood pressure. Localizes to cytosol. Orthologous to human NCALD (neurocalcin delta); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

neurocalcin-delta

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):	NCALD (neurocalcin delta)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB
Mus musculus (house mouse):	Ncald (neurocalcin delta)	HGNC	NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Ncald (neurocalcin delta)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	NCALD (neurocalcin delta)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NCALD (neurocalcin delta)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ncald (neurocalcin delta)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NCALD (neurocalcin delta)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	NCALD (neurocalcin delta)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ncald (neurocalcin delta)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	NCALD (neurocalcin delta)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Mus musculus (house mouse):	Ncald (neurocalcin delta)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	ncalda (neurocalcin delta a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoInspector\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	FRQ1	Alliance	DIOPT (Hieranoid\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	Nca	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	68,532,671 - 68,964,740 (-)	NCBI
Rnor_6.0 Ensembl	7	76,199,306 - 76,488,216 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	76,199,305 - 76,632,847 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	76,320,073 - 76,747,866 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	72,875,314 - 72,976,373 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	7	65,599,587 - 65,694,343 (-)	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)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

17alpha-ethynylestradiol (EXP,ISO)

17beta-estradiol (EXP)

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

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2,4-dinitrotoluene (EXP)

2-methoxyethanol (EXP)

2-methylcholine (ISO)

4-hydroxyphenyl retinamide (ISO)

7,12-dimethyltetraphene (ISO)

aflatoxin B1 (ISO)

aflatoxin B2 (ISO)

all-trans-retinoic acid (EXP,ISO)

antirheumatic drug (ISO)

asbestos (ISO)

atrazine (ISO)

belinostat (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bromobenzene (EXP)

cadmium sulfate (ISO)

carbon nanotube (ISO)

chloroprene (ISO)

cocaine (ISO)

cyclosporin A (ISO)

cytarabine (ISO)

dibutyl phthalate (ISO)

diethylstilbestrol (EXP)

diuron (EXP)

dorsomorphin (ISO)

endosulfan (EXP)

entinostat (ISO)

ethanol (EXP,ISO)

flutamide (EXP)

folic acid (ISO)

genistein (ISO)

gentamycin (EXP)

hydroquinone O-beta-D-glucopyranoside (ISO)

kojic acid (ISO)

L-ascorbic acid (ISO)

mercury dibromide (ISO)

methamphetamine (EXP)

methapyrilene (ISO)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

N-nitrosodiethylamine (EXP)

nickel atom (ISO)

p-chloromercuribenzoic acid (ISO)

panobinostat (ISO)

paracetamol (EXP,ISO)

phenobarbital (ISO)

phenylephrine (EXP)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

Soman (EXP)

sunitinib (ISO)

tetrachloromethane (EXP)

thapsigargin (ISO)

titanium dioxide (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

tunicamycin (ISO)

valdecoxib (EXP)

valproic acid (ISO)

vinclozolin (EXP)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

calcium-mediated signaling (ISO)

regulation of systemic arterial blood pressure (ISO)

Cellular Component

cytosol (IDA)

Molecular Function

actin binding (IDA,ISO)

alpha-tubulin binding (IDA)

calcium ion binding (IEA)

clathrin binding (ISO)

protein binding (IPI,ISO)

tubulin binding (ISO)

References

References - curated


1.	Duda T and Sharma RK, Biochem Biophys Res Commun. 2008 Mar 7;367(2):440-5. doi: 10.1016/j.bbrc.2007.12.153. Epub 2008 Jan 4.
2.	Ivings L, etal., Biochem J 2002 May 1;363(Pt 3):599-608.
3.	RGD automated data pipeline
4.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	RGD automated import pipeline for gene-chemical interactions
6.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:15489334	PMID:22871113	PMID:23088492	PMID:23376485

Genomics

Comparative Map Data

Ncald
(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	68,532,671 - 68,964,740 (-)	NCBI
Rnor_6.0 Ensembl	7	76,199,306 - 76,488,216 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	76,199,305 - 76,632,847 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	76,320,073 - 76,747,866 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	72,875,314 - 72,976,373 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	7	65,599,587 - 65,694,343 (-)	NCBI		Celera
Cytogenetic Map	7	q22	NCBI

NCALD
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	8	101,686,542 - 102,124,907 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	8	101,686,542 - 102,124,907 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	8	102,698,770 - 103,137,135 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	102,767,946 - 103,206,311 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	8	102,768,135 - 102,872,363	NCBI
Celera	8	98,883,681 - 99,322,037 (-)	NCBI
Cytogenetic Map	8	q22.3	NCBI
HuRef	8	97,897,521 - 98,335,560 (-)	NCBI		HuRef
CHM1_1	8	102,739,049 - 103,177,412 (-)	NCBI		CHM1_1

Ncald
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	37,366,419 - 37,792,816 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	15	37,366,419 - 37,792,814 (-)	Ensembl
GRCm38	15	37,366,175 - 37,792,519 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	37,366,175 - 37,792,570 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	37,295,930 - 37,722,183 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	15	37,310,764 - 37,736,996 (-)	NCBI			mm8
Celera	15	37,985,866 - 38,409,233 (-)	NCBI		Celera
Cytogenetic Map	15	B3.1	NCBI
cM Map	15	14.94	NCBI

Ncald
(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_004955417	26,535,859 - 26,563,301 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955417	26,535,859 - 26,885,944 (-)	NCBI	ChiLan1.0	ChiLan1.0

NCALD
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	8	100,488,400 - 100,931,079 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	100,488,400 - 100,520,842 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	8	98,324,885 - 98,767,804 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

NCALD
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	13	3,369,570 - 3,512,566 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	13	3,367,036 - 3,678,505 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Ncald
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936470	41,573,238 - 41,852,349 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NCALD
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	34,924,383 - 35,367,430 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	34,924,261 - 35,369,393 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	37,798,498 - 38,264,852 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NCALD
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	8	96,530,414 - 96,735,422 (-)	NCBI
ChlSab1.1 Ensembl	8	96,530,302 - 96,644,281 (-)	Ensembl

Ncald
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624763	18,918,781 - 19,191,221 (-)	NCBI

Position Markers

RH132339

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	7	76,199,328 - 76,199,516	NCBI	Rnor6.0
Rnor_5.0	7	76,320,096 - 76,320,284	UniSTS	Rnor5.0
RGSC_v3.4	7	72,875,337 - 72,875,525	UniSTS	RGSC3.4
Celera	7	65,599,610 - 65,599,798	UniSTS
RH 3.4 Map	7	639.8	UniSTS
Cytogenetic Map	7	q22	UniSTS

RH134791

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	12	52,307,627 - 52,307,821	NCBI	Rnor6.0
Rnor_6.0	7	76,278,848 - 76,279,042	NCBI	Rnor6.0
Rnor_5.0	12	54,042,998 - 54,043,192	UniSTS	Rnor5.0
Rnor_5.0	7	76,398,810 - 76,399,004	UniSTS	Rnor5.0
RGSC_v3.4	12	46,394,273 - 46,394,467	UniSTS	RGSC3.4
RGSC_v3.4	7	72,960,558 - 72,960,752	UniSTS	RGSC3.4
Celera	12	47,805,399 - 47,805,593	UniSTS
Celera	7	65,678,528 - 65,678,722	UniSTS
Cytogenetic Map	7	q22	UniSTS
Cytogenetic Map	12	q16	UniSTS

QTLs in Region (Rnor_6.0)

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	2920071	124838025	Rat
1643004	Pain2	Pain QTL 2	1		mechanical nociception trait (VT:0002734)	self mutilation severity score (CMO:0002145)	7	12328467	106995532	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	25365633	93155402	Rat
1641885	Alcrsp9	Alcohol response QTL 9			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	7	31381529	76381529	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	32035053	77035053	Rat
61439	Cia8	Collagen induced arthritis QTL 8	5.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	7	32572942	77572942	Rat
10402855	Bp379	Blood pressure QTL 379		0.21	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	35867729	80867729	Rat
1300127	Srn1	Serum renin concentration QTL 1	3.87		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	7	35867729	93155402	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	38547706	83547706	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	40872682	85872682	Rat
7411605	Foco14	Food consumption QTL 14	24.1	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	40872682	85872682	Rat
631513	Scl7	Serum cholesterol level QTL 7	4.1		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	45301573	90301573	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	48118835	128611831	Rat
634326	Hc3	Hypercalciuria QTL 3	2.1		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	7	50252103	95252103	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	50704769	128085642	Rat
10053722	Scort27	Serum corticosterone level QTL 27	2.41	0.0083	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	7	50793818	95793818	Rat
1358361	Sradr5	Stress Responsive Adrenal Weight QTL 5	5.55		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	7	51251919	118477612	Rat
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	51251919	145729302	Rat
1300149	Cm6	Cardiac mass QTL 6	4.09		heart mass (VT:0007028)	heart left ventricle weight to body weight ratio (CMO:0000530)	7	51252005	111589099	Rat
61428	Scl3	Serum cholesterol level QTL 3	3.2		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	53200344	98200344	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	54259512	99259512	Rat
2316947	Rf58	Renal function QTL 58	7.8		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	7	55072862	123602998	Rat
2316952	Pur22	Proteinuria QTL 22	5.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	7	55072862	123602998	Rat
2316955	Stl24	Serum triglyceride level QTL 24	7.1		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	7	55072862	123602998	Rat
2300178	Bmd54	Bone mineral density QTL 54	5.3	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	7	55495689	100495689	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	55495689	100495689	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	55495689	100495689	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	55495689	100495689	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	55495689	100495689	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	55495689	100495689	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	55495689	100495689	Rat
1300151	Bp181	Blood pressure QTL 181	3.36		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	7	61047589	113228378	Rat
2317035	Aia16	Adjuvant induced arthritis QTL 16	2.71		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	7	68518460	113518460	Rat
1576303	Ept7	Estrogen-induced pituitary tumorigenesis QTL 7	3.7		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	7	69399586	111043530	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	69399586	111043530	Rat
1298528	Bp169	Blood pressure QTL 169		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	70421228	115421228	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	71448715	145729302	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	678
Count of miRNA genes:	297
Interacting mature miRNAs:	374
Transcripts:	ENSRNOT00000064513
Prediction methods:	Microtar, Miranda, Targetscan
Result types:	miRGate_prediction

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

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

Expression

RNA-SEQ Expression

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

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	10	18	14		14			70	33	24	11
Low		33	39	27	19	27	8	11	4	2	17		8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001024371	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008765456	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017595065	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039079786	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039079787	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC087105	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212932	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214436	(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:

ENSRNOT00000064513 ⟹ ENSRNOP00000062447

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	76,199,306 - 76,294,663 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000080024 ⟹ ENSRNOP00000073597

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	76,199,311 - 76,488,216 (-)	Ensembl

RefSeq Acc Id:

NM_001024371 ⟹ NP_001019542

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	68,532,671 - 68,628,761 (-)	NCBI
Rnor_6.0	7	76,199,305 - 76,294,663 (-)	NCBI
Rnor_5.0	7	76,320,073 - 76,747,866 (-)	NCBI
RGSC_v3.4	7	72,875,314 - 72,976,373 (-)	RGD
Celera	7	65,599,587 - 65,694,343 (-)	RGD

Sequence:

show sequence

GGCTTGTGAGAATCTGGTGGATGCTGGACCTTGCTGCTGCTGCCACCGTGCCGCTGCCGCTATT
GCTGTCACTTCTGCTGTGGCTGTTGCTTCCCAGGGGCTGCAGGAGCATGGACTACTAAACCCCA
CACTTCTTCAGCTTGAGTTGAGTTCTTGCTACCAGAATGGGGAAACAGAACAGCAAGCTGCGCC
CTGAAGTCATGCAGGACTTACTGGAAAGCACAGACTTCACAGAGCATGAGATCCAGGAGTGGTA
CAAAGGCTTCTTGAGAGACTGCCCCAGCGGACATTTGTCAATGGAAGAGTTTAAGAAAATATAC
GGGAACTTTTTCCCTTATGGGGATGCTTCCAAATTCGCAGAGCACGTCTTCCGCACCTTCGATG
CAAATGGAGATGGGACGATAGACTTTAGAGAGTTCATCATAGCCCTGAGTGTGACATCAAGGGG
CAAGCTGGAGCAGAAGCTGAAGTGGGCCTTCAGCATGTATGACCTGGATGGCAACGGCTACATC
AGCAAGGCAGAAATGCTGGAGATTGTGCAGGCAATCTACAAGATGGTCTCCTCGGTCATGAAAA
TGCCTGAAGATGAATCAACCCCAGAGAAAAGGACAGAAAAGATCTTCCGCCAGATGGACACCAA
CAGAGATGGAAAACTCTCCCTGGAAGAATTCATCCGAGGGGCCAAAAGCGACCCATCCATTGTG
CGTCTCCTGCAGTGCGACCCCAGCAGTGCCGGCCAGTTCTGAGCCCTGCACCCTCAAGGACGAT
ACAGCTGCTCGTGTCTCTCCTGATTAGCTTTTAAACTTACTTCGTTTTTGTTTTTTGCTTTTTT
TTTGTTTTTGTTTTTGCCAAACAATATTGATGGTGAGACTGTCCCCTCTTCAGTCAGATGTGCC
CTCCTGTGACACTTGTGCCCCTTGCTTCTTTCATGGCGGACGTGGATGCCCAGAGCCCGTGTGC
TTGTGGAAAGCATGCACACACTTCGTTGTGTTCCCTGCTGGATGACTGTTTAATAATTTCTTTC
CTTTCATTCTAATGTCTCTACCTTAAAACCCAAGACTTGAGGGGCAAGAGAAGGGAAGTACATT
CAGCCCAGAGCTCCTTCTGCAAGCTTTGAGGGGCTTTGTGGAAATACAAAACTCCTAACCTGGG
TCTGTTGTCAAGCATGCCTTCGGAACTAGAGTGGACACCTGAGGCTAAGTTTCCTAAGAACAGG
TTACCCTCTGGGGTAAGGTTATTAAAGGGAGCAGGGACATTCCCCCCAGAGGCCCACTCCCACC
CCAGCAGGCTGTAATTTCTAAGCTGTGAACTTTTCGAGGTAAATTAACAGAGATGGGAAAGACG
CTCAGCTGTTTAGTTTTTTTTTTCTCCCAGAGGTTTACATAAGTTGAGCTAATATGTTTCTTTT
AAAAATCAAACACATATTCCATAACCAGACCCATCTTGCTGCCTACTTGTGAGACTGCTGTATA
TAAAACATTGGGTATTGCAGACCAAATTAAGTGTTTTGCCTTGTAAATGCATGTTTAGTGAGCG
CTAATACAAGCTTACTACAGAAGACTGTTCTAGTAGCTTATCGTGAAGCCAACTACGATGAATG
TCAATGTCTTGTTTTAAAGTCATAGCTGTCTTTGCACAAATGTACCAGTTAACAAGTATATTTT
ATATACTCCATAAAGTCACAAAAGAATGGTGACAAGGGCCCAGGTTTGATTTCTAATGGCTTTC
TTGTGTCAGGGTGGCTGGAGGACCGGAGGAAGCCAGCTTTCTAGGCGTCTTGTCCATCAGAGCA
GCACTGGGAGCTCCAGTGACAAGCGGCCAAGGCCCGGCAGCAGGGAGCACAGGTGCGACACTAG
TCTAAGAGACGAAGGTTCTACAGATGTAGAAAAACAGAGACTTCCTAGCAATTTAACCCACATC
CTTGGTGCAGGAGCCACGTCTAGAACGTTCATTTCTCCTGCCCTCAGGTACCCTTCAAACAGTC
AGGTGTGGGATATCCAGGGAATTCACCCAATATAAGAGCCACAAAGGGACCTGCAGTGTCCAAG
GCAGACCATGGAGATCCAACAGCTCTCTTCCTCACTGTGTTCTTCAAATGCAGCCAAGCTGAGC
TGCTGCCTGGGCTGGTTCATCTCATGCACACTACTTTGAAATGAGGGCTGGAAATAAAATCTCC
TGGCCACAGGCAAGCCAAGCCTCACACACAGCTTCCATCGGAAGGCCTAAATACTCAAGAGTGT
TGGTGGCAGACCCTGCCTAAAAGGAGGCAGGAAGGTCTCTGTCCGGCAGCAGTCAAGCCATGTC
TGTAGAACAAGACCTGCAAAATGTAAACTAGCCCCCTGCAGGTCCCTGACAGAAGTTTAAACTT
GAATGGTGGATTAAAATGAATCCCTTAGTGGGTTGAAATTTTGAGACCTAGATTTTGTAATCTT
AATTTCTCCTAGTGTCATTTCCTTACATTTTGTACTAAGGCTTGCCAACTCCTGTGGACCAAAT
GGTAAAGTCTGTTTTTGCAAAGAAGAATCAACTCAAGTGGTTGAACATAAACAGGGGAAGGGAG
CCAGCACGCTGGTGTTTGCGAGGTAGGCTCATCGACTTCGGCTCTGCCTCAGGTTGAGCCAGAC
CCTGTTTCCTAGAGCTCAGAGTTGGAGTGGGAACTAGAGGTGATCTCCAGCTATTCGGACATGA
AAGGGCCGGATGCAGAGGTTACGAACCCTGTGGTCACCAGAAAGCATGAAGAGTCCCAGAAGTG
GTTACCCACAGACCTAACAGACCTATCTGTATGTTTCCTTCCTCCTCCCCACCTTGCCCCAGGA
AGGCATTGGATGTGTGTAATTTTATGCATGTATGTTTGACCAAGGGACTTCACAGCATCAAGAG
GGCCAAGTGCCTGAAGACATCTGTCACTCCTGTGCCTAGGCATTGTTTTCCTGGTGTTCAGAGA
TCTCTGGCAGAAGTGGAGCCTGTTTTGTTCCAAGTAAAGGCAGCTTGTGCTGTCAAGGGACTGG
ACTAAATGACTAAATGGCTTATGACTTGAAGGATGTTTCAGAATGCCTGACTGTTCATACCTCG
CTTAAGATAGAGAAGGGATGCTGTGGGTACTATCCCGCCCCAGCAATACTCCCCGGGGGACTGT
CTACAGATGAATTTAATAATATAGATGTCATGCTATGTGGAGTGGCCCCGTTATCAGTTGGTTG
TGTAGCTCTTGCCTGGCATTAAAGCATGTTTATTATTTAATATTAAAAAAAAAAAAAAAAAAAA
AAAAAA

hide sequence

RefSeq Acc Id:

XM_008765456 ⟹ XP_008763678

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	68,532,671 - 68,964,740 (-)	NCBI
Rnor_6.0	7	76,199,305 - 76,632,847 (-)	NCBI

Sequence:

show sequence

AGAGTACCTGGCTGAGGCCGGCGGCTGCATCAGGGCAAGGCGGGGCAGCCGCTGCACCTGTGCA
TCCCAGCTTAGGCTGGTTCCCTCACCCCGACAGCAGCAGCTGAGACCCATCCCACGGAGAGGCC
ACGGCCACGGTGGAGTGTCCTATGAGAGCCTGAGACAGAGTGAAGCCACCTTGGATCAACGTTG
AGCCGCAGCCCACTGCTGAGAGGACCTGCCTGGGCAGAGCAGCTCCGGGGCCTGAGGTGCTGGG
ACTGCACACATTGAGTTCTTGCTACCAGAATGGGGAAACAGAACAGCAAGCTGCGCCCTGAAGT
CATGCAGGACTTACTGGAAAGCACAGACTTCACAGAGCATGAGATCCAGGAGTGGTACAAAGGC
TTCTTGAGAGACTGCCCCAGCGGACATTTGTCAATGGAAGAGTTTAAGAAAATATACGGGAACT
TTTTCCCTTATGGGGATGCTTCCAAATTCGCAGAGCACGTCTTCCGCACCTTCGATGCAAATGG
AGATGGGACGATAGACTTTAGAGAGTTCATCATAGCCCTGAGTGTGACATCAAGGGGCAAGCTG
GAGCAGAAGCTGAAGTGGGCCTTCAGCATGTATGACCTGGATGGCAACGGCTACATCAGCAAGG
CAGAAATGCTGGAGATTGTGCAGGCAATCTACAAGATGGTCTCCTCGGTCATGAAAATGCCTGA
AGATGAATCAACCCCAGAGAAAAGGACAGAAAAGATCTTCCGCCAGATGGACACCAACAGAGAT
GGAAAACTCTCCCTGGAAGAATTCATCCGAGGGGCCAAAAGCGACCCATCCATTGTGCGTCTCC
TGCAGTGCGACCCCAGCAGTGCCGGCCAGTTCTGAGCCCTGCACCCTCAAGGACGATACAGCTG
CTCGTGTCTCTCCTGATTAGCTTTTAAACTTACTTCGTTTTTGTTTTTTGCTTTTTTTTTGTTT
TTGTTTTTGCCAAACAATATTGATGGTGAGACTGTCCCCTCTTCAGTCAGATGTGCCCTCCTGT
GACACTTGTGCCCCTTGCTTCTTTCATGGCGGACGTGGATGCCCAGAGCCCGTGTGCTTGTGGA
AAGCATGCACACACTTCGTTGTGTTCCCTGCTGGATGACTGTTTAATAATTTCTTTCCTTTCAT
TCTAATGTCTCTACCTTAAAACCCAAGACTTGAGGGGCAAGAGAAGGGAAGTACATTCAGCCCA
GAGCTCCTTCTGCAAGCTTTGAGGGGCTTTGTGGAAATACAAAACTCCTAACCTGGGTCTGTTG
TCAAGCATGCCTTCGGAACTAGAGTGGACACCTGAGGCTAAGTTTCCTAAGAACAGGTTACCCT
CTGGGGTAAGGTTATTAAAGGGAGCAGGGACATTCCCCCCAGAGGCCCACTCCCACCCCAGCAG
GCTGTAATTTCTAAGCTGTGAACTTTTCGAGGTAAATTAACAGAGATGGGAAAGACGCTCAGCT
GTTTAGTTTTTTTTTTCTCCCAGAGGTTTACATAAGTTGAGCTAATATGTTTCTTTTAAAAATC
AAACACATATTCCATAACCAGACCCATCTTGCTGCCTACTTGTGAGACTGCTGTATATAAAACA
TTGGGTATTGCAGACCAAATTAAGTGTTTTGCCTTGTAAATGCATGTTTAGTGAGCGCTAATAC
AAGCTTACTACAGAAGACTGTTCTAGTAGCTTATCGTGAAGCCAACTACGATGAATGTCAATGT
CTTGTTTTAAAGTCATAGCTGTCTTTGCACAAATGTACCAGTTAACAAGTATATTTTATATACT
CCATAAAGTCACAAAAGAATGGTGACAAGGGCCCAGGTTTGATTTCGAATGGCTTTCTTGTGTC
AGGGTGGCTGGAGGACCGGAGGAAGCCAGCTTTCTAGGCGTCTTGTCCATCAGAGCAGCACTGG
GAGCTCCAGTGACAAGCGGCCAAGGCCCGGCAGCAGGGAGCACAGGTGCGACACTAGTCTAAGA
GACGAAGGTTCTACAGATGTAGAAAAACAGAGACTTCCTAGCAATTTAACCCACATCCTTGGTG
CAGGAGCCACGTCTAGAACGTTCATTTCTCCTGCCCTCAGGTACCCTTCAAACAGTCAGGTGTG
GGATATCCAGGGAATTCACCCAATATAAGAGCCACAAAGGGACCTGCAGTGTCCAAGGCAGACC
ATGGAGATCCAACAGCTCTCTTCCTCACTGTGTTCTTCAAATGCAGCCAAGCTGAGCTGCTGCC
TGGGCTGGTTCATCTCATGCACACTACTTTGAAATGAGGGCTGGAAATAAAATCTCCTGGCCAC
AGGCAAGCCAAGCCTCACACACAGCTTCCATCGGAAGGCCTAAATACTCAAGAGTGTTGGTGGC
AGACCCTGCCTAAAAGGAGGCAGGAAGGTCTCTGTCCGGCAGCAGTCAAGCCATGTCTGTAGAA
CAAGACCTGCAAAATGTAAACTAGCCCCCTGCAGGTCCCTGACAGAAGTTTAAACTTGAATGGT
GGATTAAAATGAATCCCTTAGTGGGTTGAAATTTTGAGACCTAGATTTTGTAATCTTAATTTCT
CCTAGTGTCATTTCCTTACATTTTGTACTAAGGCTTGCCAACTCCTGTGGACCAAATGGTAAAG
TCTGTTTTTGCAAAGAAGAATCAACTCAAGTGGTTGAACATAAACAGGGGAAGGGAGCCAGCAC
GCTGGTGTTTGCGAGGTAGGCTCATCGACTTCGGCTCTGCCTCAGGTTGAGCCAGACCCTGTTT
CCTAGAGCTCAGAGTTGGAGTGGGAACTAGAGGTGATCTCCAGCTATTCGGACATGAAAGGGCC
GGATGCAGAGGTTACGAACCCTGTGGTCACCAGAAAGCATGAAGAGTCCCAGAAGTGGTTACCC
ACAGACCTAACAGACCTATCTGTATGTTTCCTTCCTCCTCCCCACCTTGCCCCAGGAAGGCATT
GGATGTGTGTAATTTTATGCATGTATGTTTGACCAAGGGACTTCACAGCATCAAGAGGGCCAAG
TGCCTGAAGACATCTGTCACTCCTGTGCCTAGGCATTGTTTTCCTGGTGTTCAGAGATCTCTGG
CAGAAGTGGAGCCTGTTTTGTTCCAAGTAAAGGCAGCTTGTGCTGTCAAGGGACTGGACTAAAT
GACTAAATGGCTTATGACTTGAAGGATGTTTCAGAATGCCTGACTGTTCATACCTCGCTTAAGA
TAGAGAAGGGATGCTGTGGGTACTATCCCGCCCCAGCAATACTCCCCGGGGGACTGTCTACAGA
TGAATTTAATAATATAGATGTCATGCTATGTGGAGTGGCCCCGTTATCAGTTGGTTGTGTAGCT
CTTGCCTGGCATTAAAGCATGTTTATTATTTAATATTA

hide sequence

RefSeq Acc Id:

XM_017595065 ⟹ XP_017450554

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	68,532,671 - 68,964,496 (-)	NCBI
Rnor_6.0	7	76,199,305 - 76,632,600 (-)	NCBI

Sequence:

show sequence

CGCTGGGAGCGGCCGTGGCGGTGAGTCGCAGCGCCTTCCCTCCTCTGGCGGGAACGGGAGCCGC
AGCTGGGCGGGCGAGCAGGGGGACCTGAGCCGGGAGCGGTGGCCAGGGGAAAGGCGCACTCGGT
GGAGTGTCCTATGAGAGCCTGAGACAGAGTGAAGCCACCTTGGATCAACGTTGAGCCGCAGCCC
ACTGCTGAGAGGACCTGCCTGGGCAGAGCAGCTCCGGGGCCTGAGGTGCTGGGACTGCACACAT
TGAGTTCTTGCTACCAGAATGGGGAAACAGAACAGCAAGCTGCGCCCTGAAGTCATGCAGGACT
TACTGGAAAGCACAGACTTCACAGAGCATGAGATCCAGGAGTGGTACAAAGGCTTCTTGAGAGA
CTGCCCCAGCGGACATTTGTCAATGGAAGAGTTTAAGAAAATATACGGGAACTTTTTCCCTTAT
GGGGATGCTTCCAAATTCGCAGAGCACGTCTTCCGCACCTTCGATGCAAATGGAGATGGGACGA
TAGACTTTAGAGAGTTCATCATAGCCCTGAGTGTGACATCAAGGGGCAAGCTGGAGCAGAAGCT
GAAGTGGGCCTTCAGCATGTATGACCTGGATGGCAACGGCTACATCAGCAAGGCAGAAATGCTG
GAGATTGTGCAGGCAATCTACAAGATGGTCTCCTCGGTCATGAAAATGCCTGAAGATGAATCAA
CCCCAGAGAAAAGGACAGAAAAGATCTTCCGCCAGATGGACACCAACAGAGATGGAAAACTCTC
CCTGGAAGAATTCATCCGAGGGGCCAAAAGCGACCCATCCATTGTGCGTCTCCTGCAGTGCGAC
CCCAGCAGTGCCGGCCAGTTCTGAGCCCTGCACCCTCAAGGACGATACAGCTGCTCGTGTCTCT
CCTGATTAGCTTTTAAACTTACTTCGTTTTTGTTTTTTGCTTTTTTTTTGTTTTTGTTTTTGCC
AAACAATATTGATGGTGAGACTGTCCCCTCTTCAGTCAGATGTGCCCTCCTGTGACACTTGTGC
CCCTTGCTTCTTTCATGGCGGACGTGGATGCCCAGAGCCCGTGTGCTTGTGGAAAGCATGCACA
CACTTCGTTGTGTTCCCTGCTGGATGACTGTTTAATAATTTCTTTCCTTTCATTCTAATGTCTC
TACCTTAAAACCCAAGACTTGAGGGGCAAGAGAAGGGAAGTACATTCAGCCCAGAGCTCCTTCT
GCAAGCTTTGAGGGGCTTTGTGGAAATACAAAACTCCTAACCTGGGTCTGTTGTCAAGCATGCC
TTCGGAACTAGAGTGGACACCTGAGGCTAAGTTTCCTAAGAACAGGTTACCCTCTGGGGTAAGG
TTATTAAAGGGAGCAGGGACATTCCCCCCAGAGGCCCACTCCCACCCCAGCAGGCTGTAATTTC
TAAGCTGTGAACTTTTCGAGGTAAATTAACAGAGATGGGAAAGACGCTCAGCTGTTTAGTTTTT
TTTTTCTCCCAGAGGTTTACATAAGTTGAGCTAATATGTTTCTTTTAAAAATCAAACACATATT
CCATAACCAGACCCATCTTGCTGCCTACTTGTGAGACTGCTGTATATAAAACATTGGGTATTGC
AGACCAAATTAAGTGTTTTGCCTTGTAAATGCATGTTTAGTGAGCGCTAATACAAGCTTACTAC
AGAAGACTGTTCTAGTAGCTTATCGTGAAGCCAACTACGATGAATGTCAATGTCTTGTTTTAAA
GTCATAGCTGTCTTTGCACAAATGTACCAGTTAACAAGTATATTTTATATACTCCATAAAGTCA
CAAAAGAATGGTGACAAGGGCCCAGGTTTGATTTCGAATGGCTTTCTTGTGTCAGGGTGGCTGG
AGGACCGGAGGAAGCCAGCTTTCTAGGCGTCTTGTCCATCAGAGCAGCACTGGGAGCTCCAGTG
ACAAGCGGCCAAGGCCCGGCAGCAGGGAGCACAGGTGCGACACTAGTCTAAGAGACGAAGGTTC
TACAGATGTAGAAAAACAGAGACTTCCTAGCAATTTAACCCACATCCTTGGTGCAGGAGCCACG
TCTAGAACGTTCATTTCTCCTGCCCTCAGGTACCCTTCAAACAGTCAGGTGTGGGATATCCAGG
GAATTCACCCAATATAAGAGCCACAAAGGGACCTGCAGTGTCCAAGGCAGACCATGGAGATCCA
ACAGCTCTCTTCCTCACTGTGTTCTTCAAATGCAGCCAAGCTGAGCTGCTGCCTGGGCTGGTTC
ATCTCATGCACACTACTTTGAAATGAGGGCTGGAAATAAAATCTCCTGGCCACAGGCAAGCCAA
GCCTCACACACAGCTTCCATCGGAAGGCCTAAATACTCAAGAGTGTTGGTGGCAGACCCTGCCT
AAAAGGAGGCAGGAAGGTCTCTGTCCGGCAGCAGTCAAGCCATGTCTGTAGAACAAGACCTGCA
AAATGTAAACTAGCCCCCTGCAGGTCCCTGACAGAAGTTTAAACTTGAATGGTGGATTAAAATG
AATCCCTTAGTGGGTTGAAATTTTGAGACCTAGATTTTGTAATCTTAATTTCTCCTAGTGTCAT
TTCCTTACATTTTGTACTAAGGCTTGCCAACTCCTGTGGACCAAATGGTAAAGTCTGTTTTTGC
AAAGAAGAATCAACTCAAGTGGTTGAACATAAACAGGGGAAGGGAGCCAGCACGCTGGTGTTTG
CGAGGTAGGCTCATCGACTTCGGCTCTGCCTCAGGTTGAGCCAGACCCTGTTTCCTAGAGCTCA
GAGTTGGAGTGGGAACTAGAGGTGATCTCCAGCTATTCGGACATGAAAGGGCCGGATGCAGAGG
TTACGAACCCTGTGGTCACCAGAAAGCATGAAGAGTCCCAGAAGTGGTTACCCACAGACCTAAC
AGACCTATCTGTATGTTTCCTTCCTCCTCCCCACCTTGCCCCAGGAAGGCATTGGATGTGTGTA
ATTTTATGCATGTATGTTTGACCAAGGGACTTCACAGCATCAAGAGGGCCAAGTGCCTGAAGAC
ATCTGTCACTCCTGTGCCTAGGCATTGTTTTCCTGGTGTTCAGAGATCTCTGGCAGAAGTGGAG
CCTGTTTTGTTCCAAGTAAAGGCAGCTTGTGCTGTCAAGGGACTGGACTAAATGACTAAATGGC
TTATGACTTGAAGGATGTTTCAGAATGCCTGACTGTTCATACCTCGCTTAAGATAGAGAAGGGA
TGCTGTGGGTACTATCCCGCCCCAGCAATACTCCCCGGGGGACTGTCTACAGATGAATTTAATA
ATATAGATGTCATGCTATGTGGAGTGGCCCCGTTATCAGTTGGTTGTGTAGCTCTTGCCTGGCA
TTAAAGCATGTTTATTATTTAATATTA

hide sequence

RefSeq Acc Id:

XM_017595066 ⟹ XP_017450555

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	7	76,199,305 - 76,632,823 (-)	NCBI

Sequence:

show sequence

CTGCATCAGGGCAAGGCGGGGCAGCCGCTGCACCTGTGCATCCCAGCTTAGGCTGGTTCCCTCA
CCCCGACAGCAGCAGCTGAGACCCATCCCACGGAGAGGCCACGGCCACGGTGGAGTGTCCTATG
AGAGCCTGAGACAGAGTGAAGCCACCTTGGATCAACGTTGTTGAGTTCTTGCTACCAGAATGGG
GAAACAGAACAGCAAGCTGCGCCCTGAAGTCATGCAGGACTTACTGGAAAGCACAGACTTCACA
GAGCATGAGATCCAGGAGTGGTACAAAGGCTTCTTGAGAGACTGCCCCAGCGGACATTTGTCAA
TGGAAGAGTTTAAGAAAATATACGGGAACTTTTTCCCTTATGGGGATGCTTCCAAATTCGCAGA
GCACGTCTTCCGCACCTTCGATGCAAATGGAGATGGGACGATAGACTTTAGAGAGTTCATCATA
GCCCTGAGTGTGACATCAAGGGGCAAGCTGGAGCAGAAGCTGAAGTGGGCCTTCAGCATGTATG
ACCTGGATGGCAACGGCTACATCAGCAAGGCAGAAATGCTGGAGATTGTGCAGGCAATCTACAA
GATGGTCTCCTCGGTCATGAAAATGCCTGAAGATGAATCAACCCCAGAGAAAAGGACAGAAAAG
ATCTTCCGCCAGATGGACACCAACAGAGATGGAAAACTCTCCCTGGAAGAATTCATCCGAGGGG
CCAAAAGCGACCCATCCATTGTGCGTCTCCTGCAGTGCGACCCCAGCAGTGCCGGCCAGTTCTG
AGCCCTGCACCCTCAAGGACGATACAGCTGCTCGTGTCTCTCCTGATTAGCTTTTAAACTTACT
TCGTTTTTGTTTTTTGCTTTTTTTTTGTTTTTGTTTTTGCCAAACAATATTGATGGTGAGACTG
TCCCCTCTTCAGTCAGATGTGCCCTCCTGTGACACTTGTGCCCCTTGCTTCTTTCATGGCGGAC
GTGGATGCCCAGAGCCCGTGTGCTTGTGGAAAGCATGCACACACTTCGTTGTGTTCCCTGCTGG
ATGACTGTTTAATAATTTCTTTCCTTTCATTCTAATGTCTCTACCTTAAAACCCAAGACTTGAG
GGGCAAGAGAAGGGAAGTACATTCAGCCCAGAGCTCCTTCTGCAAGCTTTGAGGGGCTTTGTGG
AAATACAAAACTCCTAACCTGGGTCTGTTGTCAAGCATGCCTTCGGAACTAGAGTGGACACCTG
AGGCTAAGTTTCCTAAGAACAGGTTACCCTCTGGGGTAAGGTTATTAAAGGGAGCAGGGACATT
CCCCCCAGAGGCCCACTCCCACCCCAGCAGGCTGTAATTTCTAAGCTGTGAACTTTTCGAGGTA
AATTAACAGAGATGGGAAAGACGCTCAGCTGTTTAGTTTTTTTTTTCTCCCAGAGGTTTACATA
AGTTGAGCTAATATGTTTCTTTTAAAAATCAAACACATATTCCATAACCAGACCCATCTTGCTG
CCTACTTGTGAGACTGCTGTATATAAAACATTGGGTATTGCAGACCAAATTAAGTGTTTTGCCT
TGTAAATGCATGTTTAGTGAGCGCTAATACAAGCTTACTACAGAAGACTGTTCTAGTAGCTTAT
CGTGAAGCCAACTACGATGAATGTCAATGTCTTGTTTTAAAGTCATAGCTGTCTTTGCACAAAT
GTACCAGTTAACAAGTATATTTTATATACTCCATAAAGTCACAAAAGAATGGTGACAAGGGCCC
AGGTTTGATTTCGAATGGCTTTCTTGTGTCAGGGTGGCTGGAGGACCGGAGGAAGCCAGCTTTC
TAGGCGTCTTGTCCATCAGAGCAGCACTGGGAGCTCCAGTGACAAGCGGCCAAGGCCCGGCAGC
AGGGAGCACAGGTGCGACACTAGTCTAAGAGACGAAGGTTCTACAGATGTAGAAAAACAGAGAC
TTCCTAGCAATTTAACCCACATCCTTGGTGCAGGAGCCACGTCTAGAACGTTCATTTCTCCTGC
CCTCAGGTACCCTTCAAACAGTCAGGTGTGGGATATCCAGGGAATTCACCCAATATAAGAGCCA
CAAAGGGACCTGCAGTGTCCAAGGCAGACCATGGAGATCCAACAGCTCTCTTCCTCACTGTGTT
CTTCAAATGCAGCCAAGCTGAGCTGCTGCCTGGGCTGGTTCATCTCATGCACACTACTTTGAAA
TGAGGGCTGGAAATAAAATCTCCTGGCCACAGGCAAGCCAAGCCTCACACACAGCTTCCATCGG
AAGGCCTAAATACTCAAGAGTGTTGGTGGCAGACCCTGCCTAAAAGGAGGCAGGAAGGTCTCTG
TCCGGCAGCAGTCAAGCCATGTCTGTAGAACAAGACCTGCAAAATGTAAACTAGCCCCCTGCAG
GTCCCTGACAGAAGTTTAAACTTGAATGGTGGATTAAAATGAATCCCTTAGTGGGTTGAAATTT
TGAGACCTAGATTTTGTAATCTTAATTTCTCCTAGTGTCATTTCCTTACATTTTGTACTAAGGC
TTGCCAACTCCTGTGGACCAAATGGTAAAGTCTGTTTTTGCAAAGAAGAATCAACTCAAGTGGT
TGAACATAAACAGGGGAAGGGAGCCAGCACGCTGGTGTTTGCGAGGTAGGCTCATCGACTTCGG
CTCTGCCTCAGGTTGAGCCAGACCCTGTTTCCTAGAGCTCAGAGTTGGAGTGGGAACTAGAGGT
GATCTCCAGCTATTCGGACATGAAAGGGCCGGATGCAGAGGTTACGAACCCTGTGGTCACCAGA
AAGCATGAAGAGTCCCAGAAGTGGTTACCCACAGACCTAACAGACCTATCTGTATGTTTCCTTC
CTCCTCCCCACCTTGCCCCAGGAAGGCATTGGATGTGTGTAATTTTATGCATGTATGTTTGACC
AAGGGACTTCACAGCATCAAGAGGGCCAAGTGCCTGAAGACATCTGTCACTCCTGTGCCTAGGC
ATTGTTTTCCTGGTGTTCAGAGATCTCTGGCAGAAGTGGAGCCTGTTTTGTTCCAAGTAAAGGC
AGCTTGTGCTGTCAAGGGACTGGACTAAATGACTAAATGGCTTATGACTTGAAGGATGTTTCAG
AATGCCTGACTGTTCATACCTCGCTTAAGATAGAGAAGGGATGCTGTGGGTACTATCCCGCCCC
AGCAATACTCCCCGGGGGACTGTCTACAGATGAATTTAATAATATAGATGTCATGCTATGTGGA
GTGGCCCCGTTATCAGTTGGTTGTGTAGCTCTTGCCTGGCATTAAAGCATGTTTATTATTTAAT
ATTA

hide sequence

RefSeq Acc Id:

XM_039079786 ⟹ XP_038935714

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	68,532,671 - 68,938,680 (-)	NCBI

RefSeq Acc Id:

XM_039079787 ⟹ XP_038935715

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	68,532,671 - 68,938,681 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001019542	(Get FASTA)	NCBI Sequence Viewer
	XP_008763678	(Get FASTA)	NCBI Sequence Viewer
	XP_017450554	(Get FASTA)	NCBI Sequence Viewer
	XP_038935714	(Get FASTA)	NCBI Sequence Viewer
	XP_038935715	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH87105	(Get FASTA)	NCBI Sequence Viewer
	EDM16373	(Get FASTA)	NCBI Sequence Viewer
	EDM16374	(Get FASTA)	NCBI Sequence Viewer
	EDM16375	(Get FASTA)	NCBI Sequence Viewer
	EDM16376	(Get FASTA)	NCBI Sequence Viewer
	EDM16377	(Get FASTA)	NCBI Sequence Viewer
	Q5PQN0	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_001019542 ⟸ NM_001024371
- UniProtKB:	Q5PQN0 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MGKQNSKLRPEVMQDLLESTDFTEHEIQEWYKGFLRDCPSGHLSMEEFKKIYGNFFPYGDASKF AEHVFRTFDANGDGTIDFREFIIALSVTSRGKLEQKLKWAFSMYDLDGNGYISKAEMLEIVQAI YKMVSSVMKMPEDESTPEKRTEKIFRQMDTNRDGKLSLEEFIRGAKSDPSIVRLLQCDPSSAGQ F hide sequence

RefSeq Acc Id:	XP_008763678 ⟸ XM_008765456
- Peptide Label:	isoform X1
- UniProtKB:	Q5PQN0 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MGKQNSKLRPEVMQDLLESTDFTEHEIQEWYKGFLRDCPSGHLSMEEFKKIYGNFFPYGDASKF AEHVFRTFDANGDGTIDFREFIIALSVTSRGKLEQKLKWAFSMYDLDGNGYISKAEMLEIVQAI YKMVSSVMKMPEDESTPEKRTEKIFRQMDTNRDGKLSLEEFIRGAKSDPSIVRLLQCDPSSAGQ F hide sequence

RefSeq Acc Id:	XP_017450555 ⟸ XM_017595066
- Peptide Label:	isoform X1
- Sequence:	show sequence MGKQNSKLRPEVMQDLLESTDFTEHEIQEWYKGFLRDCPSGHLSMEEFKKIYGNFFPYGDASKF AEHVFRTFDANGDGTIDFREFIIALSVTSRGKLEQKLKWAFSMYDLDGNGYISKAEMLEIVQAI YKMVSSVMKMPEDESTPEKRTEKIFRQMDTNRDGKLSLEEFIRGAKSDPSIVRLLQCDPSSAGQ F hide sequence

RefSeq Acc Id:	XP_017450554 ⟸ XM_017595065
- Peptide Label:	isoform X1
- UniProtKB:	Q5PQN0 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MGKQNSKLRPEVMQDLLESTDFTEHEIQEWYKGFLRDCPSGHLSMEEFKKIYGNFFPYGDASKF AEHVFRTFDANGDGTIDFREFIIALSVTSRGKLEQKLKWAFSMYDLDGNGYISKAEMLEIVQAI YKMVSSVMKMPEDESTPEKRTEKIFRQMDTNRDGKLSLEEFIRGAKSDPSIVRLLQCDPSSAGQ F hide sequence

RefSeq Acc Id:

ENSRNOP00000073597 ⟸ ENSRNOT00000080024

RefSeq Acc Id:

ENSRNOP00000062447 ⟸ ENSRNOT00000064513

RefSeq Acc Id:	XP_038935715 ⟸ XM_039079787
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038935714 ⟸ XM_039079786
- 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:

13695297

Promoter ID:

EPDNEW_R5822

Type:

multiple initiation site

Name:

Ncald_1

Description:

neurocalcin delta

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	76,294,666 - 76,294,726	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

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 (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/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 (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)

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

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

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/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

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 (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

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

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

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

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

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 (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

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

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 (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 (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

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 (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 (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 (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:1560287	AgrOrtholog
Ensembl Genes	ENSRNOG00000042978	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000062447	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000073597	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000064513	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000080024	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7193019	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
	Recoverin	UniProtKB/Swiss-Prot
KEGG Report	rno:553106	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:94703	IMAGE-MGC_LOAD
NCBI Gene	553106	ENTREZGENE
PANTHER	PTHR23055	UniProtKB/Swiss-Prot
Pfam	EF-hand_7	UniProtKB/Swiss-Prot
	EF-hand_8	UniProtKB/Swiss-Prot
PhenoGen	Ncald	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	NCALD_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2006-02-09	Ncald	neurocalcin delta			Symbol and Name status set to provisional	70820	PROVISIONAL

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)