Clstn2 (calsyntenin 2) - Rat Genome Database

Name: Clstn2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Clstn2 (calsyntenin 2) Rattus norvegicus

Analyze

Symbol:

Clstn2

Name:

calsyntenin 2

RGD ID:

621151

Description:

Predicted to have calcium ion binding activity. Predicted to be involved in positive regulation of synapse assembly and positive regulation of synaptic transmission. Localizes to postsynaptic membrane. Orthologous to human CLSTN2 (calsyntenin 2); INTERACTS WITH 17beta-estradiol; 6-propyl-2-thiouracil; benzo[a]pyrene.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

alc-gamma; alcadein-gamma; calsyntenin-2; Cs2; Cstn2; LOC100359585

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):	CLSTN2 (calsyntenin 2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, Treefam
Mus musculus (house mouse):	Clstn2 (calsyntenin 2)	HGNC	Treefam, EggNOG, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Clstn2 (calsyntenin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CLSTN2 (calsyntenin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CLSTN2 (calsyntenin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Clstn2 (calsyntenin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CLSTN2 (calsyntenin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CLSTN2 (calsyntenin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Clstn2 (calsyntenin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	CLSTN1 (calsyntenin 1)	HGNC	OrthoDB
Alliance orthologs ³
Mus musculus (house mouse):	Clstn2 (calsyntenin 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Homo sapiens (human):	CLSTN2 (calsyntenin 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	si:ch211-276c2.2	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	clstn2 (calsyntenin 2)	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	Cals	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	casy-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|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	8	98,020,406 - 98,637,232 (-)	NCBI
Rnor_6.0 Ensembl	8	105,323,837 - 105,462,168 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	105,322,577 - 106,036,821 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	104,768,386 - 104,906,597 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	102,614,117 - 103,214,037 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	8	102,633,571 - 103,233,492 (-)	NCBI
Celera	8	97,454,425 - 98,063,036 (-)	NCBI		Celera
Cytogenetic Map	8	q31	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Liver Neoplasms (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (EXP)

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

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

4,4'-diaminodiphenylmethane (ISO)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

aristolochic acid (ISO)

benzo[a]pyrene (EXP,ISO)

benzo[b]fluoranthene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

cefaloridine (EXP)

chrysene (ISO)

crocidolite asbestos (ISO)

DDT (EXP)

dexamethasone (ISO)

diethylstilbestrol (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

endosulfan (EXP)

ethanol (ISO)

fonofos (ISO)

formaldehyde (ISO)

GW 4064 (ISO)

indometacin (ISO)

lead(0) (ISO)

lead(2+) (ISO)

lipopolysaccharide (ISO)

methapyrilene (ISO)

methylmercury chloride (ISO)

N-methyl-4-phenylpyridinium (ISO)

N-methylformamide (ISO)

nickel atom (ISO)

panobinostat (ISO)

parathion (ISO)

phenobarbital (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

progesterone (EXP,ISO)

SB 431542 (ISO)

sodium arsenite (ISO)

sulforaphane (ISO)

terbufos (ISO)

Tesaglitazar (EXP)

tetraphene (ISO)

titanium dioxide (ISO)

tremolite asbestos (ISO)

trichostatin A (ISO)

triclosan (ISO)

troglitazone (EXP)

valproic acid (EXP,ISO)

venlafaxine hydrochloride (EXP)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chemical synaptic transmission (NAS)

homophilic cell adhesion via plasma membrane adhesion molecules (IEA)

positive regulation of synapse assembly (IBA,IEA,ISO)

positive regulation of synaptic transmission (IBA,IEA,ISO)

Cellular Component

cell projection (IEA)

cell surface (IBA,IEA,ISO)

dendrite (IEA)

endoplasmic reticulum membrane (IEA)

glutamatergic synapse (IEA,ISO)

Golgi membrane (IEA)

integral component of membrane (IEA)

integral component of postsynaptic density membrane (IEA,ISO)

postsynaptic density (ISO)

postsynaptic membrane (IBA,IDA,ISO)

Molecular Function

calcium ion binding (IEA)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Hintsch G, etal., Mol Cell Neurosci 2002 Nov;21(3):393-409.
3.	MGD data from the GO Consortium
4.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
5.	RGD automated data pipeline
6.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:24613359

Genomics

Comparative Map Data

Clstn2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	8	98,020,406 - 98,637,232 (-)	NCBI
Rnor_6.0 Ensembl	8	105,323,837 - 105,462,168 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	105,322,577 - 106,036,821 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	104,768,386 - 104,906,597 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	102,614,117 - 103,214,037 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	8	102,633,571 - 103,233,492 (-)	NCBI
Celera	8	97,454,425 - 98,063,036 (-)	NCBI		Celera
Cytogenetic Map	8	q31	NCBI

CLSTN2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	3	139,935,185 - 140,577,397 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	3	139,935,185 - 140,577,397 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	3	139,654,027 - 140,296,239 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	141,136,897 - 141,769,328 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	3	141,136,904 - 141,769,328	NCBI
Celera	3	138,076,932 - 138,710,571 (+)	NCBI
Cytogenetic Map	3	q23	NCBI
HuRef	3	137,029,438 - 137,660,865 (+)	NCBI		HuRef
CHM1_1	3	139,617,396 - 140,250,542 (+)	NCBI		CHM1_1

Clstn2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	97,326,448 - 97,915,649 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	9	97,326,448 - 97,915,234 (-)	Ensembl
GRCm38	9	97,444,395 - 98,033,373 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	97,444,395 - 98,033,181 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	97,344,814 - 97,933,586 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	9	97,253,747 - 97,842,519 (-)	NCBI			mm8
Celera	9	96,998,129 - 97,587,251 (-)	NCBI		Celera
Cytogenetic Map	9	E3.3	NCBI

Clstn2
(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_004955508	5,074,466 - 5,655,884 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955508	5,069,872 - 5,656,621 (-)	NCBI	ChiLan1.0	ChiLan1.0

CLSTN2
(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	3	144,571,574 - 145,201,588 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	144,571,706 - 145,199,768 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	136,971,615 - 137,612,365 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

CLSTN2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	23	36,029,356 - 36,645,614 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	23	36,029,371 - 36,635,571 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	23	36,142,872 - 36,639,373 (+)	NCBI
ROS_Cfam_1.0	23	36,693,005 - 37,166,674 (+)	NCBI
UMICH_Zoey_3.1	23	36,374,497 - 36,857,999 (+)	NCBI
UNSW_CanFamBas_1.0	23	36,448,350 - 36,932,034 (+)	NCBI
UU_Cfam_GSD_1.0	23	36,690,788 - 37,174,298 (+)	NCBI

Clstn2
(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_024405602	75,254,295 - 75,835,456 (+)	NCBI
SpeTri2.0	NW_004936540	1,994,078 - 2,569,224 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CLSTN2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	80,789,394 - 81,450,676 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	80,789,239 - 81,461,348 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	89,148,892 - 89,296,794 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CLSTN2
(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	15	49,996,144 - 50,622,454 (-)	NCBI
ChlSab1.1 Ensembl	15	49,999,908 - 50,151,120 (-)	Ensembl
Vero_WHO_p1.0	NW_023666041	22,955,556 - 23,588,228 (-)	NCBI

Clstn2
(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_004624730	16,568,556 - 17,187,365 (+)	NCBI

Position Markers

D8Rat128

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	98,316,156 - 98,316,316 (+)	MAPPER
Rnor_6.0	8	105,697,532 - 105,697,691	NCBI	Rnor6.0
Rnor_5.0	8	105,141,903 - 105,142,062	UniSTS	Rnor5.0
RGSC_v3.4	8	102,883,462 - 102,883,622	RGD	RGSC3.4
RGSC_v3.4	8	102,883,463 - 102,883,622	UniSTS	RGSC3.4
RGSC_v3.1	8	102,902,666 - 102,903,146	RGD
Celera	8	97,741,865 - 97,742,024	UniSTS
SHRSP x BN Map	8	60.6299	UniSTS
SHRSP x BN Map	8	60.6299	RGD
Cytogenetic Map	8	q31	UniSTS

D8Rat127

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	98,275,437 - 98,275,613 (+)	MAPPER
Rnor_6.0	8	105,577,600 - 105,577,773	NCBI	Rnor6.0
Rnor_5.0	8	105,021,971 - 105,022,144	UniSTS	Rnor5.0
RGSC_v3.4	8	102,844,444 - 102,844,618	RGD	RGSC3.4
RGSC_v3.4	8	102,844,445 - 102,844,618	UniSTS	RGSC3.4
RGSC_v3.1	8	102,863,887 - 102,864,215	RGD
Celera	8	97,708,158 - 97,708,331	UniSTS
SHRSP x BN Map	8	60.6299	UniSTS
SHRSP x BN Map	8	60.6299	RGD
Cytogenetic Map	8	q31	UniSTS

D8Got157

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	98,029,909 - 98,030,129 (+)	MAPPER
Rnor_6.0	8	105,332,083 - 105,332,302	NCBI	Rnor6.0
Rnor_5.0	8	104,776,632 - 104,776,851	UniSTS	Rnor5.0
RGSC_v3.4	8	102,338,935 - 102,339,155	RGD	RGSC3.4
RGSC_v3.4	8	102,338,936 - 102,339,155	UniSTS	RGSC3.4
RGSC_v3.1	8	102,358,391 - 102,358,610	RGD
Celera	8	97,462,669 - 97,462,888	UniSTS
RH 3.4 Map	8	1077.59	UniSTS
RH 3.4 Map	8	1077.59	RGD
RH 2.0 Map	8	859.9	RGD
Cytogenetic Map	8	q31	UniSTS

BI301360

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	98,453,829 - 98,453,982 (+)	MAPPER
Rnor_6.0	8	105,834,795 - 105,834,947	NCBI	Rnor6.0
Rnor_5.0	8	105,278,991 - 105,279,143	UniSTS	Rnor5.0
RGSC_v3.4	8	103,020,934 - 103,021,086	UniSTS	RGSC3.4
Celera	8	97,879,580 - 97,879,732	UniSTS
RH 3.4 Map	8	1051.29	UniSTS
Cytogenetic Map	8	q31	UniSTS

BE097605

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	98,024,570 - 98,024,726 (+)	MAPPER
Rnor_6.0	8	105,326,742 - 105,326,897	NCBI	Rnor6.0
Rnor_5.0	8	104,771,291 - 104,771,446	UniSTS	Rnor5.0
RGSC_v3.4	8	102,344,344 - 102,344,499	UniSTS	RGSC3.4
Celera	8	97,457,330 - 97,457,485	UniSTS
RH 3.4 Map	8	1080.3	UniSTS
Cytogenetic Map	8	q31	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
1581557	Eae16	Experimental allergic encephalomyelitis QTL 16	3.8		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	8	9531047	119211942	Rat
631650	Stl6	Serum triglyceride level QTL 6	4	0.0019	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	8	10938911	120496129	Rat
1358892	Kidm26	Kidney mass QTL 26	3.69		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	29867983	106526740	Rat
1358896	Bp262	Blood pressure QTL 262	2.89		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	29867983	106526740	Rat
1358907	Cm40	Cardiac mass QTL 40	1.89		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	29867983	106526740	Rat
8662823	Vetf5	Vascular elastic tissue fragility QTL 5	1.9		artery integrity trait (VT:0010639)	patent ductus arteriosus score (CMO:0002566)	8	30918112	107206309	Rat
1578765	Klgr1	Kidney lesion grade QTL 1	3.3	0.0001	kidney morphology trait (VT:0002135)	organ lesion measurement (CMO:0000677)	8	33558660	109028082	Rat
1578769	Uae31	Urinary albumin excretion QTL 31	3.3	0.001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	8	33558660	109028082	Rat
1578755	Pur5	Proteinuria QTL 5	3.3	0.0001	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	8	33558660	109028082	Rat
2316950	Scl66	Serum cholesterol level QTL 66	4.1		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	8	33558764	113580387	Rat
1331838	Niddm61	Non-insulin dependent diabetes mellitus QTL 61	3.53	0.0004	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	8	39230130	106506973	Rat
1554321	Bmd3	Bone mineral density QTL 3	7.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	44458129	118087517	Rat
12879882	Am8	Aortic mass QTL 8		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	8	47200750	106394378	Rat
12879878	Bw183	Body weight QTL 183		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	8	47200750	106394378	Rat
12879879	Cm99	Cardiac mass QTL 99		0.001	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	47200750	106394378	Rat
12879880	Cm100	Cardiac mass QTL 100		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	8	47200750	106394378	Rat
12879881	Cm101	Cardiac mass QTL 101		0.001	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	8	47200750	106394378	Rat
12879883	Kidm65	Kidney mass QTL 65		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	47200750	106394378	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	50529480	128036471	Rat
1331837	Bw23	Body weight QTL 23	4.19	0.00007	body mass (VT:0001259)	body weight (CMO:0000012)	8	50529563	106506973	Rat
1358912	Bw51	Body weight QTL 51	2.95		body mass (VT:0001259)	body weight (CMO:0000012)	8	55435004	115812386	Rat
2293697	Bmd39	Bone mineral density QTL 39			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	8	58230766	106394378	Rat
631664	Hcar3	Hepatocarcinoma resistance QTL 3	2.9	0.0005	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	8	58425510	106526740	Rat
1300177	Cm2	Cardiac mass QTL 2	3.65		heart mass (VT:0007028)	heart weight (CMO:0000017)	8	59234112	108068306	Rat
2301402	Bp316	Blood pressure QTL 316		0.005	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	61394378	106394378	Rat
10402857	Bp380	Blood pressure QTL 380		0.95	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	61394378	106394378	Rat
2303171	Bp331	Blood pressure QTL 331	5.57	0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	65717449	128033050	Rat
631653	Bp125	Blood pressure QTL 125	3.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	72849686	117849686	Rat
631210	Bw3	Body weight QTL3	5.9		mesenteric fat pad mass (VT:0010427)	mesenteric fat pad weight as a percentage of body weight (CMO:0000654)	8	74917593	121080545	Rat
1300171	Bp184	Blood pressure QTL 184	3.66		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	8	76103982	127182642	Rat
9590292	Uminl3	Urine mineral level QTL 3	3.62	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	8	78805083	123805083	Rat
8694446	Bw170	Body weight QTL 170	12.07	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	8	78805083	123805083	Rat
8694200	Abfw4	Abdominal fat weight QTL 4	9.07	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	8	78805083	123805083	Rat
8694392	Bw161	Body weight QTL 161	8.06	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	8	78805083	123805083	Rat
1549909	Stresp11	Stress response QTL 11	6.83	0.0019	stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	8	80697934	125697934	Rat
2300181	Bmd55	Bone mineral density QTL 55	5.7	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	83894304	128894304	Rat
61437	Cia6	Collagen induced arthritis QTL 6			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	8	89058229	132243842	Rat
8693654	Alc32	Alcohol consumption QTL 32	2	0.755	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	8	95319530	115625029	Rat
2313400	Anxrr25	Anxiety related response QTL 25			aggression-related behavior trait (VT:0015014)	tameness/aggressiveness composite score (CMO:0002136)	8	95963141	122354314	Rat
1358893	Bp263	Blood pressure QTL 263	5.01		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	100873811	133307652	Rat
1358903	Bp252	Blood pressure QTL 252	7	0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	100873811	133307652	Rat
738011	Anxrr9	Anxiety related response QTL 9	6.1		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	8	102051964	133307652	Rat
738014	Anxrr15	Anxiety related response QTL 15	3.6	0.005	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	8	104682575	133307652	Rat
2300182	Bmd56	Bone mineral density QTL 56	5.4		femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	104682575	133307652	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	31
Count of miRNA genes:	29
Interacting mature miRNAs:	31
Transcripts:	ENSRNOT00000066731
Prediction methods:	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
Medium									60			2
Low	1	42	11	4		4	5	5	14	27	35	9	5
Below cutoff	2	1	20	13	16	13	3	6		8	6		3

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_134377	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017595430	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AJ427342	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000200	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000066731 ⟹ ENSRNOP00000060748

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	8	105,323,859 - 105,462,141 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000078760 ⟹ ENSRNOP00000070212

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	8	105,323,837 - 105,462,168 (-)	Ensembl

RefSeq Acc Id:

NM_134377 ⟹ NP_599204

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	98,021,666 - 98,636,803 (-)	NCBI
Rnor_6.0	8	105,323,837 - 106,036,695 (-)	NCBI
Rnor_5.0	8	104,768,386 - 104,906,597 (-)	NCBI
RGSC_v3.4	8	102,614,117 - 103,214,037 (-)	RGD
Celera	8	97,454,425 - 98,063,036 (-)	RGD

Sequence:

show sequence

ATGCTGCCGGGGAGGCTGTGCTTGGTGCCGCTCCTGCTGGCGCTGGGCGTAGGGAGCGGCGGAG
GCAGCGGCGACGGCGGGGACAGCCGGCGGCGCCGCCTCCTCGCGGCGAAAGTCAATAAACACAA
GCCATGGATCGAGACATCGTATCATGGAGTCATAACTGAGAACAATGACACAGTCATCTTGGAC
CCTACTATCGTAGCCCTGGACAAAGACGCCCCAGTGCCATTTGCAGGGGAAATCTGCGCATTCA
AGATCCATGGGCAGGAGCTGCCTTTTGAAGCTGTGGTGCTCAATAAGACATCTGGAGAGGGCCG
GCTCCGTGCCAAGAGTCCCATCGACTGTGAGCTACAGAAGGAGTACACATTCATCATCCAGGCC
TATGACTGTGGTGCAGGACCTCAGGAAGCAGCCTGGAAGAAGTCACACAAGGCTGTGGTCCACA
TCCAGGTGAAGGATGTCAATGAGTTCGCACCCACCTTCAAAGAACCAGCCTACAAAGCCATCGT
CACAGAGGGCAAGATCTATGACAGCATCCTGCAGGTAGAAGCCATCGATGAGGACTGCTCCCCC
CAATACAGCCAGATTTGCAACTATGAAATTGTCACGACGGATGTGCCTTTTGCCATTGACAGAA
ATGGCAACATCAGAAACACTGAGAAGCTGAGCTATGACAAGCAACGCCAGTATGAGATCCTGGT
AACTGCTTATGACTGTGGACAGAAGCCCGCTGCTCAGGACACCCTGGTCCAGGTGGATGTGAAG
CCAGTGTGTAAGCCTGGCTGGCAAGATTGGACCAAAAGGATTGAGTACCAGCCCGGCTCAGGGA
GTATGCCCTTGTTCCCCGGCATCCACCTGGAGACATGCGACGGAGCTGTGTCCTCCCTCCAGGT
CACTGCAGAGCTGCAGACTAATTACATCGGCAAGGGCTGTGACCGAGAGACCTACTCTGAGAAA
TCCCTTCAGAAACTATGTGGAGCATCCTCGGGCATCATCGACCTCTTGCCATCCCCTAGTGCGG
CTACCAACTGGACTGCTGGACTCCTGGTGGACAGCAGTGAGATGATCTTCAAGTTTGATGGCAG
GCAGGGTGCCAAGATCCCAGATGGGATTGTGCCCAAGAACCTGACAGACCAGTTCACCATCACA
ATGTGGATGAAACATGGCCCCAGCCCTGGCGTGAGAGCTGAGAAGGAAACCATCCTCTGTAACT
CAGATAAAACTGAAATGAACCGGCATCACTATGCCTTGTATGTGCACAACTGCCGCCTTGTCTT
CCTCCTGCGGAAGGACTTTGACCAGGCAGACACCTTTCGCCCCGCAGAGTTTCACTGGAAGCTG
GACCAGATTTGTGACAAAGAGTGGCATTACTATGTCATCAATGTGGAGTTCCCTGTGGTCACCT
TGTACATGGATGGAGCAACATATGAACCATACCTGGTGACCAATGACTGGCCCATTCATCCATC
TCACATAGCCATGCAACTCACTGTCGGCGCCTGTTGGCAAGGAGGTGAAGTGGCCAAACCACGG
TTTGCACAATTTTTCCATGGCAGCCTTGCCAGTCTCACAATCCGTCCTGGCAAAATGGAAAGCC
AGAAGGTGATTTCTTGTTTGCAGGCCTGCAAAGAAGGGCTGGATATTAATTCCTTGGAAAGCCT
TGGCCGAGGGATAAAGTATCACTTCAACCCTTCACAGTCCATCCTTGTGATGGAAGGCGATGAC
ATTGGGAACATCAACCAAGCCCTCCAGAAAGTCTCCTACATCAACTCCAGGCAGTTCCCAACAG
CAGGGGTCCGGCGCCTCAGACTCTCTTCTAAAGTCCAGTGCTTTGGGGAAGACGTGTGCATCAG
CATCCCAGATGTGGATGCCTACATCATGGTCCTGCAGGCCATCGAGCCCCAGATCACCCTCCAG
GGAACAGAGCGTTTCTGGAGACCTGCTGCCCAGTTCGAAAGTGCCAGAGGAGTGACTCTCTTCC
CTGACATCAAGATCATCAGCACCTTTGCCAAGACTGAGGCCTCTGGGGACTTGAGAGCTACAGG
CACAGCCCCCAAATCGGCAGTCTTGGAAGAAATGCTACATAATTTGGATTTCTGTGATATTTTG
GTGCTTGGAGGGGACTTGGATCCAAGACAAGAGTGCTTGGAGCTCAACCACAGTGAGCTCCACC
AACGACACCTTGATGCCACCAACTCTACTGCTGGCTACTCTATCTATGGTGTGGGGTCCATGAG
CCGTTATGAGCAGGTACTGCACCACCTCCGTTACCGCAACTGGCACCCCACTTCCCTTGAGACT
CGGAGGTTCCAGATCAAGTGTTCAGAGCTCAATGGGCGTTACACCAGCAATGAGTTCAACTTAG
AGGTCAGTGTCCTCCATGAAGTTAGAGTCTCTGATACGGAACATGTCAACCATCTTATTGTGCA
GCCACCCTTCCTCCAGTCTGTCTATCACCCTGAGACCCGGAGTAGTATCCAGCGCAGTTCAGTG
GTCCCGAGCATCGCCACTGTGGTCATCATTATCTCTGTGTGCATGCTAGTGTTTGTTGTGGCCA
TGGGTGTGTACCGAGTCCGAATTGCCCACCAGCATTTTATCCAAGAGACTGAGGCTGCCAAGGA
GGCTGAAATGGATTGGGATGACTCTGCACTGACTATCACAGTCAACCCTATGGAGAAACATGAA
GGACCAGGGCATGGAGAAGACGAGACTGAAGGAGAGGAAGAAGAAGAAGCAGAGGAAGGCATGA
GCTCCAGCAGCAGTGGCTCTGATGACAGTGAAGAGGAAGAAGAGGAAGGGATGGGCAGAGTCAG
ACATGGGCAGAGTGGCACCAGCTCTCAACGCCCTGAAAGAAGTACCTGGAATACAGCAGGAGTC
ATAAACATTTGGAAGTGAAGCACCTAGCTTGTCCCTACTT

hide sequence

RefSeq Acc Id:

XM_017595430 ⟹ XP_017450919

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	98,020,406 - 98,637,232 (-)	NCBI
Rnor_6.0	8	105,322,577 - 106,036,821 (-)	NCBI

Sequence:

show sequence

GCGGTCCTGAAGCGCACCCGGCAGCTACAGCGAGGCGGCGCGGCAAGCACCAGCGGACACCGGC
AGGCGAGGCGGGCGCGGGCGGTAGGCGGCGGCGGCAGCTCGGTGGCGGCTGAGGCGGCGAGGAT
GCTGCCGGGGAGGCTGTGCTTGGTGCCGCTCCTGCTGGCGCTGGGCGTAGGGAGCGGCGGAGGC
AGCGGCGACGGCGGGGACAGCCGGCGGCGCCGCCTCCTCGCGGCGAAAGTCAATAAACACAAGC
CATGGATCGAGACATCGTATCATGGAGTCATAACTGAGAACAATGACACAGTCATCTTGGACCC
TCCTCTCGTAGCCCTGGACAAAGACGCCCCAGTGCCATTTGCAGGGGAAATCTGCGCATTCAAG
ATCCATGGGCAGGAGCTGCCTTTTGAAGCTGTGGTGCTCAATAAGACATCTGGAGAGGGCCGGC
TCCGTGCCAAGAGTCCCATCGACTGTGAGCTACAGAAGGAGTACACATTCATCATCCAGGCCTA
TGACTGTGGTGCAGGACCTCAGGAAGCAGCCTGGAAGAAGTCACACAAGGCTGTGGTCCACATC
CAGGTGAAGGATGTCAATGAGTTCGCACCCACCTTCAAAGAACCAGCCTACAAAGCCATCGTCA
CAGAGGGCAAGATCTATGACAGCATCCTGCAGGTAGAAGCCATCGATGAGGACTGCTCCCCCCA
ATACAGCCAGATTTGCAACTATGAAATTGTCACGACGGATGTGCCTTTTGCCATTGACAGAAAT
GGCAACATCAGAAACACTGAGAAGCTGAGCTATGACAAGCAACGCCAGTATGAGATCCTGGTAA
CTGCTTATGACTGTGGACAGAAGCCCGCTGCTCAGGACACCCTGGTCCAGGTGGATGTGAAGCC
AGTGTGTAAGCCTGGCTGGCAAGATTGGACCAAAAGGATTGAGTACCAGCCCGGCTCAGGGAGT
ATGCCCTTGTTCCCCGGCATCCACCTGGAGACGTGCGACGGAGCTGTGTCCTCCCTCCAGGTCA
CTGCAGAGCTGCAGACTAATTACATCGGCAAGGGCTGTGACCGAGAGACCTACTCTGAGAAATC
CCTTCAGAAACTATGTGGAGCATCCTCGGGCATCATCGACCTCTTGCCATCCCCTAGTGCGGCT
ACCAACTGGACTGCTGGACTCCTGGTGGACAGCAGTGAGATGATCTTCAAGTTTGATGGCAGGC
AGGGTGCCAAGATCCCAGATGGGATTGTGCCCAAGAACCTGACAGACCAGTTCACCATCACAAT
GTGGATGAAACATGGCCCCAGCCCTGGCGTGAGAGCTGAGAAGGAAACCATCCTCTGTAACTCA
GATAAAACTGAAATGAACCGGCATCACTATGCCTTGTATGTGCACAACTGCCGCCTTGTCTTCC
TCCTGCGGAAGGACTTTGACCAGGCAGACACCTTTCGCCCCGCAGAGTTTCACTGGAAGCTGGA
CCAGATTTGTGACAAAGAGTGGCATTACTATGTCATCAATGTGGAGTTCCCTGTGGTCACCTTG
TACATGGATGGAGCAACATATGAACCATACCTGGTGACCAATGACTGGCCCATTCATCCATCTC
ACATAGCCATGCAACTCACTGTCGGCGCCTGTTGGCAAGGAGGTGAAGTGGCCAAACCACGGTT
TGCACAATTTTTCCATGGCAGCCTTGCCAGTCTCACAATCCGTCCTGGCAAAATGGAAAGCCAG
AAGGTGATTTCTTGTTTGCAGGCCTGCAAAGAAGGGCTGGATATTAATTCCTTGGAAAGCCTTG
GCCGAGGGATAAAGTATCACTTCAACCCTTCACAGTCCATCCTTGTGATGGAAGGCGATGACAT
TGGGAACATCAACCAAGCCCTCCAGAAAGTCTCCTACATCAACTCCAGGCAGTTCCCAACAGCA
GGGGTCCGGCGCCTCAGACTCTCTTCTAAAGTCCAGTGCTTTGGGGAAGACGTGTGCATCAGCA
TCCCAGATGTGGATGCCTACATCATGGTCCTGCAGGCCATCGAGCCCCAGATCACCCTCCAGGG
AACAGAGCGTTTCTGGAGACCTGCTGCCCAGTTCGAAAGTGCCAGAGGAGTGACTCTCTTCCCT
GACATCAAGATCATCAGCACCTTTGCCAAGACTGAGGCCTCTGGGGACTTGAGAGCTACAGGCA
CAGCCCCCAAATCGGCAGTCTTGGAAGAAATGCTACATAATTTGGATTTCTGTGATATTTTGGT
GCTTGGAGGGGACTTGGATCCAAGACAAGAGTGCTTGGAGCTCAACCACAGTGAGCTCCACCAA
CGACACCTTGATGCCACCAACTCTACTGCTGGCTACTCTATCTATGGTGTGGGGTCCATGAGCC
GTTATGAGCAGGTACTGCACCACCTCCGTTACCGCAACTGGCACCCCACTTCCCTTGAGACTCG
GAGGTTCCAGATCAAGTGTTCAGAGCTCAATGGGCGTTACACCAGCAATGAGTTCAACTTAGAG
GTCAGTGTCCTCCATGAAGTTAGAGTCTCTGATACGGAACATGTCAACCATCTTATTGTGCAGC
CACCCTTCCTCCAGTCTGTCTATCACCCTGAGACCCGGAGTAGTATCCAGCGCAGTTCAGTGGT
CCCGAGCATCGCCACTGTGGTCATCATTATCTCTGTGTGCATGCTAGTGTTTGTTGTGGCCATG
GGTGTGTACCGAGTCCGAATTGCCCACCAGCATTTTATCCAAGAGACTGAGGCTGCCAAGGAGG
CTGAAATGGATTGGGATGACTCTGCACTGACTATCACAGTCAACCCTATGGAGAAACATGAAGG
ACCAGGGCATGGAGAAGACGAGACTGAAGGAGAGGAAGAAGAAGAAGCAGAGGAAGGCATGAGC
TCCAGCAGCAGTGGCTCTGATGACAGTGAAGAGGAAGAAGAGGAAGGGATGGGCAGAGTCAGAC
ATGGGCAGAGTGGCACCAGGCAAGCCCAGCTGGAGTGGGATGATTCCACCCTCCCTTACTAGTG
CCCATGGGTCTGCTGACCAGCCCATGTGCCGCTTTTGTAAAACCCAACCCAATGTACACCCAAG
CCTGTCACAGTCACCTCTGGTTTTTATGACAGGTCTGGGAAGGCCATGGAATCTGCCCTCTATG
CTTTGGGCTCTGCCTATGTCCCAACCATGGGGCAGTTCTAAGAATCCAGTGTCACCATCAGTGG
GGACTGTAGGGTGTTATGTTGTCCTGTAGCCCTCACTTCTTTCTGCTCTGGGCTCACCCAGAAT
CCTGTCACCCAACCTGCAGAGTTCTGATCACCTTGCTCTTTTCTGCAGGGGAGGAGCTCCCCTT
TTGTGTCACTCGCTACCCCTAGACTCAGAGTTTTCAAATTCCTTGGGTTATAACTCACTGTGTA
CGTACTTGACTAAATAGCCTTTTGCCACCTACACCAGCAGGTCCTCCCTATGCTGGGTTTCCAG
GTTGCTTTATACAGAGAAGTCAGTATAATCTTAGTCATGTACCTAAGATCTTAGGGCTTAAGAA
TCGAAAAGAAAGCCTTTGTTGAGGCAGAATTGAATTTCCATGGAAAGGCCCATAGTACATGTGT
ATATGTGCACATGGGTGTATACACACACACACACACACACACACACACACACACACACACACTT
CCAAGCTTGGAGAGCCTTTCTTTTTACTTCTTTTGAGACTAAATAAGCTGTATAACAAGTTCAA
ACCCAAGAGTTAGAAGGTGTCCTCATCATAGGGTTTGCTGAGCAGCTTTTCAACCTGTCTAGGC
AATGCAGGTGGCTGTCCTACCCAGGGCTATAACCATGGTGGAACCACGAGGCCCAGGAATCACT
CCATACAGGCACTCTTCAAGTGACAGCTTGTGCGTAGATGTCACTAGGAGCCAAAGAAAGGATT
GATGAGGTAACCCAGCAAGGCTTCATGGTCCATAAAGATCTCCTTTGACATGGACTCTCCCATG
TAAAGGTAGCCTAAAGGTTGACAAGGCTGTCACCACCCAACCTGTGGTCCCTTATCTCCTGTTA
CTGTTTTCTCTTTAGGACACAACATCATTTCAGATGTAGTCAAACCAATCTAGGCTCTACTAGT
CTGAGATGTTAGGTGGGAAATTTAACTGCTAGGGATTCAAAGTATCTGTGTAATAATAACAGCT
GTTTCTTTCTTTTTCTCATAAAAGGAGGGATGCTTTGAATAGAGGGCAAATATATCAAAACCTT
AATTTCTTGTTCTTTCTTCTGATTTTAATAAGAAAGACTTTTCCATCTCCATTCTAACATGGGC
ACTTCGTGAGGAGAATTGTTGCTATAGTAACTGGTGGACAATCTTTTGTGGCCTAGAGAATAGC
AAGCAAGAATTAAGGCCAGAATAAGAGTTTCACGAGGCTTTGAGGACATGTTTGTTTCAAACAC
CTTGAGCTCTTCTTTGTTCTCAATCTGTATAGGTCATCCTTGTCATATCACTCTGCCCCACGCC
CATCCTGAATTGGCTTAGCTGAGGTCCACAATTGGTCTCTCATCACATAGCATTCAAATTCAAC
TGGATGTTGAATCTCCCACGAGTCATCTAAACAGAGCATTCAGGGAGTGATTATAGCCAATGTC
CTCCATCCCTCTGCTCACCCTCCAGGCATTGAGGATCCATACCAGGTCTTTGCAACCTTTTGGC
TGGGGAGATCTACCTTCTGTCGTTTTTCCATCTCTTGGAGTGTTTTGTGCATACCTTCCCTTTC
TTGAGCCTTCGGAAAACCCTGTGAGGTATTTGAGAAATTAGTTATTAGGGACAGTTTTGTGATG
GGTAAACTGAGGCTCAGAGTCAGTGTCCTGCTCAGAGTCATTCCAAGGTACAGACTACCCCTCT
GCTCCTTGTCCATGGTTCTACTTACGTTCATGTTAATATGTATTTCTGAGCACCTACTATGAGC
TAAGAACACTATCAGCACAATAGGAATGGGATGAAGCAGAATGAGACAGACCTTCCCCCATAGA
GGACTCAGGAATTATAGAAGGGACACAAACAGGCGGGGAGATTACGTAGGAGAAAGGAGGATGA
AGTGGCAGATGCTGCTGGAAGGAGAGGAAGACATTTACCAACCCAGGCAGAGCCCTAATTTCGT
CCCTTGGAAGAAACTCGAGATTTTTATATTCATTGAAAGGAAATAGACATATCTCCTGTGAACT
ACCCCAATCAAATCCCCCCTTTTCTGTCAGGCCATTTCTGCACATTTACAAGGGGGAAAATCTA
CAGGAAGATTTCGGCTTTATAATCCTATTATTTAAATAATAAGACATTCTTCAGTCAAGCGTTT
AAGAGCTACTGAATTCTCCCAAAATTATGTCAGTAAAGGGAACAGTTTGCATGTTTAAAACCAA
TCCTTTTTGAATGGGATTTTGATTGCAAATATTTAAGTCTAGAGTTTGAAGACACTTTTCTCGG
CTCTGGCTTTTCAGTGCCGATTGGTGGACAGCTGTTCCCATGCCCCCTACTTCTTGTGGCTGCA
TTACTCATTCATGATTGGACTATTAGAATTCTCTTGTGTTTTGTGGTGGAGGGTAAGAGGAGAA
GCAGAAGAGAGCTGGGAAGCTTTGGGGTAAGGCGGCCAAGATATACCAATTCAGGAGGCATTTG
GTGACTGGACTCATTTCCAGAGAAATAGTGGGGACACAAACTAAAGCCTTCCCCTCCTCTGTCT
TGGCACAAGGTCACTCTGCAGGCCAACTCCATAGCATCTTAGTGACGCTTCTGGGATTATCTTG
CTCCCAGCACTCACTTAACCTTGGGTACGATGAGGAGGGAGTAGTTATAAAATAGTAAGCTTCA
GCAGGTATCCAGGTGAGTGGTAGGTCACAGCCTAGACCTCCTGCCAGCTACTCTGACCAGAATT
GCAGGGTGCTAATCACACTGACATTTTCCATTCTCCGGAGTATGGTATTTTGAAACCAAAACTC
CCAGATGACCTGGACACCATGTGACTTCTGGGCAGAAGTGAGCAGTCAAACAAAGGCAGACTCA
GCCCCAAAAAGAATAAGCCGACTGGTGTGGCCATAGACTAGTCCATTGCTTTTCTTGCCAAATG
ACCAACCAGGGTCTGCTATTTAGAGCTTGAAAACAGGTGGGCTGCCAGCTTCAGGTAGCTCAGA
AGATTGGGAGGAGGAGAAGCAGGAGGACGCCAGTGGGTTTCCCTAGTGGAGGAAAGCCATTAAG
AAAAACTACTTGGAGAAGTGTCTCAAGGAATCCCGAGTGTATTCAAATAGATTTAAGCAAATTT
TGTAAGCCTGACCAAGGCCTCAAGTCACACAGGTAAAAAGGAATGTGGTTGCTGTGGCAGAACT
TTCTGTGAGAACTTTATTGAATTGACCACTCATTCCAACCACTTGCAGTTTAGACCACATTCTC
TGGCATTGACAAGAGGGAATGTCTCAAGGGACACCTACCAAGTCTCCACGGAGATAACCACTAC
TAGAAAACAGCGCCCCCAGAGATCAGCAAACTTTATCTGGAAAGATCCAGAAAGGAAAGCATTG
GGTTTTGCAGGCCATTTGCTCTCAATGTTACCTTCTAAACCCTGCCTCATGTCATGAGAGCAGC
TGCAGACAATACCCAGGCAAGGGAACATTCCAATTAGTCTTTCTATCTACTGCCCAGGAAAATT
GAACTATGATTCTGAGGGGGAGGGGAGAGGCTATTTGAATTCATTGAATTTTCATGTCACGAAC
TTTTTACTCTCTTATTTCTCGTTTTCTACTCAAAACTTGGCCTGCTAGACATCTAGAAAACTAG
TCACCAGGCAGATCCATGTGAGGCCGACTCTCACCCTCAATACATAGAAAGCAGCCACTCCCCC
ATTTCCCAGAAGAAAACACCCAACAGCTCCCCTAGTGGTCATTGCCTTCAATTGAACAGCTGGG
AAACTGGGCTCTTTCATTAAAGCTCTCTTAGAAGTTCACAGGAGATTGGAGAAAAGGCAAAAGA
AACAAGTAAATGAACAAACAAAATCCCACTTGTTATTTTTGAATTGAAGAAACGAGGCAGATAT
TCCTAAGGGTTGGACGCCTGGGCCCAGAGAACTAGCTAATCACTGAGCACAGGGACCCCCTCCT
CTGTTGAGGCAAGCGCTAACTCCCCAGGCTTAGCACCTTCCCAGCAGGGCTCAGTCCATAATGA
TTTCTAAGCAGGAGTGTTCATTATCTGGGACTGATTTTCATTTCAGCCTGCTCGTGTCTTTGCT
CTAAAAATGATCCTAAAGACTTGTGGCTGTTCAAATCAATAGCAACACAATCAGCAGAAAGCCC
TACCCAGCAACACTTCAAAATTAACAGCCTCCTTGCCTCTATGCCTCGATATTAGCTGCAAAGA
AAAGAGTGCTTTTTCTTAATCATCTCCCCATTTAAATGAACCAGATAGGCTTTGCAAAAAAAAA
AAAATGTGAGGGAATAAGCCTCATTCTTTAGAAAAGTGAGTGATGTTCACATAACGTATGGCCT
CTGGAGAATCCCAGAAGCCTCCCGCAATGCTTGGGCAGGTTGCAATGTAGCAGGCTTCTCTATC
TGGGCCAGACGTTTATCGAGGCTGACAAGCCAAAGCCCTTGGCATGGTTTAATTTTCATATGTC
ACCACGTTCCGTTGTCCAGCTGGAGGCAAGGGAAATGAGTAATGTGAGTTTCGAAGTCAACTCC
GCGACCTTCACTCGCCTGTCTCTATTTGTTTGACTTTATACATTTATCCCGAGTTAGCTTCCTT
CTGACCCTAGTAGGAGCGGGGGAGTTGGTTTTACGGGAGCTACAAATTAGGAGCTAAGCTTGAC
TTTGTCCCGGGGTAGCAAAGAGAGACAGAAGTTACCTCCAAGAGCGTGTCAGAGAGCAGTGGCG
CTAAGTCACTCGGCAGATGGGAGTCTCTGTTTGCACCTATGTTCCACAAATTCAGCAAGTCCTC
ACCGAGCGCCCATGTGTGCTTGACTCCAAGCCAAGGAACAGGGGAGAGAGGATGAACTCTCTCC
TTGCCTGCGAGAATCCCTTACTCTTGAAGTGTCAGAGGCTGCCATGCACAGTTAGGACTGTCAG
GGGAAGAAGTTTAAGGGTAGAATAATTGCTTCGCTGTTGTCTAGTTCAAGTCAGATGATAGGGA
TGATCGTAGGGGTGCTGAAAAGCCTCCATGAACAGAGAGAGATCTTCAGGGAAGTAAGCAATGC
GTTCCTAAATGCTTCTTAGTTATCATGGCTCAGGTCATGTATAGATGAAAGACTTTCCCTCTGT
GGAGAAATATGGCTGATGGCTGAGAGTTGGTGAAGCCCAGATAGAGGTAGTCCTTACAATGGAG
CAGCAGACAGGCAGACCGGGCAGGTTATAAACAGTGGTTCAAATGGGTTCAGGGAGCTTCCAGC
CAATGCTCAGGATCTGGTCAGCCTGATGCAGGATTCACACACGAAGGATTGAGCTCTGGGGGCT
CCACAGAGGTTTGCCTACCAAGTCTCACTGCTCCAGTTCTTTGACTGAGAGATCTGCAGGGCAG
CAGCAGCAAGAGCAGCACCCTGGAACTAGTAAGGCAAACTCTAGAAATGAGGCTTTCAGCAAGC
TGTGCTCTAAGAGCAAAGCTCAGAAAGGCCAAGGTTTGAGAGCTGTCTCTGTGGAGGATGAGGC
CAGCCTCTGCTGGCACTTGGATGCTAACAAGAGAAAAATAACCAGCGCCTACTGCAGTAAGGAG
AGAGAAGCAGAACAGGGCCCCAGTTCCCACCCCTGAAGCAATCATTTCAAAGAACCTGGTTTCA
ATTCCAGTTCCCCTCCTCTGCTTGGGTGTGAGATGCTTCCTCCCCTCGTGCCCTTTCTACAGAG
AGACACTGCTGGGGANGGGGTTGTGTTGCAGTCACCCAGCACTAGGGAGGACACCTGCCCAGTT
CCTGTCCACTGAACAGCCTCCTTCAAAGCCTTGTTTACAGCCATAGCTGTAAAGCTGCAGCTAT
GAGCCCCGACCACTAGGAGGCTGCTCTGCTCACTGCCTACATCCTGGAGAACAGGGTCATTCAA
GGACATTCCCAGGTTACCGCAGCACTAACCATTTGCAGTGAGAAGGGCAAATGCCGTCACAATT
CAGGCACTAAATTGGCTGGGGAATGGATTGTTTCTCTTGGAAGGGCAGTAACCCATGTTACTAA
AAGTAGGAGAAAGAGAAAAGGAAAAGAAAAAAGGTCAAAGCTGCAGCTTCATCTACAATGGGAA
TCTCATTCCTATGGTCCATGTAGGCACCGTTTTCCCTTTATGGCATGAGATCGATGGTGTAAGC
CCCATAAGACCTTCAGATGGAACTCCTTATGTTTTGCCAGTCATTGTGCCTGTGACCTAAGTCC
AGCCTCATATTGGGATCTCAAGGTCAAGATCAGAGTTCAGGGAATAGAAGAGGAACAGACAATG
CATAAGCCAGGAGAAGCAGTTAATATTGAGTTTCGACTAACCCAGCCCCCATTCTGCTCAGAAA
CATGTCACCCCTGACAGCCTCTTCACTGAGCCCCCTAAGTCCTCCAAAGGGAGCCTGAGACCGG
ATAGAGACCATGTTGAGAGTACACATCTCTATGACGTTAGAATCTGCCTTCTTAGAGTAGGAGA
AAGGGGAGGTGGGGGAGAACAGAGAAGAAAATATAGGACATGCAAGTTATTTGCCTGTGAGAAC
CACAGGAAGGCAAATAGAGGGGTTTCTCTTTTACAGCCTGGCTTCTCTGAGTAAAGTCCCTGCT
GATACTTCTTTCCCAAGACTTAAGGCAATTTTCTTGTTTCCATGAGGCATTTATATAAAAGCCT
CTGATAGGACAACACAGAAAGTAATGGAGAGTACTCTTGAAGCAGGACTGTCCTTGGAGTGTTT
GTTCATGTAGGATAAGACACTTTGCTCTGGGGCTGGAGATCAGGTCCAGTCAAGGATATCAAGG
TAGGGGATGGAGGGCTGGGTGAGTTATAGAACATCATCCCTGAAGAGACCAGCCTGTCAAGGAA
TGAGACATGGGATGGAGTCACCAAACAGAATATGTGAACTGGTACTTCTGGGCCATTATCAGGC
ATACCCCAAAGTTGGAGCCACACTGCAAGAACCACAGTCTACCCTCCCAGGGTACCCTAAAAAC
TATGACTGGATACAAACAATACAGACCCCAACTTTCCCCACCTCCACTTGCCACCTCCCTAAGT
CAAGAAGAGTAACCAATGTGTCCCAGGATGCTGGTTCTTCTCTAAGGATGTAACCATTGTATCC
AAAACACTGCATCTGGTCCACAGCATGGGCTCAGCAAATGTTGAATTGAATAGAATCCCAGAGA
CCACCTGACCTCAGGGAACGAGTGTGAAAAGTTAAGATGCCATGATGGAGAAAGACTCTTCAAG
CCCAGTCTTAGACTATAGTTGTCCTTTGTGAAATCACTAGGAATGGAAAAAGAGTGGAAGGGGG
AAGGGCAGGTGACAATATTTTTGTGGTTCCTCACAGTAGCTGACAAGAAGAGACTATTTTTTCT
TCAAAGTAATCTTTTCCAGGTAGGAGCAGTAAAAGAATGTCTCTATGCCACACCAGGAGCAAGG
GCAGTTAGGCCATGATGAGCCCCACTTTTTCCATATCATGAGTCACAGTCCTTTAATTTGTTAG
TAAGACCAGCTCTTTGCCGCGGACCCACCCCTTTTAGCAGATATACCGTGGAAAGATTCATCAC
TATGAAGCTCAGTCCCCAGTAGTGCAATGAGACAAGGGCAGCGGACACGAGAGCCTTCAGAATG
CAGGCAGTGTATATTAATCACAGGAACAAAATCTTGTTGGCTTTAATGTTTGCTTTTCTTTTAT
CTGGGAGTGAAAATACACCTCTGTTACCTGGACCCTTTATACTGAGCATTTCAGAGCAGACGTG
GGATATAAACACATATAAATATTGAGGGTTCTTTTCCTCAGCAGAATGAGCAGTCATAAAAAAG
AAGCTAAGAAGCTATTTCTGTTTGCAAAGGCAGAAAATCAACTCACGGGTTTTAGGTCTAGACT
CCAGCCCCCTGTGGAAAAAAGACAAGGGTGTAGCCTCTACTCTCTGAAAGGATTCCTTGAGGGC
CCAAGAGTAAGGGTTCAGCAGGATCCGTGGCTCACATCACTGAGTGAAGTGCATGCATCTCTGG
AGGCAAAAGTGCATCCATCCTGACCATCAGAGAAGGCTGGATTATGGCTCTCACCACTACCTAC
TCTCCATGATGCAAAGACGCTCTGGAGAGAGTACAGATAGCCCTTTCGCAGACACACTCCAGAG
GATTGGAAATGCAGCAAAAGTTTTGGGCAAAGAAAGTTAGACTTGGCACCCAGGTGAATCGCTT
GAATAGGAGGGGAAGAGATATTGAATGAGACGGTGACAGAGTTGGAGAGAAAACTGGAAGCTGA
GTAGGATCAACAGCATCAGAAGCAGCCAGGAAGCCAGGGCACTGCTCTCTATGTAAACTTATAT
TCATGTGCCCAAGGAATCATGGGTAAATAATGCCATGTGACCACAGAGGCAGTTACTGCGATTG
CTTTACAAGTCAGAGCCACTGGAAGCGGATGGCAGATCAGTCTACCTATCAGGTTTCCAACCTT
ATCTGCTCCCAAGAAAGAGCTGTTGATGCCCTAAGCTGGAAAGGCATGGCAGGAGATTGGAGGA
AAACAGGTAGAAAATAGAAGAAAGCTTATATAGAAGCCAGTTGTTCCCACGGAAACCTGTAGTT
AATAGAGTGGCCTTGTTACGTTAGTGCATGTATATTGTAATGTCTGTAAGAAGGAGTCAGAATG
ATGTGACAGGGTTTAGAGAACTGGAGTAATAAGTATAAAATACCAGACACAACTAGGTGTGAAG
AGTGTCTCATTAAATATATAAAATTTATATATGGAATTAAGCTATAGAACAGAGAGGTCATTAG
ACCCAACAAACTTTAATTCTCCAGATGCCTTAGGTTATTCTTATTTGCTTTTAGCTCTCAACGC
CCTGAAAGAAGTACCTGGAATACAGCAGGAGTCATAAACATTTGGAAGTGAAGCACCTAGCTTG
TCCCTACTTGGTGAAGACCCGATATATCACTAACAACCATATTGACTGAGTCATATAGAAGCAG
GTCAACCATGCGACTCTCCCAGCTTAGAGAAGCCTTTGTGAATTTTCATATTTCGTGCAGTAGT
CAGACAGTGGCAGACACTGGGTCTGGGTCTTAGGCAGTGAACAGTGACAGTGTTGCACATAGTT
GCTTGCACACATTTAGAACACGCCTGAATAACACCCACAATGCTGCTTCTGCAGAGTAGTCTGT
CCAACCTACCATTGTCTCTGTCTTGCCCTGAGTACTTGCTAAATACTGTTCACTCCATCATCTT
TCGTCATTGATGCTGGGACTAAATATAAAGGTTCCGGGTTCAGCCAATCTCAGACCCTTCTGTC
CTCCCATGTCTGGAGATGTTGGCACCATTTCAAAGCCTTGTATGAGAAACCAGTTTGTCCCCAG
TTCCTCAACCTCAGTGCATGGGAAAGGCCTGAGATGGGCAGGCTGCTTGCTCTACTGGAGCCTT
TCTGGCATTCACTCTGCAGAGAGAAAGAGCAGCCTCATTGTACGCAACCACCTTCCACCTGCAC
CTGACTGCAAAGTAGCCTAATGGTCAGTGCAGCCGGAGTGTCTTTGCTGGGAGCCAGCTGCACT
TGGGGATTGTGTGTTCTTGGCACACAGCAGACTTCTGAGCCTCTTGAACTGCCTCCAAGAATGA
ATCTCGTTAGTCTACAAAATATATTTATTTGGTAACTATGCTACTGTGTGTGTATGAGTCTGAT
ACAATGCAAACCTTGAAATGTCTTACTAAAAGGACTTATGAATTCATAGGAAATTGGATCCAAC
TTCAGAATAGCGAATTATGTTGCTGGTCAATAAAGTTGCCCAGCCACAAGGGACCAGAGAAAAA
CCTTCCCCCCCATCCCTTTTTTGACACCCTTTCCCTGCCTAATTGCCCTACTAGATTCTAACTG
ATGCAGAGTGAAGAAAGGTGCTGACAGAGTACATGTGCATAAAGATTGAAGAGGGAAATGACCT
CTGGGGCAATCAGTCGAGTTTCTTCCCATGGCTGTGATCCTATCATGCCTGATTCCCAAACTTG
CAATTTCTAACAATTTCGATTCTTGGAGTTTCTGAGCAATTTGTTAAATGCCTGTTCAACACAG
ACAGATATTTATTTTCAGCCTTGGCTTGGAAATGCCTACAAACTGATTCATGTTGGTGGTCGTT
CTGACACTTCTGTGAATTGGTTGAATAAATATGATTTTAGAATTTCACAGTAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_599204	(Get FASTA)	NCBI Sequence Viewer
	XP_017450919	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	CAD20352	(Get FASTA)	NCBI Sequence Viewer
	Q8VDA1	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_599204 ⟸ NM_134377
- Peptide Label:	precursor
- UniProtKB:	Q8VDA1 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MLPGRLCLVPLLLALGVGSGGGSGDGGDSRRRRLLAAKVNKHKPWIETSYHGVITENNDTVILD PTIVALDKDAPVPFAGEICAFKIHGQELPFEAVVLNKTSGEGRLRAKSPIDCELQKEYTFIIQA YDCGAGPQEAAWKKSHKAVVHIQVKDVNEFAPTFKEPAYKAIVTEGKIYDSILQVEAIDEDCSP QYSQICNYEIVTTDVPFAIDRNGNIRNTEKLSYDKQRQYEILVTAYDCGQKPAAQDTLVQVDVK PVCKPGWQDWTKRIEYQPGSGSMPLFPGIHLETCDGAVSSLQVTAELQTNYIGKGCDRETYSEK SLQKLCGASSGIIDLLPSPSAATNWTAGLLVDSSEMIFKFDGRQGAKIPDGIVPKNLTDQFTIT MWMKHGPSPGVRAEKETILCNSDKTEMNRHHYALYVHNCRLVFLLRKDFDQADTFRPAEFHWKL DQICDKEWHYYVINVEFPVVTLYMDGATYEPYLVTNDWPIHPSHIAMQLTVGACWQGGEVAKPR FAQFFHGSLASLTIRPGKMESQKVISCLQACKEGLDINSLESLGRGIKYHFNPSQSILVMEGDD IGNINQALQKVSYINSRQFPTAGVRRLRLSSKVQCFGEDVCISIPDVDAYIMVLQAIEPQITLQ GTERFWRPAAQFESARGVTLFPDIKIISTFAKTEASGDLRATGTAPKSAVLEEMLHNLDFCDIL VLGGDLDPRQECLELNHSELHQRHLDATNSTAGYSIYGVGSMSRYEQVLHHLRYRNWHPTSLET RRFQIKCSELNGRYTSNEFNLEVSVLHEVRVSDTEHVNHLIVQPPFLQSVYHPETRSSIQRSSV VPSIATVVIIISVCMLVFVVAMGVYRVRIAHQHFIQETEAAKEAEMDWDDSALTITVNPMEKHE GPGHGEDETEGEEEEEAEEGMSSSSSGSDDSEEEEEEGMGRVRHGQSGTSSQRPERSTWNTAGV INIWK hide sequence

RefSeq Acc Id:

XP_017450919 ⟸ XM_017595430

- Peptide Label:

isoform X1

- Sequence:

show sequence

MLPGRLCLVPLLLALGVGSGGGSGDGGDSRRRRLLAAKVNKHKPWIETSYHGVITENNDTVILD
PPLVALDKDAPVPFAGEICAFKIHGQELPFEAVVLNKTSGEGRLRAKSPIDCELQKEYTFIIQA
YDCGAGPQEAAWKKSHKAVVHIQVKDVNEFAPTFKEPAYKAIVTEGKIYDSILQVEAIDEDCSP
QYSQICNYEIVTTDVPFAIDRNGNIRNTEKLSYDKQRQYEILVTAYDCGQKPAAQDTLVQVDVK
PVCKPGWQDWTKRIEYQPGSGSMPLFPGIHLETCDGAVSSLQVTAELQTNYIGKGCDRETYSEK
SLQKLCGASSGIIDLLPSPSAATNWTAGLLVDSSEMIFKFDGRQGAKIPDGIVPKNLTDQFTIT
MWMKHGPSPGVRAEKETILCNSDKTEMNRHHYALYVHNCRLVFLLRKDFDQADTFRPAEFHWKL
DQICDKEWHYYVINVEFPVVTLYMDGATYEPYLVTNDWPIHPSHIAMQLTVGACWQGGEVAKPR
FAQFFHGSLASLTIRPGKMESQKVISCLQACKEGLDINSLESLGRGIKYHFNPSQSILVMEGDD
IGNINQALQKVSYINSRQFPTAGVRRLRLSSKVQCFGEDVCISIPDVDAYIMVLQAIEPQITLQ
GTERFWRPAAQFESARGVTLFPDIKIISTFAKTEASGDLRATGTAPKSAVLEEMLHNLDFCDIL
VLGGDLDPRQECLELNHSELHQRHLDATNSTAGYSIYGVGSMSRYEQVLHHLRYRNWHPTSLET
RRFQIKCSELNGRYTSNEFNLEVSVLHEVRVSDTEHVNHLIVQPPFLQSVYHPETRSSIQRSSV
VPSIATVVIIISVCMLVFVVAMGVYRVRIAHQHFIQETEAAKEAEMDWDDSALTITVNPMEKHE
GPGHGEDETEGEEEEEAEEGMSSSSSGSDDSEEEEEEGMGRVRHGQSGTRQAQLEWDDSTLPY

hide sequence

RefSeq Acc Id:

ENSRNOP00000070212 ⟸ ENSRNOT00000078760

RefSeq Acc Id:

ENSRNOP00000060748 ⟸ ENSRNOT00000066731

Protein Domains

Cadherin

Transcriptome

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

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:621151	AgrOrtholog
Ensembl Genes	ENSRNOG00000043085	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000060748	UniProtKB/TrEMBL
	ENSRNOP00000070212	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000066731	UniProtKB/TrEMBL
	ENSRNOT00000078760	ENTREZGENE, UniProtKB/TrEMBL
InterPro	Cadherin-like_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cadherin-like_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Calsyntenin	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ConA-like_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:171394	UniProtKB/Swiss-Prot
NCBI Gene	171394	ENTREZGENE
PANTHER	PTHR14139	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Cadherin	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Clstn2	PhenoGen
PRINTS	CADHERIN	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE	CADHERIN_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	SM00112	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF49313	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF49899	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A0G2JXB8_RAT	UniProtKB/TrEMBL
	CSTN2_RAT	UniProtKB/Swiss-Prot
	F1LMG0_RAT	UniProtKB/TrEMBL
	Q8VDA1	ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-04-17	Clstn2	calsyntenin 2	LOC100359585	calsyntenin 2	Data Merged	737654	PROVISIONAL
2010-05-06	LOC100359585	calsyntenin 2			Symbol and Name status set to provisional	70820	PROVISIONAL
2005-01-20	Clstn2	calsyntenin 2	Cstn2		Symbol updated	1299863	APPROVED
2002-08-07	Cstn2	calsyntenin 2			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_expression	expressed in excitatory central nervous system (CNS) synapses	632523

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)

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Imported Disease Annotations - CTD