Nt5c2 (5'-nucleotidase, cytosolic II)

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Gene: Nt5c2 (5'-nucleotidase, cytosolic II) Rattus norvegicus

Analyze

Symbol:

Nt5c2

Name:

5'-nucleotidase, cytosolic II

RGD ID:

2323387

Description:

Enables 5'-nucleotidase activity. Involved in IMP metabolic process and adenosine metabolic process. Predicted to be active in cytosol. Human ortholog(s) of this gene implicated in hereditary spastic paraplegia 45. Orthologous to human NT5C2 (5'-nucleotidase, cytosolic II); PARTICIPATES IN adenine phoshoribosyltransferase deficiency pathway; adenosine monophosphate deaminase deficiency pathway; adenylosuccinate lyase deficiency pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; cadmium dichloride.

Type:

protein-coding

RefSeq Status:

MODEL

Also known as:

cytosolic purine 5'-nucleotidase; LOC100363253; LOC294016

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):	NT5C2 (5'-nucleotidase, cytosolic II)	HGNC	Ensembl, HomoloGene, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Nt5c2 (5'-nucleotidase, cytosolic II)	HGNC	Treefam, OrthoMCL, NCBI, OMA, HomoloGene, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Nt5c2 (5'-nucleotidase, cytosolic II)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	NT5C2 (5'-nucleotidase, cytosolic II)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NT5C2 (5'-nucleotidase, cytosolic II)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Nt5c2 (5'-nucleotidase, cytosolic II)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NT5C2 (5'-nucleotidase, cytosolic II)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	NT5C2 (5'-nucleotidase, cytosolic II)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Nt5c2 (5'-nucleotidase, cytosolic II)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	NT5C2 (5'-nucleotidase, cytosolic II)	Alliance	DIOPT (Ensembl Compara\|HGNC\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Nt5c2 (5'-nucleotidase, cytosolic II)	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	nt5c2a (5'-nucleotidase, cytosolic IIa)	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER)
Danio rerio (zebrafish):	nt5c2b (5'-nucleotidase, cytosolic IIb)	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER)
Caenorhabditis elegans (roundworm):	Y71H10B.1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	CG32549	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	1	245,770,993 - 245,896,925 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	1	245,772,277 - 245,897,913 (-)	Ensembl
Rnor_6.0	1	266,652,966 - 266,782,935 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	266,659,519 - 266,782,910 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	274,086,763 - 274,213,322 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	252,204,106 - 252,329,479 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	1	252,468,096 - 252,541,637 (-)	NCBI
Celera	1	241,538,262 - 241,668,557 (-)	NCBI		Celera
Cytogenetic Map	1	q54	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

acute lymphoblastic leukemia (ISO)

hereditary spastic paraplegia 45 (ISO)

microcephaly (ISO)

Recurrence (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

1-naphthyl isothiocyanate (EXP)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

2-hydroxypropanoic acid (ISO)

acrolein (ISO)

acrylamide (ISO)

aflatoxin B1 (ISO)

alpha-pinene (ISO)

amphotericin B (ISO)

Aroclor 1254 (ISO)

arsane (ISO)

arsenic atom (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

bisphenol A (ISO)

bortezomib (ISO)

cadmium dichloride (EXP)

carbon nanotube (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

cyclophosphamide (ISO)

cyclosporin A (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

endosulfan (EXP)

ethanol (ISO)

ferric oxide (ISO)

gentamycin (EXP,ISO)

ivermectin (ISO)

ketamine (EXP)

lead(0) (ISO)

lead(2+) (ISO)

ozone (ISO)

paracetamol (EXP,ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

rac-lactic acid (ISO)

rotenone (EXP)

SB 431542 (ISO)

sodium arsenite (ISO)

tetrachloromethane (EXP)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

adenosine metabolic process (IBA,IDA)

allantoin metabolic process (ISO)

dephosphorylation (IEA)

dGMP catabolic process (ISO)

GMP catabolic process (ISO)

GMP catabolic process to guanine (ISO)

IMP catabolic process (ISO)

IMP metabolic process (IBA,IDA)

Cellular Component

cytosol (ISO)

Molecular Function

5'-nucleotidase activity (IBA,IDA,ISO)

GMP 5'-nucleotidase activity (ISO)

IMP 5'-nucleotidase activity (ISO)

metal ion binding (IEA)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

adenine phoshoribosyltransferase deficiency pathway (ISO)

adenosine monophosphate deaminase deficiency pathway (ISO)

adenylosuccinate lyase deficiency pathway (ISO)

AICA-ribosuria pathway (ISO)

azathioprine pharmacodynamics pathway (ISO)

beta-ureidopropionase deficiency pathway (ISO)

dihydropyrimidinase deficiency pathway (ISO)

Kelley-Seegmiller syndrome pathway (ISO)

Lesch-Nyhan syndrome pathway (ISO)

mercaptopurine pharmacodynamics pathway (ISO)

mitochondrial neurogastrointestinal encephalopathy syndrome pathway (ISO)

molybdenum cofactor deficiency pathway (ISO)

niacin metabolic pathway (ISO)

orotic aciduria 1 pathway (ISO)

purine metabolic pathway (ISO)

purine nucleoside phosphorylase deficiency pathway (ISO)

pyrimidine metabolic pathway (ISO)

tioguanine pharmacodynamics pathway (ISO)

xanthinuria type I pathway (ISO)

xanthinuria pathway (ISO)

xanthinuria type II pathway (ISO)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Mackiewicz M, etal., J Neurochem. 2003 Apr;85(2):348-57.
3.	Mirzaee S, etal., Toxicology. 2010 Jan 12;267(1-3):159-64. Epub 2009 Nov 12.
4.	OMIM Disease Annotation Pipeline
5.	Pipeline to import SMPDB annotations from SMPDB into RGD
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:2848805	PMID:17405878

Genomics

Comparative Map Data

Nt5c2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	1	245,770,993 - 245,896,925 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	1	245,772,277 - 245,897,913 (-)	Ensembl
Rnor_6.0	1	266,652,966 - 266,782,935 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	266,659,519 - 266,782,910 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	274,086,763 - 274,213,322 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	252,204,106 - 252,329,479 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	1	252,468,096 - 252,541,637 (-)	NCBI
Celera	1	241,538,262 - 241,668,557 (-)	NCBI		Celera
Cytogenetic Map	1	q54	NCBI

NT5C2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	10	103,087,185 - 103,277,605 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	10	103,088,017 - 103,193,301 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	10	104,847,774 - 104,953,029 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	104,837,902 - 104,943,006 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	10	104,837,903 - 104,943,006	NCBI
Celera	10	98,586,161 - 98,693,349 (-)	NCBI
Cytogenetic Map	10	q24.32-q24.33	NCBI
HuRef	10	98,482,286 - 98,586,909 (-)	NCBI		HuRef
CHM1_1	10	105,130,653 - 105,236,813 (-)	NCBI		CHM1_1

Nt5c2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	19	46,873,829 - 47,003,613 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	19	46,871,756 - 47,003,592 (-)	Ensembl
GRCm38	19	46,885,390 - 47,015,174 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	19	46,883,317 - 47,015,153 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	19	46,961,321 - 47,089,679 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	19	46,941,140 - 47,015,619 (-)	NCBI			mm8
Celera	19	47,656,323 - 47,783,383 (-)	NCBI		Celera
Cytogenetic Map	19	C3	NCBI

Nt5c2
(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_004955485	7,317,588 - 7,394,448 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955485	7,318,006 - 7,394,448 (+)	NCBI	ChiLan1.0	ChiLan1.0

NT5C2
(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	10	103,148,578 - 103,251,513 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	103,148,578 - 103,251,513 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	10	99,687,366 - 99,790,744 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

NT5C2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	28	15,525,581 - 15,621,287 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	28	15,526,790 - 15,621,235 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	28	15,697,211 - 15,791,400 (-)	NCBI
ROS_Cfam_1.0	28	16,000,755 - 16,095,008 (-)	NCBI
ROS_Cfam_1.0 Ensembl	28	16,000,764 - 16,147,185 (-)	Ensembl
UMICH_Zoey_3.1	28	15,550,611 - 15,644,750 (-)	NCBI
UNSW_CanFamBas_1.0	28	15,581,995 - 15,676,317 (-)	NCBI
UU_Cfam_GSD_1.0	28	15,716,631 - 15,810,917 (-)	NCBI

Nt5c2
(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_024407213	31,225,057 - 31,289,576 (+)	NCBI
SpeTri2.0	NW_004936600	2,828,277 - 2,892,795 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NT5C2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	114,062,457 - 114,168,204 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	114,062,451 - 114,167,460 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	124,033,935 - 124,116,597 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NT5C2
(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	9	96,133,873 - 96,325,122 (-)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	9	96,135,400 - 96,219,956 (-)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666048	57,243,704 - 57,438,013 (-)	NCBI	Vero_WHO_p1.0

Nt5c2
(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_004624831	2,374,341 - 2,468,819 (-)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

D1Got441

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	245,826,871 - 245,827,129 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	266,712,977 - 266,713,232	NCBI	Rnor6.0
Rnor_5.0	1	274,142,908 - 274,143,163	UniSTS	Rnor5.0
RGSC_v3.4	1	252,259,546 - 252,259,801	UniSTS	RGSC3.4
Celera	1	241,598,135 - 241,598,390	UniSTS
Cytogenetic Map	1		RGD

AU046797

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	245,817,403 - 245,817,646 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	266,703,514 - 266,703,756	NCBI	Rnor6.0
Rnor_5.0	1	274,133,445 - 274,133,687	UniSTS	Rnor5.0
RGSC_v3.4	1	252,250,083 - 252,250,325	UniSTS	RGSC3.4
Celera	1	241,588,793 - 241,589,035	UniSTS

RH138834

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	245,771,683 - 245,771,836 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	266,657,796 - 266,657,948	NCBI	Rnor6.0
Rnor_5.0	1	274,087,723 - 274,087,875	UniSTS	Rnor5.0
RGSC_v3.4	1	252,204,365 - 252,204,517	UniSTS	RGSC3.4
Celera	1	241,543,092 - 241,543,244	UniSTS
RH 3.4 Map	1	1627.7	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
70211	Niddm24	Non-insulin dependent diabetes mellitus QTL 24	3.79		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	214647894	259647894	Rat
631215	Stl8	Serum triglyceride level QTL 8	9.27	0.0001	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	1	225126575	260522016	Rat
2302040	Pia35	Pristane induced arthritis QTL 35	3.8	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	1	216255568	260522016	Rat
2302378	Insul11	Insulin level QTL 11	3.25		blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	1	144267353	251128347	Rat
724531	Uae5	Urinary albumin excretion QTL 5	4		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	1	150700142	252085212	Rat
724533	Rf51	Renal function QTL 51	5.3	0.0002	kidney plasma flow trait (VT:0005524)	renal plasma flow (CMO:0001914)	1	218753816	256448513	Rat
724538	Kidm1	Kidney mass QTL 1	3.2		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	213707201	252085212	Rat
724552	Glom2	Glomerulus QTL 2	3.3	0.0001	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)	1	222363780	260522016	Rat
734767	Niddm57	Non-insulin dependent diabetes mellitus QTL 57			body mass (VT:0001259)	body weight (CMO:0000012)	1	224054293	260122809	Rat
734768	Niddm59	Non-insulin dependent diabetes mellitus QTL 59			body mass (VT:0001259)	body weight (CMO:0000012)	1	213843987	258843987	Rat
734769	Niddm58	Non-insulin dependent diabetes mellitus QTL 58			body mass (VT:0001259)	body weight (CMO:0000012)	1	224569538	260122809	Rat
631669	Iddm9	Insulin dependent diabetes mellitus QTL 9	2.8	0.039	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	1	233190394	258625266	Rat
631690	Scl5	Serum cholesterol level QTL 5	2.1		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	1	236125214	260522016	Rat
1354580	Scort1	Serum corticosterone level QTL 1	3.4		blood corticosterone amount (VT:0005345)	blood corticosterone level (CMO:0001172)	1	156677124	256448636	Rat
1581544	Rf52	Renal function QTL 52		0.05	total urine protein amount (VT:0000032)	urine protein excretion rate to body weight ratio (CMO:0001099)	1	232156370	259647894	Rat
731175	Uae20	Urinary albumin excretion QTL 20	3.5	0.0018	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	221264111	259647894	Rat
738032	Hcas5	Hepatocarcinoma susceptibility QTL 5	3.12		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	176426412	257976495	Rat
631536	Lnnr2	Liver neoplastic nodule remodeling QTL 2	2.9	0.0005	liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)	1	233948574	260522016	Rat
1598821	Rf55	Renal function QTL 55	6.3		renal blood flow trait (VT:2000006)	ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)	1	218748008	257976495	Rat
2300175	Bmd40	Bone mineral density QTL 40	15.4	0.0001	femur mineral mass (VT:0010011)	bone mineral density (CMO:0001226)	1	201554356	246554356	Rat
2293655	Bss36	Bone structure and strength QTL 36	10.66	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	1	201554356	246554356	Rat
2293674	Bss39	Bone structure and strength QTL 39	7.1	0.0001	femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	1	201554356	246554356	Rat
2293694	Bss38	Bone structure and strength QTL 38	7.05	0.0001	femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	1	201554356	246554356	Rat
631836	Stl31	Serum triglyceride level QTL 31	4.64	0.00000487	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	1	237147813	260522016	Rat
631837	Niddm35	Non-insulin dependent diabetes mellitus QTL 35		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	1	238699859	259647894	Rat
631843	Bw116	Body weight QTL 116	4.1	0.016	abdominal adipose amount (VT:1000220)	abdominal fat pad weight (CMO:0000088)	1	224054293	260122809	Rat
634313	Niddm43	Non-insulin dependent diabetes mellitus QTL 43			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	199050459	259647894	Rat
1357399	Bw45	Body weight QTL 45	3.05		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	1	206329708	251329708	Rat
1357404	Bw42	Body weight QTL 42	4.49	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	1	206329708	251329708	Rat
1600388	Niddm67	Non-insulin dependent diabetes mellitus QTL 67	5.84	0.000004	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	195804352	257091168	Rat
1600392	Bw123	Body weight QTL 123		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	1	223201027	260522016	Rat
1600395	Niddm69	Non-insulin dependent diabetes mellitus QTL 69	4.14	0.0002	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	195804352	257091168	Rat
1600396	Niddm68	Non-insulin dependent diabetes mellitus QTL 68	4.97	0.0003	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	195804352	257091168	Rat
1600397	Edcs4	Endometrial carcinoma susceptibility QTL 4	2.2		uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	1	206081677	251081677	Rat
1578759	Uae30	Urinary albumin excretion QTL 30	3.3	0.003	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	150700247	252085048	Rat
1578763	Kidm29	Kidney mass QTL 29	3.3	0.0001	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	1	179567751	260522016	Rat
1578778	Pur4	Proteinuria QTL 4	3.3	0.003	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	1	150700247	252085048	Rat
1300108	Rf8	Renal function QTL 8	3.75		renal blood flow trait (VT:2000006)	absolute change in renal vascular resistance (CMO:0001900)	1	228581588	259647894	Rat
1354610	Bw34	Body weight QTL 34	4.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	151162512	256448636	Rat
1354624	Cm35	Cardiac mass QTL35	5.7		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	177227632	256448636	Rat
1354646	Kidm18	Kidney mass QTL 18	5.7		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	151162512	256448636	Rat
1354652	Kidm20	Kidney mass QTL 20	4.3		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	177227632	256448636	Rat
1354661	Bw33	Body weight QTL 33	5.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	151162512	256448636	Rat
1549910	Bw54	Body weight QTL 54		0.05	body mass (VT:0001259)	body weight (CMO:0000012)	1	214647894	259647894	Rat
2316896	Gluco57	Glucose level QTL 57	7.2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	228985440	245907899	Rat
1549837	Hcar15	Hepatocarcinoma resistance QTL 15		0.05	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	153136852	260522016	Rat
1358890	Bp259	Blood pressure QTL 259	3.06		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	210702053	260522016	Rat
1358898	Bp255	Blood pressure QTL 255	3.6		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	191019702	246062233	Rat
61327	Eae7	Experimental allergic encephalomyelitis QTL 7	5.6		body mass (VT:0001259)	change in body weight (CMO:0002045)	1	216255568	260522016	Rat
61400	Niddm1	Non-insulin dependent diabetes mellitus QTL 1	11		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	218753689	245907899	Rat
7394701	Uae46	Urinary albumin excretion QTL 46	3.6	0.0056	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	201554356	246554356	Rat
10053715	Scort24	Serum corticosterone level QTL 24	2.13	0.0088	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	1	221414816	260522016	Rat
10059587	Bw173	Body weight QTL 173	3.23	0.025	body mass (VT:0001259)	body weight (CMO:0000012)	1	202069611	247069611	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	127
Count of miRNA genes:	105
Interacting mature miRNAs:	113
Transcripts:	ENSRNOT00000027351
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

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

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

Expression

RNA-SEQ Expression

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

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	43	57	41	19	41	2	2	74	35	41	11	2
Low							6	9					6
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_002728891	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_003753419	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006223765	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006223766	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006223768	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006231583	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006231584	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006231586	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008760495	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008774855	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017589894	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017590386	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039101429	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039101430	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039101431	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039101432	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_215270	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC097752	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC105488	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473986	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000054	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000027351 ⟹ ENSRNOP00000027351

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	245,772,277 - 245,853,693 (-)	Ensembl
Rnor_6.0 Ensembl	1	266,659,519 - 266,782,910 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000103151 ⟹ ENSRNOP00000081125

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	245,772,277 - 245,819,921 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000103587 ⟹ ENSRNOP00000096997

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	245,772,277 - 245,897,913 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000109343 ⟹ ENSRNOP00000096604

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	245,772,277 - 245,845,892 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000109706 ⟹ ENSRNOP00000080847

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	245,772,540 - 245,845,934 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000114230 ⟹ ENSRNOP00000084753

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	245,772,277 - 245,812,337 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000116166 ⟹ ENSRNOP00000088067

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	245,772,277 - 245,897,913 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000117913 ⟹ ENSRNOP00000097160

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	245,772,277 - 245,828,185 (-)	Ensembl

RefSeq Acc Id:

XM_002728891 ⟹ XP_002728937

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	245,770,993 - 245,896,925 (-)	NCBI
Rnor_6.0	1	266,659,516 - 266,782,935 (-)	NCBI
Rnor_5.0	1	274,086,763 - 274,213,322 (-)	NCBI
RGSC_v3.4	1	252,204,106 - 252,329,479 (-)	RGD

Sequence:

show sequence

CAAGTAGTGCTCTGATCCGAAGCTCATGGTGCCGGGGTCGGGGCCGGGTGCGCGGCTGCGGCGG
GACCTGGCGAGGACGCGAAGAATTCATCCTACAAATAAAATGATGACTTCCTGGAGTGACCGCT
TACAGAACGCAGCAGATGTGCCTGCTAACATGGATAAGCATGCCCTGAAAAAGTACCGTCGAGA
AGCCTATCACCGGGTGTTTGTGAACCGAAGTTTAGCCATGGAAAAAATAAAGTGTTTTGGGTTT
GACATGGATTATACCCTGGCTGTGTACAAGTCTCCGGAATATGAATCCCTTGGCTTTGAGCTTA
CTGTGGAGAGATTAGTGTCCATCGGCTATCCTCAGGAGCTGCTCAACTTTGCATATGATTCGAC
ATTCCCTACCAGAGGACTTGTCTTTGACACACTCTATGGAAATCTCTTGAAAGTTGATGCCTAT
GGAAACCTCTTGGTTTGTGCACATGGATTTAACTTCATAAGAGGACCAGAAACTAGAGAGCAGT
ATCCAAATAAGTTTATCCAACGAGATGATACTGAACGGTTTTACATTCTGAACACACTCTTCAA
CCTTCCAGAAACCTACCTGTTGGCCTGCCTAGTAGATTTTTTTACTAATTGTCCCAGATATACC
AGTTGTGACACAGGATTTAAAGATGGGGACCTCTTCATGTCCTACAGGAGTATGTTCCAGGATG
TAAGGGACGCAGTGGACTGGGTCCATTACAAGGGTTCCCTTAAGGAAAAGACAGTTGAAAATCT
TGAGAAGTATGTAGTCAAAGATGGCAAGTTGCCGTTGCTTCTGAGCCGAATGAAGGAAGTGGGG
AAAGTGTTTCTGGCCACTAACAGTGACTATAAGTACACAGATAAAATCATGACTTACCTGTTTG
ATTTCCCACATGGCCCCAAGCCTGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGATCTGAT
TTTGGTGGATGCACGGAAACCGCTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACT
AAAACCGGAAAACTGAAAATCGGCACCTACACGGGCCCCCTGCAGCATGGCATCGTCTACTCAG
GAGGTTCATCTGATACAATCTGTGACCTGTTGGGAGCTAAGGGCAAAGACATTTTGTATATTGG
AGATCACATTTTTGGAGACATTTTGAAGTCAAAGAAACGGCAAGGGTGGAGAACTTTCTTGGTG
ATTCCTGAGCTTGCACAAGAGCTGCACGTCTGGACTGACAAAAGTTCACTTTTTGAAGAACTTC
AAAGCTTGGATATTTTCTTGGCTGAACTCTACAAGCACCTGGACAGCAGCAGCAACGAGCGCCC
AGACATCAGTTCCATCCAGAGACGGATCAAGAAAGTGACTCATGACATGGACATGTGCTACGGG
ATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACGCTCTTTGCCAGCCAAGTGATGCGGT
ACGCTGACCTCTATGCAGCATCCTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAG
AGCGGCCCACGTCCTGATGCCGCACGAATCAACAGTGGAGCACACACATGTGGATATCAATGAG
ATGGAGTCCCCTCTCGCCACCCGCAACCGCACATCGGTGGATTTCAAAGACACTGACTATAAGC
GACACCAGCTCACGAGGTCCATTAGTGAGATCAAGCCTCCCAACCTCTTCCCTCTGGCTCCCCA
GGAGATCACACACTGCCATGATGAAGATGATGATGAGGAAGAGGAAGAGGAAGAATAA

hide sequence

RefSeq Acc Id:

XM_006231584 ⟹ XP_006231646

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	245,770,993 - 245,845,486 (-)	NCBI
Rnor_6.0	1	266,659,516 - 266,731,622 (-)	NCBI
Rnor_5.0	1	274,086,763 - 274,213,322 (-)	NCBI

Sequence:

show sequence

GACGCGCTCAGTTCCTTTGGTCTCTCTCGGCAGGCATCCTGGCCTCAGTTCTCGTGAGACGGGA
GCCCTCATGGGCTGCGAGCCTGGCAGGGTTTGGATCTGCCGGGGGAATGGCCCACGAGCCAGTT
TTGTGGTGCGCGGTACTTCCTGGAAAGCTCACATCAATTGCAAGTCTCCCCTAAAGACGTTTGG
AGGCGGTTTGTCCCTCGCCTTTTTTTTTTTTTTCTCCCTCTGGGGCCCCAGAAGCCCAGCAGGG
TGAGATGCAGAAGTGGGGCCTGTTACAGGAACAGCATTTTGAGCGGTTGGCTTTGCCCGGCCGC
AGCCTTTAAAAGCAGTAGATGAAGAATTCATCCTACAAATAAAATGATGACTTCCTGGAGTGAC
CGCTTACAGAACGCAGCAGATGTGCCTGCTAACATGGATAAGCATGCCCTGAAAAAGTACCGTC
GAGAAGCCTATCACCGGGTGTTTGTGAACCGAAGTTTAGCCATGGAAAAAATAAAGTGTTTTGG
GTTTGACATGGATTATACCCTGGCTGTGTACAAGTCTCCGGAATATGAATCCCTTGGCTTTGAG
CTTACTGTGGAGAGATTAGTGTCCATCGGCTATCCTCAGGAGCTGCTCAACTTTGCATATGATT
CGACATTCCCTACCAGAGGACTTGTCTTTGACACACTCTATGGAAATCTCTTGAAAGTTGATGC
CTATGGAAACCTCTTGGTTTGTGCACATGGATTTAACTTCATAAGAGGACCAGAAACTAGAGAG
CAGTATCCAAATAAGTTTATCCAACGAGATGATACTGAACGGTTTTACATTCTGAACACACTCT
TCAACCTTCCAGAAACCTACCTGTTGGCCTGCCTAGTAGATTTTTTTACTAATTGTCCCAGATA
TACCAGTTGTGACACAGGATTTAAAGATGGGGACCTCTTCATGTCCTACAGGAGTATGTTCCAG
GATGTAAGGGACGCAGTGGACTGGGTCCATTACAAGGGTTCCCTTAAGGAAAAGACAGTTGAAA
ATCTTGAGAAGTATGTAGTCAAAGATGGCAAGTTGCCGTTGCTTCTGAGCCGAATGAAGGAAGT
GGGGAAAGTGTTTCTGGCCACTAACAGTGACTATAAGTACACAGATAAAATCATGACTTACCTG
TTTGATTTCCCACATGGCCCCAAGCCTGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGATC
TGATTTTGGTGGATGCACGGAAACCGCTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGA
CACTAAAACCGGAAAACTGAAAATCGGCACCTACACGGGCCCCCTGCAGCATGGCATCGTCTAC
TCAGGAGGTTCATCTGATACAATCTGTGACCTGTTGGGAGCTAAGGGCAAAGACATTTTGTATA
TTGGAGATCACATTTTTGGAGACATTTTGAAGTCAAAGAAACGGCAAGGGTGGAGAACTTTCTT
GGTGATTCCTGAGCTTGCACAAGAGCTGCACGTCTGGACTGACAAAAGTTCACTTTTTGAAGAA
CTTCAAAGCTTGGATATTTTCTTGGCTGAACTCTACAAGCACCTGGACAGCAGCAGCAACGAGC
GCCCAGACATCAGTTCCATCCAGAGACGGATCAAGAAAGTGACTCATGACATGGACATGTGCTA
CGGGATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACGCTCTTTGCCAGCCAAGTGATG
CGGTACGCTGACCTCTATGCAGCATCCTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCT
TCAGAGCGGCCCACGTCCTGATGCCGCACGAATCAACAGTGGAGCACACACATGTGGATATCAA
TGAGATGGAGTCCCCTCTCGCCACCCGCAACCGCACATCGGTGGATTTCAAAGACACTGACTAT
AAGCGACACCAGCTCACGAGGTCCATTAGTGAGATCAAGCCTCCCAACCTCTTCCCTCTGGCTC
CCCAGGAGATCACACACTGCCATGATGAAGATGATGATGAGGAAGAGGAAGAGGAAGAATAA

hide sequence

RefSeq Acc Id:

XM_006231586 ⟹ XP_006231648

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	245,772,536 - 245,845,957 (-)	NCBI
Rnor_6.0	1	266,659,516 - 266,732,046 (-)	NCBI
Rnor_5.0	1	274,086,763 - 274,213,322 (-)	NCBI

Sequence:

show sequence

GGCGGGGGCGGGGAGGGCGCGCGCCGAGGCGGCTGCGGCAGTTGCGCGCTAGGATTGCTGCCGT
GCGGTGGGGCCGAATTCATCCTACAAATAAAATGATGACTTCCTGGAGTGACCGCTTACAGAAC
GCAGCAGATGTGCCTGCTAACATGGATAAGCATGCCCTGAAAAAGTACCGTCGAGAAGCCTATC
ACCGGGTGTTTGTGAACCGAAGTTTAGCCATGGAAAAAATAAAGTGTTTTGGGTTTGACATGGA
TTATACCCTGGCTGTGTACAAGTCTCCGGAATATGAATCCCTTGGCTTTGAGCTTACTGTGGAG
AGATTAGTGTCCATCGGCTATCCTCAGGAGCTGCTCAACTTTGCATATGATTCGACATTCCCTA
CCAGAGGACTTGTCTTTGACACACTCTATGGAAATCTCTTGAAAGTTGATGCCTATGGAAACCT
CTTGGTTTGTGCACATGGATTTAACTTCATAAGAGGACCAGAAACTAGAGAGCAGTATCCAAAT
AAGTTTATCCAACGAGATGATACTGAACGGTTTTACATTCTGAACACACTCTTCAACCTTCCAG
AAACCTACCTGTTGGCCTGCCTAGTAGATTTTTTTACTAATTGTCCCAGATATACCAGTTGTGA
CACAGGATTTAAAGATGGGGACCTCTTCATGTCCTACAGGAGTATGTTCCAGGATGTAAGGGAC
GCAGTGGACTGGGTCCATTACAAGGGTTCCCTTAAGGAAAAGACAGTTGAAAATCTTGAGAAGT
ATGTAGTCAAAGATGGCAAGTTGCCGTTGCTTCTGAGCCGAATGAAGGAAGTGGGGAAAGTGTT
TCTGGCCACTAACAGTGACTATAAGTACACAGATAAAATCATGACTTACCTGTTTGATTTCCCA
CATGGCCCCAAGCCTGGGAGCTCCCACCGGCCGTGGCAGTCCTACTTTGATCTGATTTTGGTGG
ATGCACGGAAACCGCTCTTTTTTGGAGAAGGCACAGTGCTGCGTCAGGTGGACACTAAAACCGG
AAAACTGAAAATCGGCACCTACACGGGCCCCCTGCAGCATGGCATCGTCTACTCAGGAGGTTCA
TCTGATACAATCTGTGACCTGTTGGGAGCTAAGGGCAAAGACATTTTGTATATTGGAGATCACA
TTTTTGGAGACATTTTGAAGTCAAAGAAACGGCAAGGGTGGAGAACTTTCTTGGTGATTCCTGA
GCTTGCACAAGAGCTGCACGTCTGGACTGACAAAAGTTCACTTTTTGAAGAACTTCAAAGCTTG
GATATTTTCTTGGCTGAACTCTACAAGCACCTGGACAGCAGCAGCAACGAGCGCCCAGACATCA
GTTCCATCCAGAGACGGATCAAGAAAGTGACTCATGACATGGACATGTGCTACGGGATGATGGG
AAGCCTGTTCCGCAGTGGCTCCCGGCAGACGCTCTTTGCCAGCCAAGTGATGCGGTACGCTGAC
CTCTATGCAGCATCCTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCGGCCC
ACGTCCTGATGCCGCACGAATCAACAGTGGAGCACACACATGTGGATATCAATGAGATGGAGTC
CCCTCTCGCCACCCGCAACCGCACATCGGTGGATTTCAAAGACACTGACTATAAGCGACACCAG
CTCACGAGGTCCATTAGTGAGATCAAGCCTCCCAACCTCTTCCCTCTGGCTCCCCAGGAGATCA
CACACTGCCATGATGAAGATGATGATGAGGAAGAGGAAGAGGAAGAATAA

hide sequence

RefSeq Acc Id:

XM_039101429 ⟹ XP_038957357

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	245,770,993 - 245,835,763 (-)	NCBI

RefSeq Acc Id:

XM_039101430 ⟹ XP_038957358

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	245,770,993 - 245,846,149 (-)	NCBI

RefSeq Acc Id:

XM_039101431 ⟹ XP_038957359

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	245,770,993 - 245,833,578 (-)	NCBI

RefSeq Acc Id:

XM_039101432 ⟹ XP_038957360

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	245,770,993 - 245,783,380 (-)	NCBI

Protein Sequences


Protein RefSeqs	XP_002728937	(Get FASTA)	NCBI Sequence Viewer
	XP_006231646	(Get FASTA)	NCBI Sequence Viewer
	XP_006231648	(Get FASTA)	NCBI Sequence Viewer
	XP_038957357	(Get FASTA)	NCBI Sequence Viewer
	XP_038957358	(Get FASTA)	NCBI Sequence Viewer
	XP_038957359	(Get FASTA)	NCBI Sequence Viewer
	XP_038957360	(Get FASTA)	NCBI Sequence Viewer
	XP_215270	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL94365	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	XP_002728937 ⟸ XM_002728891
- Peptide Label:	isoform X1
- UniProtKB:	D3ZMY7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MVPGSGPGARLRRDLARTRRIHPTNKMMTSWSDRLQNAADVPANMDKHALKKYRREAYHRVFVN RSLAMEKIKCFGFDMDYTLAVYKSPEYESLGFELTVERLVSIGYPQELLNFAYDSTFPTRGLVF DTLYGNLLKVDAYGNLLVCAHGFNFIRGPETREQYPNKFIQRDDTERFYILNTLFNLPETYLLA CLVDFFTNCPRYTSCDTGFKDGDLFMSYRSMFQDVRDAVDWVHYKGSLKEKTVENLEKYVVKDG KLPLLLSRMKEVGKVFLATNSDYKYTDKIMTYLFDFPHGPKPGSSHRPWQSYFDLILVDARKPL FFGEGTVLRQVDTKTGKLKIGTYTGPLQHGIVYSGGSSDTICDLLGAKGKDILYIGDHIFGDIL KSKKRQGWRTFLVIPELAQELHVWTDKSSLFEELQSLDIFLAELYKHLDSSSNERPDISSIQRR IKKVTHDMDMCYGMMGSLFRSGSRQTLFASQVMRYADLYAASFINLLYYPFSYLFRAAHVLMPH ESTVEHTHVDINEMESPLATRNRTSVDFKDTDYKRHQLTRSISEIKPPNLFPLAPQEITHCHDE DDDEEEEEEE hide sequence

RefSeq Acc Id:

XP_006231648 ⟸ XM_006231586

- Peptide Label:

isoform X2

- Sequence:

show sequence

MMTSWSDRLQNAADVPANMDKHALKKYRREAYHRVFVNRSLAMEKIKCFGFDMDYTLAVYKSPE
YESLGFELTVERLVSIGYPQELLNFAYDSTFPTRGLVFDTLYGNLLKVDAYGNLLVCAHGFNFI
RGPETREQYPNKFIQRDDTERFYILNTLFNLPETYLLACLVDFFTNCPRYTSCDTGFKDGDLFM
SYRSMFQDVRDAVDWVHYKGSLKEKTVENLEKYVVKDGKLPLLLSRMKEVGKVFLATNSDYKYT
DKIMTYLFDFPHGPKPGSSHRPWQSYFDLILVDARKPLFFGEGTVLRQVDTKTGKLKIGTYTGP
LQHGIVYSGGSSDTICDLLGAKGKDILYIGDHIFGDILKSKKRQGWRTFLVIPELAQELHVWTD
KSSLFEELQSLDIFLAELYKHLDSSSNERPDISSIQRRIKKVTHDMDMCYGMMGSLFRSGSRQT
LFASQVMRYADLYAASFINLLYYPFSYLFRAAHVLMPHESTVEHTHVDINEMESPLATRNRTSV
DFKDTDYKRHQLTRSISEIKPPNLFPLAPQEITHCHDEDDDEEEEEEE

hide sequence

RefSeq Acc Id:

XP_006231646 ⟸ XM_006231584

- Peptide Label:

isoform X2

- Sequence:

show sequence

MMTSWSDRLQNAADVPANMDKHALKKYRREAYHRVFVNRSLAMEKIKCFGFDMDYTLAVYKSPE
YESLGFELTVERLVSIGYPQELLNFAYDSTFPTRGLVFDTLYGNLLKVDAYGNLLVCAHGFNFI
RGPETREQYPNKFIQRDDTERFYILNTLFNLPETYLLACLVDFFTNCPRYTSCDTGFKDGDLFM
SYRSMFQDVRDAVDWVHYKGSLKEKTVENLEKYVVKDGKLPLLLSRMKEVGKVFLATNSDYKYT
DKIMTYLFDFPHGPKPGSSHRPWQSYFDLILVDARKPLFFGEGTVLRQVDTKTGKLKIGTYTGP
LQHGIVYSGGSSDTICDLLGAKGKDILYIGDHIFGDILKSKKRQGWRTFLVIPELAQELHVWTD
KSSLFEELQSLDIFLAELYKHLDSSSNERPDISSIQRRIKKVTHDMDMCYGMMGSLFRSGSRQT
LFASQVMRYADLYAASFINLLYYPFSYLFRAAHVLMPHESTVEHTHVDINEMESPLATRNRTSV
DFKDTDYKRHQLTRSISEIKPPNLFPLAPQEITHCHDEDDDEEEEEEE

hide sequence

RefSeq Acc Id:

ENSRNOP00000027351 ⟸ ENSRNOT00000027351

RefSeq Acc Id:	XP_038957358 ⟸ XM_039101430
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038957357 ⟸ XM_039101429
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038957359 ⟸ XM_039101431
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038957360 ⟸ XM_039101432
- Peptide Label:	isoform X3

RefSeq Acc Id:

ENSRNOP00000096997 ⟸ ENSRNOT00000103587

RefSeq Acc Id:

ENSRNOP00000088067 ⟸ ENSRNOT00000116166

RefSeq Acc Id:

ENSRNOP00000081125 ⟸ ENSRNOT00000103151

RefSeq Acc Id:

ENSRNOP00000084753 ⟸ ENSRNOT00000114230

RefSeq Acc Id:

ENSRNOP00000080847 ⟸ ENSRNOT00000109706

RefSeq Acc Id:

ENSRNOP00000096604 ⟸ ENSRNOT00000109343

RefSeq Acc Id:

ENSRNOP00000097160 ⟸ ENSRNOT00000117913

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 (2019)

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

ACI/EurMcwi (MCW)

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

ACI/EurMcwi (RGD)

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

ACI/N (2020)

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

ACI/N (MCW)

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

BBDP/Wor (RGD)

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

BN-Lx/CubMcwi (2019)

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

BN/NHsdMcwi (2019)

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

BN/NHsdMcwi (2020)

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

BN/SsN (2020)

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

BN/SsN (MCW)

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

BUF/N (2020)

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

BXH2/CubMcwi (2020)

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

BXH3/CubMcwi (2020)

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

Buf/N (MCW)

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

COP/CrCrl (MCW & UW)

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

DA/OlaHsd (2019)

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

F344/DuCrl (2019)

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

F344/N (2020)

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

F344/NCrl (2019)

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

F344/NCrl (RGD)

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

F344/NRrrc (MCW)

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

F344/Stm (2019)

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

FHH/EurMcwi (2019)

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

FHH/EurMcwi (MCW)

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

FHH/EurMcwi (RGD)

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

FHL/EurMcwi (MCW)

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

FHL/EurMcwi (RGD)

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

FXLE16/Stm (2020)

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

FXLE18/Stm (2020)

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

GH/OmrMcwi (MCW)

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

GK/FarMcwi (2019)

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

GK/Ox (RGD)

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

HXB10/IpcvMcwi (2019)

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

HXB2/IpcvMcwi (2019)

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

HXB20/IpcvMcwi (2020)

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

HXB31/IpcvMcwi (2019)

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

HXB4/IpcvMcwi (2020)

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

LE/Stm (2019)

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

LE/Stm (RGD)

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

LEW/Crl (2019)

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

LEW/Crl (RGD)

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

LEW/NCrlBR (RGD)

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

LEXF10A/StmMcwi (2020)

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

LEXF11/Stm (2020)

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

LEXF1A/Stm (2019)

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

LEXF1C/Stm (2019)

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

LEXF2B/Stm (2019)

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

LEXF3/Stm (2020)

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

LEXF4/Stm (2020)

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

LH/MavRrrc (RGD)

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

LH/MavRrrcAek (2020)

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

LL/MavRrrc (RGD)

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

LL/MavRrrcAek (2020)

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

LN/MavRrrc (RGD)

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

LN/MavRrrcAek (2020)

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

M520/N (2020)

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

M520/N (MCW)

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

M520/NRrrcMcwi (2019)

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

MHS/Gib (RGD)

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

MNS/Gib (RGD)

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

MR/N (2020)

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

MR/N (MCW)

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

MWF/Hsd (2019)

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

PVG/Seac (2019)

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

SBH/Ygl (MCW)

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

SBH/Ygl (RGD)

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

SBN/Ygl (MCW)

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

SBN/Ygl (RGD)

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

SHR/NHsd (RGD)

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

SHR/OlalpcvMcwi (2019)

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

SHRSP/A3NCrl (2019)

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

SHRSP/Gcrc (RGD)

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

SR/JrHsd (2020)

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

SR/JrHsd (MCW)

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

SR/JrHsd (RGD)

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

SS/Jr (RGD)

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

SS/JrHsdMcwi (2019)

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

SS/JrHsdMcwi (MCW)

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

SS/JrHsdMcwi (RGD)

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

WAG/Rij (RGD)

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

WAG/RijCrl (2020)

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

WKY/Gcrc (RGD)

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

WKY/N (2020)

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

WKY/N (MCW)

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

WKY/NCrl (2019)

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

WKY/NCrl (RGD)

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

WKY/NHsd (RGD)

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

WN/N (2020)

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

WN/N (MCW)

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

Damaging Variants

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
1	266662869	266662870	A	G	snv	Buf/N (MCW)

Assembly: RGSC_v3.4

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
1	252209438	252209439	A	G	snv	BN/NHsdMcwi (KNAW), LE/Stm (KNAW), BUF/N (KNAW)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:2323387	AgrOrtholog
Ensembl Genes	ENSRNOG00000020179	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000027351	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000096997	ENTREZGENE
Ensembl Transcript	ENSRNOT00000027351	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000103587	ENTREZGENE
Gene3D-CATH	3.40.50.1000	UniProtKB/TrEMBL
InterPro	HAD-like_dom	UniProtKB/TrEMBL
	HAD-like_sf	UniProtKB/TrEMBL
	HAD-SF_hydro_IG_5-nucl	UniProtKB/TrEMBL
	Pur_nucleotidase	UniProtKB/TrEMBL
KEGG Report	rno:100363253	UniProtKB/TrEMBL
NCBI Gene	100363253	ENTREZGENE
PANTHER	HAD-SF_hydro_IG_5-nucl	UniProtKB/TrEMBL
Pfam	5_nucleotid	UniProtKB/TrEMBL
PhenoGen	Nt5c2	PhenoGen
PIRSF	Purine_5'-nucleotidase	UniProtKB/TrEMBL
Superfamily-SCOP	HAD-like_dom	UniProtKB/TrEMBL
TIGRFAMs	HAD-IG-Ncltidse	UniProtKB/TrEMBL
UniProt	D3ZMY7	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2012-09-11	Nt5c2	5'-nucleotidase, cytosolic II	LOC100363253	5'-nucleotidase, cytosolic II	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2010-05-06	LOC100363253	5'-nucleotidase, cytosolic II			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-04-30	Nt5c2	5'-nucleotidase, cytosolic II	Nt5c2_predicted	5'-nucleotidase, cytosolic II (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Nt5c2_predicted	5'-nucleotidase, cytosolic II (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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