Cdc25b (cell division cycle 25B) - Rat Genome Database

Name: Cdc25b
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Cdc25b (cell division cycle 25B) Rattus norvegicus

Analyze

Symbol:

Cdc25b

Name:

cell division cycle 25B

RGD ID:

621500

Description:

Predicted to have protein kinase binding activity and protein tyrosine phosphatase activity. Involved in mitotic cell cycle. Predicted to localize to cytoplasm; microtubule cytoskeleton; and nucleus. Orthologous to human CDC25B (cell division cycle 25B); PARTICIPATES IN cell cycle pathway, mitotic; mitogen activated protein kinase signaling pathway; INTERACTS WITH 1,2,4-trimethylbenzene; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

cell division cycle 25 homolog B (S. cerevisiae); cell division cycle 25 homolog B (S. pombe); dual specificity phosphatase Cdc25B; M-phase inducer phosphatase 2

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):	CDC25B (cell division cycle 25B)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Cdc25b (cell division cycle 25B)	HGNC	EggNOG, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Cdc25b (cell division cycle 25B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CDC25B (cell division cycle 25B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CDC25B (cell division cycle 25B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cdc25b (cell division cycle 25B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CDC25B (cell division cycle 25B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	CDC25B (cell division cycle 25B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cdc25b (cell division cycle 25B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Cdc25b (cell division cycle 25B)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Homo sapiens (human):	CDC25B (cell division cycle 25B)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	cdc25b (cell division cycle 25B)	Alliance	DIOPT (Hieranoid\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	MIH1	Alliance	DIOPT (InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	cdc-25.2	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	cdc-25.3	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER)
Drosophila melanogaster (fruit fly):	stg	Alliance	DIOPT (InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	118,407,127 - 118,417,272 (+)	NCBI
Rnor_6.0 Ensembl	3	123,731,539 - 123,741,339 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	123,731,539 - 123,741,696 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	130,229,228 - 130,239,385 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	118,893,716 - 118,903,516 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	3	118,799,288 - 118,809,089 (+)	NCBI
Celera	3	117,215,222 - 117,225,031 (+)	NCBI		Celera
Cytogenetic Map	3	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

breast carcinoma (ISO)

Chemical and Drug Induced Liver Injury (ISO)

diastolic heart failure (ISO)

endometrial cancer (ISO)

endometrial hyperplasia (ISO)

prostate cancer (ISO)

urinary bladder cancer (ISO)

vulva squamous cell carcinoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1-dichloroethene (ISO)

1,2,4-trimethylbenzene (EXP)

1,2-dichloroethane (ISO)

17beta-estradiol (ISO)

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

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

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

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

2,3-dimethoxynaphthalene-1,4-dione (ISO)

2,6-dinitrotoluene (EXP)

2-butoxyethanol (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3,7-dihydropurine-6-thione (EXP)

3-chloropropane-1,2-diol (EXP)

3-phenylprop-2-enal (ISO)

4-(ethoxymethylene)-2-phenyloxazol-5-one (ISO)

4-hydroxyphenyl retinamide (ISO)

5-fluorouracil (ISO)

acetamide (EXP)

aflatoxin B1 (ISO)

ammonium chloride (EXP)

Aroclor 1254 (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

arsenous acid (ISO)

belinostat (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP)

busulfan (ISO)

butanal (ISO)

C60 fullerene (EXP)

cadmium dichloride (ISO)

caffeine (EXP)

calcitriol (ISO)

carbon nanotube (ISO)

carboplatin (EXP)

carmustine (EXP)

choline (ISO)

chromium(6+) (EXP,ISO)

cisplatin (EXP,ISO)

clofarabine (ISO)

clofibrate (ISO)

cobalt dichloride (ISO)

copper atom (ISO)

copper(0) (ISO)

cyclosporin A (ISO)

decabromodiphenyl ether (EXP)

diarsenic trioxide (ISO)

dibutyl phthalate (ISO)

dichlorine (EXP)

dicrotophos (ISO)

dieldrin (EXP)

dimethyl sulfoxide (ISO)

doxorubicin (ISO)

endosulfan (EXP)

equol (ISO)

ethanol (ISO)

folic acid (ISO)

fulvestrant (ISO)

genistein (EXP,ISO)

gentamycin (EXP)

glutathione (ISO)

glyphosate (ISO)

hydrogen peroxide (ISO)

indole-3-methanol (EXP)

irinotecan (ISO)

L-methionine (ISO)

linezolid (EXP)

mercaptopurine (EXP)

metformin (EXP)

methotrexate (EXP)

methoxyacetic acid (EXP)

methoxychlor (EXP)

methylarsonic acid (ISO)

methylmercury chloride (EXP,ISO)

mifepristone (EXP)

Monobutylphthalate (EXP)

N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal (ISO)

N-nitrosodiethylamine (ISO)

naphthalenes (EXP)

nickel atom (ISO)

nickel dichloride (EXP)

nickel sulfate (ISO)

ozone (EXP)

paracetamol (EXP,ISO)

paraquat (ISO)

PCB138 (ISO)

phenobarbital (ISO)

phorbol 13-acetate 12-myristate (ISO)

pirinixic acid (EXP,ISO)

potassium dichromate (ISO)

progesterone (ISO)

purine-6-thiol (EXP)

resveratrol (ISO)

rotenone (EXP)

silver(1+) nitrate (ISO)

simvastatin (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

sodium dichromate (EXP)

sodium fluoride (ISO)

sunitinib (ISO)

tamoxifen (ISO)

tert-butyl hydroperoxide (ISO)

testosterone (ISO)

tetrachloroethene (ISO)

tioguanine (EXP)

toluene 2,4-diisocyanate (ISO)

Tributyltin oxide (EXP)

trichloroethene (ISO)

trichostatin A (ISO)

trimellitic anhydride (ISO)

triphenyl phosphate (EXP)

Triptolide (EXP)

undecane (EXP)

urethane (ISO)

valproic acid (ISO)

vitamin E (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell division (IEA)

female meiosis I (IEA,ISO)

G2/M transition of mitotic cell cycle (IBA)

mitotic cell cycle (IGI)

oocyte maturation (IEA,ISO)

peptidyl-tyrosine dephosphorylation (IEA)

positive regulation of cell cycle G2/M phase transition (IEA)

positive regulation of cytokinesis (IEA,ISO)

positive regulation of G2/M transition of mitotic cell cycle (IBA)

positive regulation of G2/MI transition of meiotic cell cycle (IBA)

positive regulation of mitotic cell cycle (IEA,ISO)

positive regulation of protein kinase activity (IEA,ISO)

protein phosphorylation (IEA,ISO)

Cellular Component

centrosome (IEA,ISO,ISS)

cytoplasm (IBA,IEA,ISO)

nucleus (IBA,IEA,ISO)

spindle pole (IEA,ISO,ISS)

Molecular Function

protein binding (ISO)

protein kinase binding (IEA,ISO)

protein tyrosine phosphatase activity (IBA,IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

cell cycle pathway, mitotic (IEA)

mitogen activated protein kinase signaling pathway (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.	Ito Y, etal., Breast Cancer. 2004;11(3):295-300.
3.	Jinno S, etal., EMBO J 1994 Apr 1;13(7):1549-56.
4.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
5.	Ngan ES, etal., Oncogene. 2003 Feb 6;22(5):734-9.
6.	Pipeline to import KEGG annotations from KEGG into RGD
7.	RGD automated data pipeline
8.	RGD automated import pipeline for gene-chemical interactions
9.	Wang R, etal., Cancer Res. 2009 May 1;69(9):3810-8. Epub 2009 Apr 21.
10.	Wang Z, etal., BMC Cancer. 2010 May 25;10:233.
11.	Wu W, etal., Cancer Res. 2003 Oct 1;63(19):6195-9.

Additional References at PubMed

PMID:11912493	PMID:12400006	PMID:15908796	PMID:17332740	PMID:20083600	PMID:22899714	PMID:23326474

Genomics

Comparative Map Data

Cdc25b
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	118,407,127 - 118,417,272 (+)	NCBI
Rnor_6.0 Ensembl	3	123,731,539 - 123,741,339 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	123,731,539 - 123,741,696 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	130,229,228 - 130,239,385 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	118,893,716 - 118,903,516 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	3	118,799,288 - 118,809,089 (+)	NCBI
Celera	3	117,215,222 - 117,225,031 (+)	NCBI		Celera
Cytogenetic Map	3	q36	NCBI

CDC25B
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	20	3,786,772 - 3,806,121 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	20	3,786,951 - 3,806,118 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	20	3,767,419 - 3,786,765 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	20	3,767,598 - 3,786,762 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	20	3,724,401 - 3,734,762 (+)	NCBI	NCBI36		hg18	NCBI36
Celera	20	3,838,270 - 3,848,633 (+)	NCBI
Cytogenetic Map	20	p13	NCBI
HuRef	20	3,724,986 - 3,735,364 (+)	NCBI		HuRef
CHM1_1	20	3,767,681 - 3,787,033 (+)	NCBI		CHM1_1

Cdc25b
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	131,028,356 - 131,040,431 (+)	NCBI	GRCm39		mm39
GRCm38	2	131,186,436 - 131,198,511 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	131,186,949 - 131,198,497 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	131,012,687 - 131,024,233 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	2	130,878,520 - 130,889,906 (+)	NCBI			mm8
Celera	2	132,410,981 - 132,422,509 (+)	NCBI		Celera
Cytogenetic Map	2	F1	NCBI
cM Map	2	63.29	NCBI

Cdc25b
(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_004955415	14,629,132 - 14,650,116 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955415	14,637,295 - 14,647,181 (+)	NCBI	ChiLan1.0	ChiLan1.0

CDC25B
(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	20	3,626,097 - 3,645,179 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	20	3,626,107 - 3,645,179 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	20	3,877,255 - 3,883,458 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

CDC25B
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	24	17,553,316 - 17,561,759 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	24	17,552,206 - 17,561,791 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Cdc25b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936485	14,897,050 - 14,914,034 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CDC25B
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	17	31,910,824 - 31,929,440 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	17	31,910,824 - 31,929,418 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	17	36,244,262 - 36,262,979 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CDC25B
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	2	34,482,709 - 34,493,737 (+)	NCBI
ChlSab1.1 Ensembl	2	34,483,771 - 34,494,071 (+)	Ensembl

Cdc25b
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624741	4,871,275 - 4,892,730 (+)	NCBI

Position Markers

RH131478

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	3	123,741,375 - 123,741,689	NCBI	Rnor6.0
Rnor_5.0	3	130,239,064 - 130,239,378	UniSTS	Rnor5.0
RGSC_v3.4	3	118,903,552 - 118,903,866	UniSTS	RGSC3.4
Celera	3	117,225,067 - 117,225,381	UniSTS
RH 3.4 Map	3	1013.1	UniSTS
Cytogenetic Map	3	q36	UniSTS

RH133919

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	3	123,740,526 - 123,740,735	NCBI	Rnor6.0
Rnor_5.0	3	130,238,215 - 130,238,424	UniSTS	Rnor5.0
RGSC_v3.4	3	118,902,703 - 118,902,912	UniSTS	RGSC3.4
Celera	3	117,224,218 - 117,224,427	UniSTS
RH 3.4 Map	3	1013.0	UniSTS
Cytogenetic Map	3	q36	UniSTS

Cdc25b

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	3	123,736,354 - 123,737,179	NCBI	Rnor6.0
Rnor_5.0	3	130,234,043 - 130,234,868	UniSTS	Rnor5.0
RGSC_v3.4	3	118,898,531 - 118,899,356	UniSTS	RGSC3.4
Celera	3	117,220,046 - 117,220,871	UniSTS
Cytogenetic Map	3	q36	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
1358885	Bp251	Blood pressure QTL 251	3.8		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	10639528	127023997	Rat
1358888	Bp264	Blood pressure QTL 264	4.43		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	10639528	127023997	Rat
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	30846101	172879276	Rat
1358362	Srcrt2	Stress Responsive Cort QTL 2	2.78		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	3	39248391	140271184	Rat
2301970	Bw81	Body weight QTL 81	5.19		body mass (VT:0001259)	body weight (CMO:0000012)	3	43295930	163640485	Rat
2301971	Cm71	Cardiac mass QTL 71	4.63		heart left ventricle mass (VT:0007031)	heart left ventricle weight (CMO:0000776)	3	43295930	163640485	Rat
1581503	Cm58	Cardiac mass QTL 58	2.7	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	45406058	127023997	Rat
1559282	Emca5	Estrogen-induced mammary cancer QTL 5	3.9		mammary gland integrity trait (VT:0010552)	percentage of study population developing mammary tumors during a period of time (CMO:0000948)	3	45406058	177699992	Rat
2292591	Esta4	Estrogen-induced thymic atrophy QTL 4			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	3	48561928	155263151	Rat
631665	Bw8	Body weight QTL 8	5.5		body mass (VT:0001259)	body weight (CMO:0000012)	3	51821836	124513579	Rat
1581568	Rf53	Renal function QTL 53			total urine protein amount (VT:0000032)	urine protein excretion rate to body weight ratio (CMO:0001099)	3	58204463	170534769	Rat
8662816	Vetf4	Vascular elastic tissue fragility QTL 4	4		renal artery integrity trait (VT:0010642)	number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)	3	61241033	165369047	Rat
1300111	Rf12	Renal function QTL 12	3.78		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	3	62922868	127023997	Rat
12879848	Bw181	Body weght QTL 181		0.015	body mass (VT:0001259)	body weight (CMO:0000012)	3	72672290	127023997	Rat
2301414	Kidm37	Kidney mass QTL 37		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	72973445	127023997	Rat
1581546	Pur13	Proteinuria QTL 13	2.93	0.0335	total urine protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	3	81136227	154416635	Rat
7387306	Bw124	Body weight QTL 124	3.2	0.0003	body mass (VT:0001259)	body weight (CMO:0000012)	3	88910015	133910015	Rat
631649	Bp123	Blood pressure QTL 123	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	94788365	139788365	Rat
8694437	Bw167	Body weight QTL 167	22.46	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	3	97009185	142009185	Rat
631841	Niddm39	Non-insulin dependent diabetes mellitus QTL 39	3.36		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	99465522	168732722	Rat
724532	Cm17	Cardiac mass QTL 17	2		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	3	101058963	146058963	Rat
2293087	Iddm27	Insulin dependent diabetes mellitus QTL 27	2.68		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	102152812	155263151	Rat
1354611	Despr2	Despair related QTL 2	3.03	0.0028	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	3	102466149	147466149	Rat
2312659	Slep7	Serum leptin concentration QTL 7		0.001	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	3	103141814	176418101	Rat
2312670	Bw94	Body weight QTL 94		0.01	inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	3	103141814	176418101	Rat
2312673	Scl63	Serum cholesterol level QTL 63		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	3	103141814	176418101	Rat
2302373	Gluco39	Glucose level QTL 39	5.01		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	3	103141944	170934860	Rat
619618	Rf3	Renal disease susceptibility QTL 3	6.5	0.001	urine albumin amount (VT:0002871)	urine albumin excretion rate to body weight ratio (CMO:0001270)	3	114376250	159376250	Rat
1331758	Bp207	Blood pressure QTL 207	2.848		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	117303473	141971336	Rat
1578754	Stresp16	Stress response QTL 16	4	0.001	blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	3	119471263	164471263	Rat
1358204	Insglur1	Insulin/glucose ratio QTL 1	3.8		blood glucose amount (VT:0000188)	serum glucose level (CMO:0000543)	3	120917788	141971336	Rat
1358204	Insglur1	Insulin/glucose ratio QTL 1	3.8		blood glucose amount (VT:0000188)	serum insulin level (CMO:0000358)	3	120917788	141971336	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	515
Count of miRNA genes:	228
Interacting mature miRNAs:	270
Transcripts:	ENSRNOT00000051064
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	35	32	25	18	25			66	22	32	11
Low		8	25	16	1	16	8	11	8	13	9		8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001389213	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_133572	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104193	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104194	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104195	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC110439	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473949	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	D16237	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000118	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000051064 ⟹ ENSRNOP00000051129

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	3	123,731,539 - 123,741,339 (+)	Ensembl

RefSeq Acc Id:

NM_001389213 ⟹ NP_001376142

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	118,407,157 - 118,417,272 (+)	NCBI

RefSeq Acc Id:

NM_133572 ⟹ NP_598256

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	118,407,157 - 118,417,272 (+)	NCBI
Rnor_6.0	3	123,731,539 - 123,741,339 (+)	NCBI
Rnor_5.0	3	130,229,228 - 130,239,385 (+)	NCBI
RGSC_v3.4	3	118,893,716 - 118,903,516 (+)	RGD
Celera	3	117,215,222 - 117,225,031 (+)	RGD

Sequence:

show sequence

GGGGGGGGGGTTATTTTTCGAATATATAAGGAGGTGGAGGTGGCAGCAGCCCAGCTCGCGTCTT
CCCCTCCCTTCCTCCCCACATCCCTCTCCTCACTCCCAGGCCCACTGCTCTTCCTCCCTCCCTC
CCCTCCCTCCTTCCCCTTACCCCAGGCTCACTCTCGGAGCCTAGCCAGCTGGGTCGGCGTCTGC
TGGCGCGGTATCTTGTGGCCCTCTAGCTAGCCTTTGCCCGCCCCGCCACCATGGAGGTACCCCC
GCAGAAGTCTGCGCCGGGCTCAGCTCTCAGTACTGCCCGCGTGCTGGGTGGCATTCAGCGGCCG
CGCCACCTCTCAGGCTTTGGGTTTGGGTCTGATGGCTTGCTGGGGTCTCCAGAGCGTGCGGCTT
CCTCCTCTCCGGTTACCACTCTTACCCAGACCATGTACAACCTCGCAGGGCTCGGCAGCGAGAC
CCCAAAAACTCAAGTAGGAAGCCTGTCGTTCCAGAACAGGCTGACAGACCTGTCCCTGTCCAGA
CGTACCTCTGAGTGCTCCCTGTCATCTGAGTCCTCAGAATCTTCTGATGCAGGTCTCTGCATGG
ACTCCCCTAGCCCTATGGACCCACAGACAGCAGAGCGCACGTTTGAACAGGCCATTCAGGCAGC
CAGTCGGGTCATTCAAAAGATGCAATTTACCATAAAAGCTTCGGTCTTTGCCAGTGAGGCTGCT
GGACATAGTCCTGTGCTACAGAACATCACCAACTCCCAAGCACTGGACAGCTGGGAGAAAGATG
AAGCAGGCTACAGAGCTGCCAGTAGTCCTGGGGAGGACAAAGAGAACGATGGATATATCTTCAA
GATGCCACAGAAGCTCCCTCATTCCAGCTCTGCCCGAGCTTTGGCAGAGTGGGCCAGCCGCAGA
GAGGCCTTTACCCAGAGGCCCAGCTCAGCCCCTGACTTGATGTGTCTTACCACTGACGGGAAGA
TGGACGTGGAGGAGGCGAGCCCTGTGGCACAGTCTTCCTCCTTGACTCCTGTCGAAAGGGCTTG
TGAAGAAGATGACGGATTTGTGGACATCCTAGAGAGTGATTTAAAGGATGATGATATGGTCCCC
GCAGGCATGGAGAACCTCATTAGTGCTCCACTGGTCAAAAAGCTGGATAAGGAAGAGGAACAGG
ATCTCATCATGTTCAGCAAGTGCCAGCGGCTTTTCCGCTCTCCATCCATGCCGTGCAGTGTGAT
CCGGCCCATCCTCAAGAGGCTAGAGCGGCCCCACGACAGGGACGTGCCTGTCCTGAGCAAGCGC
AGGAAGAGTGGGACACCCCTGGAAGAGCAGCAGCTTGAAGAACCCAAGGCCCGGGTCTTCCGCT
CAAAGTCCCTGTGTCACGAGATTGAGAGCATCCTGGACAGTGACCACCGTGGCCTGATTGGAGA
TTACTCTAAGGCCTTCCTCCTGCAGACTGTGGATGGCAAACACCAAGACCTCAAGTACATCTCA
CCAGAAACTATGGTGGCCCTGTTGACAGGCAAGTTCAGCAACATCGTGGAGAAGTTTGTAATTG
TGGACTGCAGATACCCCTATGAGTATGAAGGCGGGCATATCAAGAATGCTGTGAACTTGCCCCT
GGAACCGGATGCCGAGACCTTTCTGCTGAAGCATCCCATCACGCCTTGTAACCTGGACAAGAGA
ATCATCCTCATTTTCCACTGTGAATTCTCATCTGAGCGTGGACCACGGATGTGCCGCTTCATCA
GGGAACGGGACCGTGCAGCTAACGACTATCCCAGCCTGTACTACCCTGAGATGTACATCCTCAA
AGGCGGCTACAAGGAGTTCTTCCCGCAGCATCCGAACTTTTGTGAGCCCCAGGACTACCGACCC
ATGAACCATGCAGCTTTCCGGGATGAGCTGAGGAACTTCCGCCTCAAGACACGCAGCTGGGCTG
GGGAACGGAGTACCACCCAACTCTGTAGCAGGCTGCAAGACCAGTGACGAGCCAGCCTCAGTCC
TGCCACCATCCTTACCTCAGGAGGCTTGCGAGCCAGTGGGTCCCATGGGCCTATGCGGCCACCT
ACTTGCTAGAGGCCTCAGGTGCTATAGGGGGTTGGGGGGATGGTGTGGTGTCACATCTGTCTGT
CCCTGTCCTCAATTTTCCTGTCTCACTCCACTAATTTTCTGTATCTTGGATCTGATCCCATCTT
AAAGAGCTGAACCAATGGGTGAATACCAGCTAAGAGGAAGTCCTTTGTGTTCAATGAGAGCCCT
TTTACAATCTCCTTTTTCCTTGTTTGTGTTGACTCCTTGTCTTACCCCTTCGCAGGGAGAGCCT
CAGCCCTTTAAGATGAGCACAGTAGCTTCTTGGGTAGCCTGGATTGCAGGACGCTACACTGCTG
CACAGGGCTGTGTCTGCTCTCCTCTCCTGGCCTCTGCACAGATTCCTCCATTGGAAGCATAAGT
GCTTAGTTTCCTGTTGTCGTCTTACCCATAGCTTTCATTTTCGTCTGTCTCACTTAGCGTGTCC
CAGGACACACTGACAGCTGGGGAGGCTCCCTTGTACAGCTGGGGACTAGAGATTCAAATATCAT
GTACTCATTAGGCTTGGCTTTTGTTAGCCCACAAAGGGATCTTTTCCTTTAAGACCCCCAGAGC
TAGAGCAAAGGCCTGATTCAGGAGCCTCTGGGAGCCCCATCCTCACTGCTGTGAACCCTAGAGC
CTCACTGGTCAGCACTTGTTGCTGGGCAATGAACCAGTCACTGAGCTTCACTTTTTGGTCCTTC
TCTGTCCCTCCCTGTCCCTCTCTGTCCTTCTTTCCATATCTGGTCCTGAGTA

hide sequence

RefSeq Acc Id:

XM_006235003 ⟹ XP_006235065

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	3	123,731,557 - 123,741,696 (+)	NCBI
Rnor_5.0	3	130,229,228 - 130,239,385 (+)	NCBI

Sequence:

show sequence

AAGGAGGTGGAGGTGGCAGCTGCCCAGCTCGCGTCTTCCCCTCCCTTCCTCCCCACATCCCTCT
CCTCACTCCCAGGCCCACTGCTCTTCCTCCCTCCCTCCCCTCCCTCCTTCCCCTTACCCCAGGC
TCACTCTCGGAGCCTAGCCATCTGGGTCGGCGTCTGCTGGCCGCTGTACTTGTGGCCCTCTAGC
TAGCCTTTGCCCGCCCCGCCACCATGGAGGTACCCCCGCAGAAGTCTGCGCCGGGCTCAGCTCT
CAGTACTGCCCGCGTGCTGGGTGGCATTCAGCGGCCGCGCCACCTCTCAGGCTTTGGGTTTGGG
TCTGATGGCTTGCTGGGGTCTCCAGAGCGTGCGGCTTCCTCCTCTCCGGTTACCACTCTTACCC
AGACCATGTACAACCTCGCAGGGCTCGGCAGCGAGACCCCAAAAACTCAAGTAGGAAGCCTGTC
GTTCCAGAACAGGCTGACAGACCTGTCCCTGTCCAGACGTACCTCTGAGTGCTCCCTGTCATCT
GAGTCCTCAGAATCTTCTGATGCAGGTCTCTGCATGGACTCCCCTAGCCCTATGGACCCACAGA
CAGCAGAGCGCACGTTTGAACAGGCCATTCAGGCAGCCAGTCGGGTCATTCAAAATGAGCAATT
TACCATAAAACGCTTCCGGTCTTTGCCAGTGAGGCTGCTGGGACATAGTCCTGTGCTACAGAAC
ATCACCAACTCCCAAGCACTGGACAGCTGGGAGAAAGATGAAGCAGGCTACAGAGCTGCCAGTA
GTCCTGGGGAGGACAAAGAGAACGTGCGCTTCCAGAGACCGGGATGGAGGATCTCCAGGGAGAG
AAGGTGTCTTACCACTGACGGGAAGATGGACGTGGAGGAGGCGAGCCCTGTGGCACAGTCTTCC
TCCTTGACTCCTGTCGAAAGGGCTTGTGAAGAAGATGACGGATTTGTGGACATCCTAGAGAGTG
ATTTAAAGGATGATGATATGGTCCCCGCAGGCATGGAGAACCTCATTAGTGCTCCACTGGTCAA
AAAGCTGGATAAGGAAGAGGAACAGGATCTCATCATGTTCAGCAAGTGCCAGCGGCTTTTCCGC
TCTCCATCCATGCCGTGCAGTGTGATCCGGCCCATCCTCAAGAGGCTAGAGCGGCCCCACGACA
GGGACGTGCCTGTCCTGAGCAAGCGCAGGAAGAGTGGGACACCCCTGGAAGAGCAGCAGCTTGA
AGAACCCAAGGCCCGGGTCTTCCGCTCAAAGTCCCTGTGTCACGAGATTGAGAGCATCCTGGAC
AGTGACCACCGTGGCCTGATTGGAGATTACTCTAAGGCCTTCCTCCTGCAGACTGTGGATGGCA
AACACCAAGACCTCAAGTACATCTCACCAGAAACTATGGTGGCCCTGTTGACAGGCAAGTTCAG
CAACATCGTGGAGAAGTTTGTAATTGTGGACTGCAGATACCCCTATGAGTATGAAGGCGGGCAT
ATCAAGAATGCTGTGAACTTGCCCCTGGAACCGGATGCCGAGACCTTTCTGCTGAAGCATCCCA
TCACGCCTTGTAACCTGGACAAGAGAATCATCCTCATTTTCCACTGTGAATTCTCATCTGAGCG
TGGACCACGGATGTGCCGCTTCATCAGGGAACGGGACCGTGCAGCTAACGACTATCCCAGCCTG
TACTACCCTGAGATGTACATCCTCAAAGGCGGCTACAAGGAGTTCTTCCCGCAGCATCCGAACT
TTTGTGAGCCCCAGGACTACCGACCCATGAACCATGCAGCTTTCCGGGATGAGCTGAGGAACTT
CCGCCTCAAGACACGCAGCTGGGCTGGGGAACGGAGCAGGAGGGAACTCTGTAGCAGGCTGCAA
GACCAGTGACGAGCCAGCCTCAGTCCTGCCACCATCCTTACCTCAGGAGGCTTGCGAGCCAGTG
GGTCCCATGGGCCTATGCGGCCACCTACTTGCTAGAGGCCTCAGGTGCTATAGGGGGTTGGGGG
GATGGTGTGGTGTCACATCTGTCTGTCCCTGTCCTCAATTTTCCTGTCTCACTCCACTAATTTT
CTGTATCTTGGTACTGATCCCATCTTAAAGAGCTGAACCAATGGGTGAATACCAGCTAAGAGGA
AGTCCTTTGTGTTCAATGAGAGCCCTTTTACAATCTCCTTTTTCCTTGTTTGTGTTGACTCCTT
GTCTTACCCCTTCGCAGGGAGAGCCTCAGCCCTTTAAGATGAGCACAGTAGCTTCTTGGGTAGC
CTGGATGCAGGACGCTACACTGCTGCACAGGGCTGTGTCTGCTCTCCTCTCCTGGCCTCTGCAC
AGATTCCTCCATTGGAAGCATAAGTGCTTACTTTTCCTGTTGTCGTCTTACCCATAGCTTTCAT
TTTCGTCTGTCTCACTTAGCGTGTCCCAGGACACACTGACAGCTGGGGAGGCTCCCTTGTACAG
CTGGGGACTAGAGATTCAAATATCATGTACTCATTAGGCTTGGCTTTTGTTAGCCCACAAAGGG
ATCTTTTCCTTTAAGACCCCCAGAGCTAGAGCAAAGGCCTGATTCAGGAGCCTCTGGGAGCCCC
ATCCTCACTGCTGTGAACCCTAGAGCCTCGCTGGTCAGCACTTGTTGCTGGGCAATGAACCAGT
CACTGAGCTTCACTTTTTGGTCCTTCTCTGTCCCTCCCTGTCCCTCTCTGTCCTTCTTTCCATA
TCTGGTCCTGAGTATGCATGGTTTTTCCGTGTTGCTGTACTAGTGACAGAGTCTAGGCCCTTTG
TTGGATGGTCATGGATGCACAGTGCCTTGTACACATGTATGCACACAAATCGAGTGAAGTATTT
TGGTAAGCATGATGGCCTATGGCAGGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG
TGTGTGTGTACAAAGTCTTTACACTTAGCATTTGGAAATATTAAAGAAATATTGTCATAGGGGA
GGGAGGAAGAAGCAACTTTTGGGTTCAGAATCTACATATGAAAAGGTCATGCTGGAAGGCCCCC
AATGCATCCTCTGTTGGGGCCTTGGTTCAATAAAGCACTGAGCAAGTTGAA

hide sequence

RefSeq Acc Id:

XM_039104193 ⟹ XP_038960121

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	118,407,132 - 118,417,094 (+)	NCBI

RefSeq Acc Id:

XM_039104194 ⟹ XP_038960122

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	118,407,127 - 118,417,094 (+)	NCBI

RefSeq Acc Id:

XM_039104195 ⟹ XP_038960123

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	118,408,304 - 118,417,094 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001376142	(Get FASTA)	NCBI Sequence Viewer
	NP_598256	(Get FASTA)	NCBI Sequence Viewer
	XP_038960121	(Get FASTA)	NCBI Sequence Viewer
	XP_038960122	(Get FASTA)	NCBI Sequence Viewer
	XP_038960123	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	BAA03762	(Get FASTA)	NCBI Sequence Viewer
	EDL80229	(Get FASTA)	NCBI Sequence Viewer
	EDL80230	(Get FASTA)	NCBI Sequence Viewer
	EDL80231	(Get FASTA)	NCBI Sequence Viewer
	EDL80232	(Get FASTA)	NCBI Sequence Viewer
	P48966	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_598256 ⟸ NM_133572

- Peptide Label:

isoform 1

- Sequence:

show sequence

MEVPPQKSAPGSALSTARVLGGIQRPRHLSGFGFGSDGLLGSPERAASSSPVTTLTQTMYNLAG
LGSETPKTQVGSLSFQNRLTDLSLSRRTSECSLSSESSESSDAGLCMDSPSPMDPQTAERTFEQ
AIQAASRVIQKMQFTIKASVFASEAAGHSPVLQNITNSQALDSWEKDEAGYRAASSPGEDKEND
GYIFKMPQKLPHSSSARALAEWASRREAFTQRPSSAPDLMCLTTDGKMDVEEASPVAQSSSLTP
VERACEEDDGFVDILESDLKDDDMVPAGMENLISAPLVKKLDKEEEQDLIMFSKCQRLFRSPSM
PCSVIRPILKRLERPHDRDVPVLSKRRKSGTPLEEQQLEEPKARVFRSKSLCHEIESILDSDHR
GLIGDYSKAFLLQTVDGKHQDLKYISPETMVALLTGKFSNIVEKFVIVDCRYPYEYEGGHIKNA
VNLPLEPDAETFLLKHPITPCNLDKRIILIFHCEFSSERGPRMCRFIRERDRAANDYPSLYYPE
MYILKGGYKEFFPQHPNFCEPQDYRPMNHAAFRDELRNFRLKTRSWAGERSTTQLCSRLQDQ

hide sequence

RefSeq Acc Id:

XP_006235065 ⟸ XM_006235003

- Peptide Label:

isoform X1

- Sequence:

show sequence

MEVPPQKSAPGSALSTARVLGGIQRPRHLSGFGFGSDGLLGSPERAASSSPVTTLTQTMYNLAG
LGSETPKTQVGSLSFQNRLTDLSLSRRTSECSLSSESSESSDAGLCMDSPSPMDPQTAERTFEQ
AIQAASRVIQNEQFTIKRFRSLPVRLLGHSPVLQNITNSQALDSWEKDEAGYRAASSPGEDKEN
VRFQRPGWRISRERRCLTTDGKMDVEEASPVAQSSSLTPVERACEEDDGFVDILESDLKDDDMV
PAGMENLISAPLVKKLDKEEEQDLIMFSKCQRLFRSPSMPCSVIRPILKRLERPHDRDVPVLSK
RRKSGTPLEEQQLEEPKARVFRSKSLCHEIESILDSDHRGLIGDYSKAFLLQTVDGKHQDLKYI
SPETMVALLTGKFSNIVEKFVIVDCRYPYEYEGGHIKNAVNLPLEPDAETFLLKHPITPCNLDK
RIILIFHCEFSSERGPRMCRFIRERDRAANDYPSLYYPEMYILKGGYKEFFPQHPNFCEPQDYR
PMNHAAFRDELRNFRLKTRSWAGERSRRELCSRLQDQ

hide sequence

RefSeq Acc Id:

ENSRNOP00000051129 ⟸ ENSRNOT00000051064

RefSeq Acc Id:	XP_038960122 ⟸ XM_039104194
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038960121 ⟸ XM_039104193
- Peptide Label:	isoform X1

RefSeq Acc Id:	NP_001376142 ⟸ NM_001389213
- Peptide Label:	isoform 2

RefSeq Acc Id:	XP_038960123 ⟸ XM_039104195
- Peptide Label:	isoform X3

Protein Domains

Rhodanese

Transcriptome

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

Promoters

RGD ID:

13692446

Promoter ID:

EPDNEW_R2971

Type:

initiation region

Name:

Cdc25b_1

Description:

cell division cycle 25B

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	3	123,731,582 - 123,731,642	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

Visual

CSV

TAB

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

ACI/EurMcwi (RGD)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

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

BBDP/Wor (RGD)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

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

GK/Ox (RGD)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

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

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

Damaging Variants

Assembly: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
3	130233931	130233932	C	T	snv	SS/JrHsdMcwi (MCW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), SS/Jr (KNAW), DOB/Oda (KyushuU), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), WN/N (KNAW), LEC/Tj (KyushuU), SS/JrHsdMcwi (KNAW)

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
3	123736242	123736243	C	T	snv	SS/JrHsdMcwi (MCW), CDS, WKY/N (MCW), WN/N (MCW), LH/MavRrrc (RGD), WKY/NHsd (RGD), LL/MavRrrc (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), WKY/NCrl (RGD), LN/MavRrrc (RGD)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:621500	AgrOrtholog
Ensembl Genes	ENSRNOG00000021248	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000051129	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000051064	ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH	3.40.250.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro	MPI_Phosphatase	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Rhodanese-like_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Rhodanese-like_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:171103	UniProtKB/Swiss-Prot
NCBI Gene	171103	ENTREZGENE
Pfam	M-inducer_phosp	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Rhodanese	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Cdc25b	PhenoGen
PRINTS	MPIPHPHTASE	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE	RHODANESE_3	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	RHOD	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF52821	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	F1LQS5_RAT	UniProtKB/TrEMBL
	MPIP2_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-01-23	Cdc25b	cell division cycle 25B	Cdc25b	cell division cycle 25 homolog B (S. pombe)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2007-01-29	Bsnd	cell division cycle 25 homolog B (S. pombe)	Cdc25b	cell division cycle 25 homolog B (S. cerevisiae)	Name updated	1299863	APPROVED
2005-01-20	Cdc25b	cell division cycle 25 homolog B (S. cerevisiae)		cell division cycle 25B	Name updated	1299863	APPROVED
2002-08-07	Cdc25b	cell division cycle 25B			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_expression	predominantly expressed in late G1	724653

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

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

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

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

Imported Disease Annotations - CTD

Imported Annotations - KEGG (archival)