Map3k8 (mitogen-activated protein kinase kinase kinase 8)

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Gene: Map3k8 (mitogen-activated protein kinase kinase kinase 8) Rattus norvegicus

Analyze

Symbol:

Map3k8

Name:

mitogen-activated protein kinase kinase kinase 8

RGD ID:

620969

Description:

Exhibits MAP kinase kinase kinase activity. Predicted to be involved in several processes, including MAPK cascade; activation of MAPKK activity; and protein phosphorylation. Predicted to localize to cytosol. Orthologous to human MAP3K8 (mitogen-activated protein kinase kinase kinase 8); PARTICIPATES IN p38 MAPK signaling pathway; mitogen activated protein kinase signaling pathway; T cell receptor signaling pathway; INTERACTS WITH 1,3-dinitrobenzene; 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

D17TPL2; serine/threonine kinase (Tpl-2); Tpl-2; Tpl2; tumor progression locus 2

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

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	17	53,382,908 - 53,403,216 (+)	NCBI
Rnor_6.0 Ensembl	17	56,109,549 - 56,129,919 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	17	56,109,403 - 56,129,925 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	17	54,146,364 - 54,166,886 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	61,910,179 - 61,930,459 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	17	61,921,011 - 61,941,292 (+)	NCBI
Celera	17	49,376,490 - 49,396,770 (+)	NCBI		Celera
Cytogenetic Map	17	q12.1	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Experimental Liver Cirrhosis (ISO)

lung cancer (ISS)

Lung Neoplasms (ISO)

Myocardial Ischemia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-demecolcine (ISO)

(-)-epigallocatechin 3-gallate (ISO)

1,1-dichloroethene (ISO)

1,3-dinitrobenzene (EXP)

1-naphthyl isothiocyanate (EXP)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

2-hydroxypropanoic acid (ISO)

3,4-methylenedioxymethamphetamine (ISO)

4-hydroxyphenyl retinamide (ISO)

5-aza-2'-deoxycytidine (ISO)

8-Br-cAMP (ISO)

adefovir pivoxil (ISO)

afimoxifene (ISO)

aflatoxin B1 (ISO)

albendazole (ISO)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

amphibole asbestos (ISO)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

belinostat (ISO)

benzene (ISO)

benzo[a]pyrene (ISO)

benzoates (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP)

cadmium dichloride (EXP,ISO)

Calcimycin (ISO)

calcitriol (ISO)

carbon nanotube (ISO)

chloroacetaldehyde (ISO)

choline (ISO)

cisplatin (ISO)

copper atom (ISO)

copper(0) (ISO)

copper(II) sulfate (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

dibutyl phthalate (ISO)

dichloromethane (ISO)

dioxygen (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

doxycycline (ISO)

elemental selenium (ISO)

endosulfan (EXP)

entinostat (ISO)

ethyl methanesulfonate (ISO)

ethylbenzene (ISO)

folic acid (ISO)

formaldehyde (EXP)

furan (EXP)

Genipin (ISO)

hexadecanoic acid (ISO)

hydrogen peroxide (ISO)

isoprenaline (ISO)

ivermectin (ISO)

L-methionine (ISO)

leflunomide (ISO)

lipopolysaccharide (ISO)

lithium atom (ISO)

lithium hydride (ISO)

methotrexate (ISO)

methyl methanesulfonate (ISO)

methylisothiazolinone (ISO)

methylmercury chloride (ISO)

N-nitrosodimethylamine (EXP)

nickel dichloride (EXP,ISO)

o-xylene (ISO)

obeticholic acid (ISO)

ochratoxin A (ISO)

oleic acid (ISO)

oxaliplatin (EXP)

paracetamol (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

procyanidin B3 (ISO)

progesterone (ISO)

prostaglandin E2 (ISO)

protein kinase inhibitor (ISO)

quercetin (ISO)

quinoline (ISO)

rac-lactic acid (ISO)

raloxifene (ISO)

SB 431542 (ISO)

selenium atom (ISO)

serpentine asbestos (ISO)

sertraline (ISO)

Shikonin (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

sodium dodecyl sulfate (ISO)

Soman (EXP)

sulforaphane (ISO)

sulindac (EXP)

tamoxifen (ISO)

toluene (ISO)

topotecan (EXP)

trichloroethene (ISO)

trichostatin A (ISO)

tris(2-butoxyethyl) phosphate (ISO)

trovafloxacin (ISO)

valproic acid (ISO)

vincristine (ISO)

vitamin E (ISO)

vorinostat (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

activation of MAPKK activity (IEA)

immune system process (IEA)

MAPK cascade (IEA)

protein phosphorylation (IEA)

Cellular Component

cytosol (IEA,ISO,TAS)

Molecular Function

ATP binding (IEA)

magnesium ion binding (IEA)

MAP kinase kinase kinase activity (EXP,IEA)

protein binding (ISO)

protein serine kinase activity (IEA)

protein threonine kinase activity (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

mitogen activated protein kinase signaling pathway (IEA)

p38 MAPK signaling pathway (ISO)

T cell receptor signaling pathway (IEA)

Toll-like receptor signaling pathway (IEA)

References

References - curated


1.	Cuadrado A and Nebreda AR, Biochem J. 2010 Aug 1;429(3):403-17. doi: 10.1042/BJ20100323.
2.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	GOA data from the GO Consortium
4.	Kim SO, etal., J Cell Biochem 1998 Nov 1;71(2):286-301.
5.	MGD data from the GO Consortium
6.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
7.	OMIM Disease Annotation Pipeline
8.	Patriotis C, etal., Proc Natl Acad Sci U S A 1993 Mar 15;90(6):2251-5.
9.	Pipeline to import KEGG annotations from KEGG into RGD
10.	RGD automated data pipeline
11.	RGD automated import pipeline for gene-chemical interactions
12.	Salmeron A, etal., EMBO J. 1996 Feb 15;15(4):817-26.

Additional References at PubMed

PMID:8510223	PMID:9950430	PMID:17049604

Genomics

Comparative Map Data

Map3k8
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	17	53,382,908 - 53,403,216 (+)	NCBI
Rnor_6.0 Ensembl	17	56,109,549 - 56,129,919 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	17	56,109,403 - 56,129,925 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	17	54,146,364 - 54,166,886 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	61,910,179 - 61,930,459 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	17	61,921,011 - 61,941,292 (+)	NCBI
Celera	17	49,376,490 - 49,396,770 (+)	NCBI		Celera
Cytogenetic Map	17	q12.1	NCBI

MAP3K8
(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	30,434,021 - 30,461,833 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	10	30,434,021 - 30,461,833 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	10	30,722,950 - 30,750,762 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	30,762,872 - 30,790,767 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	10	30,762,871 - 30,790,767	NCBI
Celera	10	30,487,787 - 30,515,686 (+)	NCBI
Cytogenetic Map	10	p11.23	NCBI
HuRef	10	30,441,888 - 30,469,569 (+)	NCBI		HuRef
CHM1_1	10	30,722,912 - 30,750,718 (+)	NCBI		CHM1_1

Map3k8
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	18	4,331,325 - 4,352,978 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	18	4,331,327 - 4,353,015 (-)	Ensembl
GRCm38	18	4,331,325 - 4,352,953 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	18	4,331,327 - 4,353,015 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	18	4,331,325 - 4,352,951 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	18	4,331,325 - 4,352,951 (-)	NCBI			mm8
Celera	18	4,376,104 - 4,394,119 (-)	NCBI		Celera
Cytogenetic Map	18	A1	NCBI
cM Map	18	2.73	NCBI

Map3k8
(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_004955429	21,716,958 - 21,741,585 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955429	21,717,153 - 21,739,349 (-)	NCBI	ChiLan1.0	ChiLan1.0

MAP3K8
(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	30,933,449 - 30,960,824 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	30,933,483 - 30,960,824 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	10	30,579,220 - 30,607,249 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

MAP3K8
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	16,717,845 - 16,740,816 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	2	16,720,596 - 16,740,515 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	2	14,213,953 - 14,236,910 (+)	NCBI
ROS_Cfam_1.0	2	14,958,609 - 14,981,846 (+)	NCBI
UMICH_Zoey_3.1	2	14,403,368 - 14,426,326 (+)	NCBI
UNSW_CanFamBas_1.0	2	14,289,689 - 14,313,028 (+)	NCBI
UU_Cfam_GSD_1.0	2	14,562,884 - 14,585,927 (+)	NCBI

Map3k8
(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_024409344	9,241,108 - 9,263,359 (-)	NCBI
SpeTri2.0	NW_004936613	3,791,684 - 3,813,857 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

MAP3K8
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	10	40,713,847 - 40,746,630 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	10	40,714,004 - 40,746,390 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	10	45,065,121 - 45,078,892 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

MAP3K8
(Chlorocebus sabaeus - African green monkey)

No map positions available.

Map3k8
(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_004624805	2,611,297 - 2,633,650 (-)	NCBI

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
1354658	Spl8	Serum phospholipid level QTL 8	3.8		blood VLDL phospholipid amount (VT:0010507)	blood very low density lipoprotein phospholipid level (CMO:0001571)	17	1	63676140	Rat
1354662	Rf49	Renal function QTL 49	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	17	1	73413148	Rat
1354581	Bp247	Blood pressure QTL 247	4.5		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	17	1	73413148	Rat
1354596	Bw32	Body weight QTL 32	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	17	3336972	63676140	Rat
1354638	Insul1	Insulin level QTL 1	4.8		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	17	3336972	73413148	Rat
1354651	Lmblg2	Limb length QTL 2	6		tibia length (VT:0004357)	tibia length (CMO:0000450)	17	3336972	73413148	Rat
1354630	Cm34	Cardiac mass QTL 34	8.7		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	17	3336972	73413148	Rat
1331765	Hrtrt15	Heart rate QTL 15	4.094		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	17	15743755	61036897	Rat
1354640	Scl32	Serum cholesterol level QTL 32	5.4		blood HDL cholesterol amount (VT:0000184)	blood high density lipoprotein cholesterol level (CMO:0000052)	17	18676140	63676140	Rat
1354659	Scl68	Serum cholesterol level QTL 68	3.9		blood VLDL cholesterol amount (VT:0005144)	blood very low density lipoprotein cholesterol level (CMO:0000648)	17	18676140	63676140	Rat
7488966	Bp370	Blood pressure QTL 370		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	21490950	62195822	Rat
1559055	Bp278	Blood pressure QTL 278		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	21490950	66490950	Rat
12903978	Cm118	Cardiac mass QTL 118		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	17	21490950	66490950	Rat
12903979	Cm119	Cardiac mass QTL 119		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	17	21490950	66490950	Rat
12903980	Cm120	Cardiac mass QTL 120		0.002	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	17	21490950	66490950	Rat
12903981	Am17	Aortic mass QTL 17		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	17	21490950	66490950	Rat
12903982	Kidm70	Kidney mass QTL 70		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	21490950	74823273	Rat
61394	Bp8	Blood pressure QTL 8	2.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	22775065	64946194	Rat
1354628	Stl13	Serum triglyceride level QTL 13	3.8		blood triglyceride amount (VT:0002644)	blood triglyceride level (CMO:0000118)	17	24030618	63676140	Rat
1581512	Cm55	Cardiac mass QTL 55	2.8	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	17	27690959	61794615	Rat
4889955	Bss93	Bone structure and strength QTL 93	4.4		tibia size trait (VT:0100001)	tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)	17	27690959	63994435	Rat
2302377	Scl61	Serum cholesterol level QTL 61	4.36		blood HDL cholesterol amount (VT:0000184)	serum high density lipoprotein cholesterol level (CMO:0000361)	17	28073589	56207236	Rat
1354619	Bp242	Blood pressure QTL 242	6.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	28413148	73413148	Rat
9590107	Sffal7	Serum free fatty acids level QTL 7	4.81	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	17	30975228	75975228	Rat
8552928	Pigfal9	Plasma insulin-like growth factor 1 level QTL 9	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	17	30975228	75975228	Rat
10450503	Bp386	Blood pressure QTL 386		0.28	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	32055882	58468016	Rat
2324621	Coatc5	Coat color QTL 5			coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	17	32055882	77922655	Rat
724549	Niddm56	Non-insulin dependent diabetes mellitus QTL 56		0.03	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	33303627	78303627	Rat
1354663	Bvd5	Brain ventricular dilatation QTL 5	3.51	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	17	33303627	85321557	Rat
1300148	Bp192	Blood pressure QTL 192	3.47		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	17	36283245	77922655	Rat
724528	Uae4	Urinary albumin excretion QTL 4	4.9	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	17	37790306	73413148	Rat
2317054	Aia12	Adjuvant induced arthritis QTL 12	4.24		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	17	41176057	86176057	Rat
2317060	Aia26	Adjuvant induced arthritis QTL 26	3.22		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	17	41176057	86176057	Rat
2301412	Kidm40	Kidney mass QTL 40		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	41731080	86731080	Rat
1598871	Memor5	Memory QTL 5	5.3		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	17	42541872	85446768	Rat
631497	Bp98	Blood pressure QTL 98	3.66		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	42956021	63994435	Rat
1358295	Aocep1	Aortic cell protein QTL 1	6.1	0.00000071	thoracic aorta cellular protein amount (VT:0010598)	aortic cell percentage	17	44356157	89356157	Rat
1354635	Bp245	Blood pressure QTL 245	6		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	17	48660252	73413148	Rat
1354635	Bp245	Blood pressure QTL 245	6		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	48660252	73413148	Rat
7411575	Bw140	Body weight QTL 140	30.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	17	52410957	90843779	Rat
8694181	Bw151	Body weight QTL 151	4.36	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	17	52410957	90843779	Rat
4889894	Eae33	Experimental allergic encephalomyelitis QTL 33	5.2	0.0001	nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	17	53475180	90690466	Rat
2317053	Aia25	Adjuvant induced arthritis QTL 25	2.69		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	17	53475276	63675975	Rat
2317038	Ginf3	Gastrointestinal inflammation QTL 3	2.89	0.005	liver integrity trait (VT:0010547)	liver granuloma severity score (CMO:0002157)	17	53871488	90843779	Rat
2303580	Gluco49	Glucose level QTL 49	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	17	53991947	90843779	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	178
Count of miRNA genes:	112
Interacting mature miRNAs:	147
Transcripts:	ENSRNOT00000022190
Prediction methods:	Miranda, Pita, Pita,Targetscan, 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			1		12							11
Low	3	37	56	41	7	41	8	11	38	35	34		8
Below cutoff		6							36		5

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_053847	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006254048	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095291	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095292	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095293	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095294	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AH002266	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474030	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217924	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000293	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M94454	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000022190 ⟹ ENSRNOP00000022190

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	17	56,109,549 - 56,129,919 (+)	Ensembl

RefSeq Acc Id:

NM_053847 ⟹ NP_446299

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	17	53,382,936 - 53,403,216 (+)	NCBI
Rnor_6.0	17	56,109,403 - 56,129,925 (+)	NCBI
Rnor_5.0	17	54,146,364 - 54,166,886 (+)	NCBI
RGSC_v3.4	17	61,910,179 - 61,930,459 (+)	RGD
Celera	17	49,376,490 - 49,396,770 (+)	RGD

Sequence:

show sequence

GGAATTTCCCATCGCGGGGGCTCGGGTGTTCTGGGCCAGCCGGCAGGCCCTTTCTGTTTACGGA
GAGAAAGGGGAAATGGAAAAGGCGGGGAGGACGCTGGCGTCGGCTACGCCGCCCCGGGGCCAGT
TCAGACGCCGAGAGTCCGGGGCTGCAGCGTACCGCTCCTCCCGCTGCGGATCGCCCGGCCTTTG
GTCGGCCGCCGGTCGTCCGGACGCCCGTACGTCTGGCTCCCGCTGGCAAGCCACCCGCTGCCCA
CCAAGCCCGAGCTCCGGGCGGGCACACGGAACACTCAGACTCCCCAGCAGGCACCACAGTGATG
GAGTACATGAGCACCGGAAGCGACGAGAAAGAAGAGATTGATTTATTAATTAACCATTTAAACG
TGTCGGAAGTCCTGGACATCATGGAGAACCTTTATGCAAGTGAAGAGCCTGCAGTGTATGAGCC
CAGTCTGATGACCATGTGTCCAGACAGCAATCAAAACAAGGAACATTCAGAGTCGCTGCTTCGG
AGTGGCCAGGAGGTGCCCTGGTTGTCGTCTGTCAGATATGGGACTGTGGAGGATCTGCTTGCAT
TTGCAAACCATATCTCGAATACGACAAAGCATTTTTACAGATGTCGGCCCCAAGAATCTGGGAT
TTTATTAAATATGGTAATCAGTCCCCAGAATGGTCGCTACCAAATCGACTCGGATGTTCTCCTT
GTCCCGTGGAAGCTGACGTACAGGAGCATTGGTTCTGGTTTCGTTCCTCGGGGGGCCTTTGGAA
AAGTGTACTTAGCACAAGACATGAAGACAAAGAAAAGAATGGCATGTAAACTGATCCCTGTAGA
TCAGTTTAAGCCATCAGATGTGGAAATCCAGGCCTGCTTCCGGCACGAGAACATTGCCGAGTTA
TACGGTGCGGTCCTATGGGGCGACACTGTCCATCTCTTCATGGAAGCCGGCGAGGGAGGGTCTG
TCCTGGAGAAGCTGGAGAGCTGTGGGCCCATGAGAGAATTTGAAATTATCTGGGTGACAAAGCA
CGTTCTCAAGGGACTTGATTTTCTGCACTCCAAGAAAGTCATCCACCACGATATCAAACCTAGC
AACATTGTATTCATGTCTACGAAAGCTGTGTTGGTAGATTTTGGCCTGAGTGTTCAAATGACAG
AAGATGTCTATCTCCCCAAGGACCTCCGGGGAACAGAGATCTACATGAGCCCTGAGGTGATTCT
GTGCAGGGGCCATTCCACAAAAGCAGACATCTACAGCCTTGGAGCCACGCTCATTCACATGCAG
ACAGGCACCCCACCCTGGGTGAAGCGCTACCCTCGATCGGCCTATCCCTCCTACCTGTACATAA
TCCACAAGCAGGCACCTCCCCTGGAAGATATTGCTGGTGACTGCAGTCCAGGCATGAGGGAGCT
GATAGAAGCCGCCCTGGAGAGGAACCCCAACCACCGCCCAAAAGCAGCAGACCTACTGAAACAC
GAAGCCCTGAATCCCCCAAGAGAGGACCAGCCACGGTGTCAGAGTCTGGACTCTGCCCTCTTTG
ACCGGAAGAGGCTGCTGAGCAGGAAGGAGCTAGAACTTCCTGAGAACATTGCTGATTCATCATG
CACAGGAAGCACCGAGGAGTCTGAAGTGCTCAGGAGACAGCGTTCCCTCTACATTGATCTCGGA
GCTCTGGCTGGCTACTTCAATATTGTTCGTGGTCCACCAACCCTGGAATATGGCTGATGGATGA
CTCTATTGGCAACAGTAGGGCGGATATTTCTCTCCTGGATGTTGGTTTCACAGATCCTACACAG
CAGCTCTGGATAGTGAATTTTACCCAATTTTTTTAGGAAGCAGGGAGGAGGTCTCTAGTGACAC
AAGAATGTCAAAGCCCTGGCCCCCTTTGTGAAGCTCCTCTGGCATGTTCCAGAGCCCAAGGTTC
TCATTTCTCAGGTGGTGGGACTGGACAAAAGGGAGTGGTGAGCTCAGGAAAGAATCATTTCTGA
TGACAATTCTATTCACTTTGCACTTTAATGGACATTAAAAAATAGCTCTCACAAGATAGTAACC
TAAAATACCTGTTTTTGGTTCTTATATAACCATGGGTTCTTCATTCAACTCAGAAGACCTGATC
TGTGTATATATTTGTGTGTATTATATGGTAACTCTTTGTACCTTGGTTGGTAGAGTCTAGTATA
AGTTTAGTTAATAGTATTTTGGGTGGATAGAACAACTCTAATATTACAGCAATTCACTGGACTA
GTGTCTCACAAATGACTGATTTACTCAGAGCCATTAAGCAGCAGGCCACTAGTGAGAGTTTCTG
TTATGTTCCTATGGAAACACTGTGTATTGTACGTGCTATGCTTAAAACATTTAAAACACAATGT
TTTAAATGTGGACAGAACTGTGTAAACCACATAATTTCTGTACATCCCAAAGGATGAGAAATGT
GACCTTCAAGAAAATGGAAACATTTGTAAATTCTTTGTAGTGATACCTTTGTAATTAATGAAAC
TATTTTTCTTTAAAGTGTTTCTATATTAAAAATAGCATACTGTGTATGTTTTATTCCAAAATTC
CTTCATGAATCTTTCATATATATATGTGTATATATTTTAACATTGTAAAGTATGAGTATTCTTA
TTTAAAGTATATTTTTACATTATGCAAATGAACTTCAACGTTTTAGTCCAATGTGACTGGTCAA
ATAAACCAAATAAACTGAGTATTTTGTCTTAA

hide sequence

RefSeq Acc Id:

XM_006254048 ⟹ XP_006254110

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	17	53,383,295 - 53,403,216 (+)	NCBI
Rnor_6.0	17	56,109,704 - 56,129,925 (+)	NCBI
Rnor_5.0	17	54,146,364 - 54,166,886 (+)	NCBI

Sequence:

show sequence

GGCTTGGGGTGCCCTGAGTGTGTTTCGGGGGCGTTCCACCTGGATGCCTGGGGGTTCCCACTCT
GAAACGGAGCGTGCCTCCCACCAGGGGACACTGGGGTGGCCCGCTGCACGCAGGTACAGCTGGA
AAGCACCTTGCTCCGGGCCGCGGGAGGTGTGGACTCGCGGCTCCTCCCCCTTCCTCCTTCTTCC
CGGATTCCGGGTGACCAGTCAGTGTCGGTCTGGGCTGAGGTGGTGGACGGGAGCACACGCACTC
ACCGCGTCTCCTGCGGGGGACGCTGCCTGGACGGCTGCGTTCTGGTTGCTGAGCCTGGACTCCC
CAGCAGGCACCACAGTGATGGAGTACATGAGCACCGGAAGCGACGAGAAAGAAGAGATTGATTT
ATTAATTAACCATTTAAACGTGTCGGAAGTCCTGGACATCATGGAGAACCTTTATGCAAGTGAA
GAGCCTGCAGTGTATGAGCCCAGTCTGATGACCATGTGTCCAGACAGCAATCAAAACAAGGAAC
ATTCAGAGTCGCTGCTTCGGAGTGGCCAGGAGGTGCCCTGGTTGTCGTCTGTCAGATATGGGAC
TGTGGAGGATCTGCTTGCATTTGCAAACCATATCTCGAATACGACAAAGCATTTTTACGGATGT
CGGCCCCAAGAATCTGGGATTTTATTAAATATGGTAATCAGTCCCCAGAATGGTCGCTACCAAA
TCGACTCGGATGTTCTCCTTGTCCCGTGGAAGCTGACGTACAGGAGCATTGGTTCTGGTTTCGT
TCCTCGGGGGGCCTTTGGAAAAGTGTACTTAGCACAAGACATGAAGACAAAGAAAAGAATGGCA
TGTAAACTGATCCCTGTAGATCAGTTTAAGCCATCAGATGTGGAAATCCAGGCCTGCTTCCGGC
ACGAGAACATTGCTGAGTTATACGGTGCGGTCCTATGGGGCGACACTGTCCATCTCTTCATGGA
AGCTGGCGAGGGAGGGTCTGTCCTGGAGAAGCTGGAGAGCTGTGGGCCCATGAGAGAATTTGAA
ATTATCTGGGTGACAAAGCACGTTCTCAAGGGACTTGATTTTCTGCACTCCAAGAAAGTCATCC
ACCACGATATCAAACCTAGCAACATTGTATTCATGTCTACGAAAGCTGTGTTGGTAGATTTTGG
CCTGAGTGTTCAAATGACAGAAGATGTCTATCTCCCCAAGGACCTCCGGGGAACAGAGATCTAC
ATGAGCCCTGAGGTGATTCTGTGCAGGGGCCATTCCACAAAAGCAGACATCTACAGCCTTGGAG
CCACGCTCATTCACATGCAGACAGGCACCCCACCCTGGGTGAAGCGCTACCCTCGATCGGCCTA
TCCCTCCTACCTGTACATAATCCACAAGCAGGCACCTCCCCTGGAAGATATTGCTGGTGACTGC
AGTCCAGGCATGAGGGAGCTGATAGAAGCCGCCCTGGAGAGGAACCCCAACCACCGCCCAAAAG
CAGCAGACCTACTGAAACACGAAGCCCTGAATCCCCCAAGAGAGGACCAGCCACGGTGTCAGAG
TCTGGACTCTGCCCTCTTTGACCGGAAGAGGCTGCTGAGCAGGAAGGAGCTAGAACTTCCTGAG
AACATTGCTGATTCATCATGCACAGGAAGCACCGAGGAGTCTGAAGTGCTCAGGAGACAGCGTT
CCCTCTACATTGATCTCGGAGCTCTGGCTGGCTACTTCAATATTGTTCGTGGTCCACCAACCCT
GGAATATGGCTGATGGATGACTCTATTGGCAACAGTAGGGCGGATATTTCTCTCCTGGATGTTG
GTTTCACAGACCCTACACAGCAGCTCTGGATAGTGAATTTTACCCAATTTTTTTAGGAAGCAGG
GAGGAGGTCTCTAGTGACACAGGAATGTCAAAGCCCTGGCCCCCTTTGTGAAGCTCCTCTGGCA
TGTTCCAGAGCCCAAGGTTCTCATTTCTCAGGTGGTGGGACTGGACAAAAGGGAGTGGTGAGCT
CAGGAAAGAATCATTTCTGATGACAATTCTATTCACTTTGCACTTTAATGGACATTAAAAAAAT
AGCTCTCACAAGATAGTAACCTAAAATACCTGTTCTTGGTTCTTATATAACCATGGGTTCTTCA
TTCAACTCAGAAGACCTGATCTGTGTATATATTTGTGTGTATTATATGGTAACTCTTTGTACCT
TGGTTGGTAGAGTCTAGTATAAGTTTAGTTAATAGTATTTTGGGTGGATAGAGCAACTCTAATA
TTACAGCAATTCACTGGACTAGTGTCTCACAAATGACTGATTTACTCAGAGCCATTAAGCAGCA
GGCCACTAGTGAGAGTTTCTGTTATGTTCCTATGGAAACACTGTGTATTGTACGTGCTATGCTT
AAAACATTTAAAACACAATGTTTTAAATGTGGACAGAACTGTGTAAACCACATAATTTCTGTAC
ATCCCAAAGGATGAGAAATGTGACCTTCAAGAAAATGGAAACATTTGTAAATTCTTTGTAGTGA
TACCTTTGTAATTAATGAAACTATTTTTCTTTAAAGTGTTTCTATATTAAAAATAGCATACTGT
GTATGTTTTATTCCAAAATTCCTTCATGAATCTTTCATATATATATGTGTATATATTTTAACAT
TGTAAAGTATGAGTATTCTTATTTAAAGTATATTTTTACATTATGCAAATGAACTTCAACGTTT
TAGTCCAATGTGACTGGTCAAATAAACCAAATAAACTGAGTATTTTGTCTTAA

hide sequence

RefSeq Acc Id:

XM_039095291 ⟹ XP_038951219

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	17	53,382,908 - 53,403,216 (+)	NCBI

RefSeq Acc Id:

XM_039095292 ⟹ XP_038951220

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	17	53,383,460 - 53,403,216 (+)	NCBI

RefSeq Acc Id:

XM_039095293 ⟹ XP_038951221

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	17	53,383,476 - 53,403,216 (+)	NCBI

RefSeq Acc Id:

XM_039095294 ⟹ XP_038951222

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	17	53,393,071 - 53,403,216 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_446299	(Get FASTA)	NCBI Sequence Viewer
	XP_006254110	(Get FASTA)	NCBI Sequence Viewer
	XP_038951219	(Get FASTA)	NCBI Sequence Viewer
	XP_038951220	(Get FASTA)	NCBI Sequence Viewer
	XP_038951221	(Get FASTA)	NCBI Sequence Viewer
	XP_038951222	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA42185	(Get FASTA)	NCBI Sequence Viewer
	EDL87455	(Get FASTA)	NCBI Sequence Viewer
	EDL87456	(Get FASTA)	NCBI Sequence Viewer
	Q63562	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_446299 ⟸ NM_053847

- Sequence:

show sequence

MEYMSTGSDEKEEIDLLINHLNVSEVLDIMENLYASEEPAVYEPSLMTMCPDSNQNKEHSESLL
RSGQEVPWLSSVRYGTVEDLLAFANHISNTTKHFYRCRPQESGILLNMVISPQNGRYQIDSDVL
LVPWKLTYRSIGSGFVPRGAFGKVYLAQDMKTKKRMACKLIPVDQFKPSDVEIQACFRHENIAE
LYGAVLWGDTVHLFMEAGEGGSVLEKLESCGPMREFEIIWVTKHVLKGLDFLHSKKVIHHDIKP
SNIVFMSTKAVLVDFGLSVQMTEDVYLPKDLRGTEIYMSPEVILCRGHSTKADIYSLGATLIHM
QTGTPPWVKRYPRSAYPSYLYIIHKQAPPLEDIAGDCSPGMRELIEAALERNPNHRPKAADLLK
HEALNPPREDQPRCQSLDSALFDRKRLLSRKELELPENIADSSCTGSTEESEVLRRQRSLYIDL
GALAGYFNIVRGPPTLEYG

hide sequence

RefSeq Acc Id:

XP_006254110 ⟸ XM_006254048

- Peptide Label:

isoform X1

- Sequence:

show sequence

MPGGSHSETERASHQGTLGWPAARRYSWKAPCSGPREVWTRGSSPFLLLPGFRVTSQCRSGLRW
WTGAHALTASPAGDAAWTAAFWLLSLDSPAGTTVMEYMSTGSDEKEEIDLLINHLNVSEVLDIM
ENLYASEEPAVYEPSLMTMCPDSNQNKEHSESLLRSGQEVPWLSSVRYGTVEDLLAFANHISNT
TKHFYGCRPQESGILLNMVISPQNGRYQIDSDVLLVPWKLTYRSIGSGFVPRGAFGKVYLAQDM
KTKKRMACKLIPVDQFKPSDVEIQACFRHENIAELYGAVLWGDTVHLFMEAGEGGSVLEKLESC
GPMREFEIIWVTKHVLKGLDFLHSKKVIHHDIKPSNIVFMSTKAVLVDFGLSVQMTEDVYLPKD
LRGTEIYMSPEVILCRGHSTKADIYSLGATLIHMQTGTPPWVKRYPRSAYPSYLYIIHKQAPPL
EDIAGDCSPGMRELIEAALERNPNHRPKAADLLKHEALNPPREDQPRCQSLDSALFDRKRLLSR
KELELPENIADSSCTGSTEESEVLRRQRSLYIDLGALAGYFNIVRGPPTLEYG

hide sequence

RefSeq Acc Id:

ENSRNOP00000022190 ⟸ ENSRNOT00000022190

RefSeq Acc Id:	XP_038951219 ⟸ XM_039095291
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038951220 ⟸ XM_039095292
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038951221 ⟸ XM_039095293
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038951222 ⟸ XM_039095294
- Peptide Label:	isoform X3

Protein Domains

Protein kinase

Transcriptome

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

Promoters

RGD ID:

13700526

Promoter ID:

EPDNEW_R11049

Type:

single initiation site

Name:

Map3k8_1

Description:

mitogen-activated protein kinase kinase kinase 8

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	17	56,109,533 - 56,109,593	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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

ACI/EurMcwi (RGD)

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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

ACI/N (MCW)

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

BBDP/Wor (RGD)

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

BN/SsN (MCW)

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CSV

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

Buf/N (MCW)

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

COP/CrCrl (MCW & UW)

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CSV

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

F344/NCrl (RGD)

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CSV

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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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CSV

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

FHH/EurMcwi (MCW)

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CSV

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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)

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

FHL/EurMcwi (MCW)

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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)

FHL/EurMcwi (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

GH/OmrMcwi (MCW)

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CSV

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

GK/Ox (RGD)

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CSV

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

LE/Stm (RGD)

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CSV

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

LEW/Crl (RGD)

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CSV

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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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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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CSV

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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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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

LN/MavRrrc (RGD)

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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

M520/N (MCW)

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CSV

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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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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

MNS/Gib (RGD)

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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

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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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:	SBH/Ygl sequenced by MCW

SBH/Ygl (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

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
17	54146888	54146889	G	T	snv	FHH/EurMcwi (MCW), FHL/EurMcwi (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (MCW)

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
17	56109927	56109928	G	T	snv	FHH/EurMcwi (MCW), FHH/EurMcwi (RGD), FHL/EurMcwi (MCW)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:620969	AgrOrtholog
Ensembl Genes	ENSRNOG00000016378	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000022190	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000022190	UniProtKB/TrEMBL
InterPro	Kinase-like_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	MAPKKK8	UniProtKB/Swiss-Prot
	Prot_kinase_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Ser/Thr_kinase_AS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:116596	UniProtKB/Swiss-Prot
NCBI Gene	116596	ENTREZGENE
Pfam	Pkinase	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Map3k8	PhenoGen
PIRSF	MAPKKK8	UniProtKB/Swiss-Prot
PROSITE	PROTEIN_KINASE_DOM	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PROTEIN_KINASE_ST	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	S_TKc	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF56112	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	G3V840_RAT	UniProtKB/TrEMBL
	M3K8_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2003-04-09	Map3k8	mitogen-activated protein kinase kinase kinase 8			Symbol and Name updated	629477	APPROVED
2003-03-12	Map3k8	mitogen-activated protein kinase kinase kinase 8	Tpl2	tumor progression locus 2	Data Merged	628472	PROVISIONAL
2002-08-07	Map3k8	itogen-activated protein kinase kinase kinase 8			Symbol and Name status set to provisional	70820	PROVISIONAL
2002-06-10	Tpl2	tumor progression locus 2			Symbol and Name status set to approved	70586	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_expression	expressed in most tissues	70317
gene_expression	expression increases after birth	70317
gene_protein	expression is up-regulated during postnatal development	70317

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 Disease Annotations - MGI

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)