Kmt5a (lysine methyltransferase 5A)

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner VCMap Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Kmt5a (lysine methyltransferase 5A) Rattus norvegicus

Analyze

Symbol:

Kmt5a

Name:

lysine methyltransferase 5A

RGD ID:

1587560

Description:

Predicted to have histone-lysine N-methyltransferase activity; p53 binding activity; and transcription corepressor activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II; peptidyl-lysine monomethylation; and regulation of DNA damage response, signal transduction by p53 class mediator. Predicted to localize to cytosol and nucleoplasm. Orthologous to human KMT5A (lysine methyltransferase 5A); PARTICIPATES IN histone modification pathway; methionine cycle/metabolic pathway; p53 signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; acetamide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

histone methyltransferase Pr-set7/Set8; histone-lysine N-methyltransferase SETD8; LOC689820; lysine (K)-specific methyltransferase 5A; N-lysine methyltransferase KMT5A; N-lysine methyltransferase SETD8; Pr-set7; RGD1305893; SET domain containing (lysine methyltransferase) 8; SET domain-containing 8; Setd8; similar to SET domain-containing protein

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

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):	KMT5A (lysine methyltransferase 5A)	RGD	RGD
Mus musculus (house mouse):	Kmt5a (lysine methyltransferase 5A)	RGD	RGD
Chinchilla lanigera (long-tailed chinchilla):	Kmt5a (lysine methyltransferase 5A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	KMT5A (lysine methyltransferase 5A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Kmt5a (lysine methyltransferase 5A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	KMT5A (lysine methyltransferase 5A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	KMT5A (lysine methyltransferase 5A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Kmt5a (lysine methyltransferase 5A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Kmt5a (lysine methyltransferase 5A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Homo sapiens (human):	KMT5A (lysine methyltransferase 5A)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	set-1	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	PR-Set7	Alliance	DIOPT (OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	kmt5aa	Alliance	DIOPT (Hieranoid\|InParanoid\|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	12	32,139,353 - 32,167,777 (-)	NCBI
Rnor_6.0 Ensembl	12	37,559,770 - 37,574,750 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	12	37,558,150 - 37,581,183 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	12	39,428,363 - 39,452,079 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	33,254,018 - 33,270,657 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	12	33,829,691 - 33,843,975 (-)	NCBI		Celera
Cytogenetic Map	12	q15	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

prostate cancer (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

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

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

acetamide (EXP)

acrylamide (ISO)

aflatoxin B1 (ISO)

benzo[a]pyrene (ISO)

berberine (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP,ISO)

cadmium atom (ISO)

carbon nanotube (ISO)

choline (ISO)

cobalt dichloride (ISO)

copper(II) sulfate (ISO)

curcumin (ISO)

cyclosporin A (ISO)

dibutyl phthalate (ISO)

diuron (EXP)

doxorubicin (ISO)

endosulfan (ISO)

ethanol (ISO)

folic acid (ISO)

fulvestrant (ISO)

isoprenaline (ISO)

ketamine (EXP)

L-methionine (ISO)

lead(0) (ISO)

lead(2+) (ISO)

methylmercury chloride (ISO)

paracetamol (ISO)

pentachlorophenol (ISO)

pirinixic acid (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

tetrachloromethane (EXP)

tetraphene (ISO)

titanium dioxide (ISO)

trimellitic anhydride (ISO)

triphenyl phosphate (EXP)

triptonide (ISO)

valproic acid (ISO)

zearalenone (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

histone lysine methylation (IEA)

negative regulation of transcription by RNA polymerase II (ISO)

negative regulation of transcription, DNA-templated (ISO)

peptidyl-lysine monomethylation (ISO)

regulation of DNA damage response, signal transduction by p53 class mediator (ISO)

Cellular Component

cellular_component (ND)

chromosome (IEA)

cytosol (ISO)

nucleoplasm (ISO)

nucleus (IEA)

Molecular Function

histone-lysine N-methyltransferase activity (ISO)

molecular_function (ND)

p53 binding (ISO)

protein binding (ISO)

protein-lysine N-methyltransferase activity (ISO)

transcription corepressor activity (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

histone modification pathway (ISO)

lysine degradation pathway (IEA)

methionine cycle/metabolic pathway (ISO)

p53 signaling pathway (ISO)

References

References - curated


1.	He Y, etal., Acta Biochim Biophys Sin (Shanghai). 2012 Jan;44(1):70-9. doi: 10.1093/abbs/gmr109.
2.	Pipeline to import KEGG annotations from KEGG into RGD
3.	RGD automated data pipeline
4.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	RGD automated import pipeline for gene-chemical interactions
6.	RGD comprehensive gene curation

Additional References at PubMed

PMID:15326124	PMID:15632090	PMID:17707234	PMID:18408754	PMID:18474616	PMID:22720056

Genomics

Comparative Map Data

Kmt5a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	12	32,139,353 - 32,167,777 (-)	NCBI
Rnor_6.0 Ensembl	12	37,559,770 - 37,574,750 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	12	37,558,150 - 37,581,183 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	12	39,428,363 - 39,452,079 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	33,254,018 - 33,270,657 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	12	33,829,691 - 33,843,975 (-)	NCBI		Celera
Cytogenetic Map	12	q15	NCBI

KMT5A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	12	123,383,773 - 123,409,353 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	12	123,384,132 - 123,409,353 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	12	123,868,679 - 123,893,900 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	122,434,657 - 122,459,853 (+)	NCBI	NCBI36		hg18	NCBI36
Celera	12	123,461,215 - 123,486,597 (+)	NCBI
Cytogenetic Map	12	q24.31	NCBI
HuRef	12	120,829,632 - 120,854,730 (+)	NCBI		HuRef
CHM1_1	12	123,683,455 - 123,708,653 (+)	NCBI		CHM1_1

Kmt5a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	124,577,993 - 124,600,374 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	5	124,577,993 - 124,600,371 (+)	Ensembl
GRCm38	5	124,439,930 - 124,462,311 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	124,439,930 - 124,462,308 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	124,889,939 - 124,912,316 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	5	124,700,548 - 124,722,925 (+)	NCBI			mm8
Celera	5	121,513,480 - 121,535,737 (+)	NCBI		Celera
Cytogenetic Map	5	F	NCBI

Kmt5a
(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_004955482	5,485,649 - 5,501,636 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955482	5,488,151 - 5,500,764 (-)	NCBI	ChiLan1.0	ChiLan1.0

KMT5A
(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	12	125,211,201 - 125,234,986 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
Mhudiblu_PPA_v0	12	120,982,059 - 121,007,360 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

Kmt5a
(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_024405118	158,125,115 - 158,134,261 (+)	NCBI
SpeTri2.0	NW_004936558	1,346,040 - 1,366,601 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

KMT5A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	29,523,104 - 29,543,493 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	29,523,102 - 29,543,522 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	31,215,887 - 31,234,841 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

KMT5A
(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	11	118,712,964 - 118,743,322 (+)	NCBI
ChlSab1.1 Ensembl	11	118,723,029 - 118,743,325 (+)	Ensembl

Kmt5a
(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_004624747	23,289,118 - 23,309,465 (+)	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
7387292	Kidm42	Kidney mass QTL 42	3.03	0.0004	kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	12	1	38334225	Rat
9590086	Insglur6	Insulin/glucose ratio QTL 6	18.97	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	12	150810	45150810	Rat
9590147	Scort7	Serum corticosterone level QTL 7	13.61	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	12	150810	45150810	Rat
7411545	Bw128	Body weight QTL 128	5.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	150810	45150810	Rat
7411586	Foco5	Food consumption QTL 5	5.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	150810	45150810	Rat
7411660	Foco28	Food consumption QTL 28	10.9	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	150810	45150810	Rat
7411595	Foco9	Food consumption QTL 9	4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	150810	45150810	Rat
8694179	Bw150	Body weight QTL 150	2.9	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	150810	45150810	Rat
2303575	Insul14	Insulin level QTL 14	4		blood insulin amount (VT:0001560)	blood insulin level (CMO:0000349)	12	492578	45492578	Rat
737979	Pia22	Pristane induced arthritis QTL 22	53.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	2475687	47475687	Rat
634351	Apr5	Acute phase response QTL 5	6.7		blood interleukin-6 amount (VT:0008595)	plasma interleukin-6 level (CMO:0001927)	12	2513442	47513442	Rat
2302042	Pia38	Pristane induced arthritis QTL 38	3.5	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	2513442	47513442	Rat
634350	Apr4	Acute phase response QTL 4	6		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	4210051	49210051	Rat
7411547	Bw129	Body weight QTL 129		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	9223626	52716770	Rat
7411588	Foco6	Food consumption QTL 6		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	9223626	52716770	Rat
7411597	Foco10	Food consumption QTL 10		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	9223626	52716770	Rat
7411641	Foco19	Food consumption QTL 19	27.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	9223626	52716770	Rat
8552918	Pigfal7	Plasma insulin-like growth factor 1 level QTL 7			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	9223626	52716770	Rat
8552964	Pigfal17	Plasma insulin-like growth factor 1 level QTL 17	3.5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	9223626	52716770	Rat
8552912	Pigfal6	Plasma insulin-like growth factor 1 level QTL 6	5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	9223630	52716770	Rat
10059594	Kidm46	Kidney mass QTL 46	3.79	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	12	9789834	52716770	Rat
1331761	Bp218	Blood pressure QTL 218	2.973		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	13127211	50320041	Rat
61404	Bw120	Body weight QTL 120	5.1		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	12	14419775	52716770	Rat
1549829	Scl48	Serum cholesterol level QTL 48	5		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	12	15021986	52716770	Rat
61421	Cia12	Collagen induced arthritis QTL 12	4.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	15714609	41291738	Rat
2300186	Bmd59	Bone mineral density QTL 59	7.1	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	12	15908900	52716770	Rat
2293699	Bss49	Bone structure and strength QTL 49	5.61	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	12	15908900	52716770	Rat
631543	Bp83	Blood pressure QTL 83	5.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	17185580	44098244	Rat
2293684	Bmd26	Bone mineral density QTL 26	4.4	0.0002	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	12	17960865	38409001	Rat
1641928	Alcrsp5	Alcohol response QTL 5			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	12	18342477	52716770	Rat
2303569	Gluco44	Glucose level QTL 44	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	18342477	52716770	Rat
2302060	Pia37	Pristane induced arthritis QTL 37	6.1	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	18729043	52716770	Rat
1549902	Bp269	Blood pressure QTL 269			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	18752593	52716770	Rat
1549912	Bp268	Blood pressure QTL 268			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	18752593	52716770	Rat
737822	Alc10	Alcohol consumption QTL 10	2.2		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	12	22650702	45946937	Rat
5684888	Pia42	Pristane induced arthritis QTL 42			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	22650702	48598906	Rat
61324	Eae5	Experimental allergic encephalomyelitis QTL 5	14		nervous system integrity trait (VT:0010566)	percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)	12	22650702	52716770	Rat
1298081	Cia25	Collagen induced arthritis QTL 25	4.7		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	22650721	41291738	Rat
70213	Niddm27	Non-insulin dependent diabetes mellitus QTL 27	3.72		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	22876297	43799153	Rat
631560	Apr1	Acute phase response QTL 1	6.1		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	24906590	52716770	Rat
7411643	Foco20	Food consumption QTL 20		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	26098845	52716770	Rat
70169	Eae13	Experimental allergic encephalomyelitis QTL 13		0.032	nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	12	27190240	42196641	Rat
8693658	Alc33	Alcohol consumption QTL 33	2.1	0.68	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	12	29113609	49560679	Rat
8693635	Alc28	Alcohol consumption QTL 28	2.7	0.439	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	12	29113609	50757185	Rat
1556747	Calcic1	Intracellular calcium level QTL 1		3.6	platelet calcium amount (VT:0010500)	platelet intracellular calcium level (CMO:0000922)	12	31723565	47433663	Rat
1300175	Cm5	Cardiac mass QTL 5	3.78		heart mass (VT:0007028)	heart left ventricle weight to body weight ratio (CMO:0000530)	12	31723565	51955754	Rat
1600386	Calcic2	Intracellular calcium level QTL 2		0.001	platelet physiology trait (VT:0005464)	platelet intracellular calcium level (CMO:0000922)	12	31723565	52716770	Rat
1331787	Rf41	Renal function QTL 41	2.998		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	12	31723688	45946802	Rat
631829	Alc6	Alcohol consumption QTL 6	4.7		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	12	32289782	43305579	Rat
1300162	Bp188	Blood pressure QTL 188	3.19		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	37521884	51955754	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	32
Count of miRNA genes:	30
Interacting mature miRNAs:	31
Transcripts:	ENSRNOT00000066253
Prediction methods:	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	36	45	29	19	29	1	3	67	34	36	11	1
Low		7	12	12		12	7	8	7	1	5		7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001246665	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006249328	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006249330	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017598457	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017598458	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089770	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089771	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089772	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089773	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089774	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AB606422	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473973	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DV214760	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DY311222	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000228	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JN896763	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000066253 ⟹ ENSRNOP00000062763

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	12	37,559,770 - 37,574,750 (-)	Ensembl

RefSeq Acc Id:

NM_001246665 ⟹ NP_001233594

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	32,140,973 - 32,156,509 (-)	NCBI
Rnor_6.0	12	37,559,770 - 37,574,750 (-)	NCBI
Rnor_5.0	12	39,428,363 - 39,452,079 (-)	NCBI
Celera	12	33,829,691 - 33,843,975 (-)	NCBI

Sequence:

show sequence

ATGGTGGAGCGGAGGGGCCCGGGGAGGCCCCGCAGCGACGGGGAGAACGTGTTTGCTGGGCAGT
CAAAGATCTATGCCTACATGAGTCCGAACAAATGCTCTGGAATGCGTTCTCCACTGCAGGAAGA
GAACTCCGTCGCACATCATGAGGTCAAATGCCCGGGGAAACCATTGGCCGGAATCTACAGGAAG
CGAGAAGAGAAAAGAAACGCTGGGAATGTTATCCGAAGCGCTGTGAAGTCAGAAGAACAGAAGA
GCAAAGATACCAGGAGAGGTCCCCTGGCGCCTTTTCCAAACCAAAAACCTGAAGCAACAGAACC
TCCAAAAACTCCACCCCCGTCATGTGATTCTACCAGTGTAGCGGTTGCTAAGCAAGCCCTGAAA
AAGCCCCTCAAGGGCAAGCAGGCCCCTCGGAAGAAGTCTCAAGGGAAGACACAGCAGAATAGAA
AACTCACAGATTTCTACCCCGTGCGAAGGAGCTCCAGGAAGAGCAAAGCTGAGCTGCAGTCTGA
AGAAAGGAAGAAGATAGATGAGCTAATTGAGAGCGGGAAGGAAGAGGGCATGAAGATTGATCTA
ATCGATGGCAAAGGCAGGGGTGTGATTGCTACCAAGCGATTCTCCCGGGGAGACTTTGTGGTAG
AATACCATGGAGACCTCATTGAAATCACCGATGCCAAGAAGCGGGAGGCTCTGTATGCACAGGA
CCCCTCCACGGGCTGCTACATGTACTATTTTCAATATCTGAGCAAAACCTACTGCGTGGATGCC
ACTCAAGAAACGAACCGCCTGGGGAGACTGATCAATCACAGTAAGTGTGGGAATTGCCAGACCA
AACTGCATGACATCGACGGCGTGCCTCACCTCATCCTCATAGCCTCCCGAGACATTGCGGCCGG
GGAGGAGCTCCTGTACGACTATGGAGACCGGAGCAAGGCCTCCATCGAAGCCTACCCTTGGCTG
AAGCACTAA

hide sequence

RefSeq Acc Id:

XM_006249328 ⟹ XP_006249390

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	32,139,353 - 32,162,728 (-)	NCBI
Rnor_6.0	12	37,558,150 - 37,581,183 (-)	NCBI
Rnor_5.0	12	39,428,363 - 39,452,079 (-)	NCBI

Sequence:

show sequence

GCAGTTGGCTACAGTTGTTGCAACTTTTTTCGAAAGCTGGGTTTCCCGGGAGATTCCAGACGGT
GACAGAGCGGGGCCATGGCTAGAGGCAGGAAGATGTGCAAGCCCCGCGCGGTGGAGGCGGCGGC
AGCGGCGGTGGCGGCGACGGCCCCGGGCCCGGAGATGGTGGAGCGGAGGGGCCCGGGGAGGCCC
CGCAGCGACGGGGAGAACGTGTTTGCTGGGCAGTCAAAGATCTATGCCTACATGAGTCCGAACA
AATGCTCTGGAATGCGTTCTCCACTGCAGGAAGAGAACTCCGTCGCACATCATGAGGTCAAATG
CCCGGGGAAACCATTGGCCGGAATCTACAGGAAGCGAGAAGAGAAAAGAAACGCTGGGAATGTT
ATCCGAAGCGCTGTGAAGTCAGAAGAACAGAAGAGCAAAGATACCAGGAGAGGTCCCCTGGCGC
CTTTTCCAAACCAAAAACCTGAAGCAACAGAACCTCCAAAAACTCCACCCCCGTCATGTGATTC
TACCAGTGTAGCGGTTGCTAAGCAAGCCCTGAAAAAGCCCCTCAAGGGCAAGCAGGCCCCTCGG
AAGAAGTCTCAAGGGAAGACACAGCAGAATAGAAAACTCACAGATTTCTACCCCGTGCGAAGGA
GCTCCAGGAAGAGCAAAGCTGAGCTGCAGTCTGAAGAAAGGAAGAAGATAGATGAGCTAATTGA
GAGCGGGAAGGAAGAGGGCATGAAGATTGATCTAATCGATGGCAAAGGCAGGGGTGTGATTGCT
ACCAAGCGATTCTCCCGGGGAGACTTTGTGGTAGAATACCATGGAGACCTCATTGAAATCACCG
ATGCCAAGAAGCGGGAGGCTCTGTATGCACAGGACCCCTCCACGGGCTGCTACATGTACTATTT
TCAATATCTGAGCAAAACCTACTGCGTGGATGCCACTCAAGAAACGAACCGCCTGGGGAGACTG
ATCAATCACAGTAAGTGTGGGAATTGCCAGACCAAACTGCATGACATCGACGGCGTGCCTCACC
TCATCCTCATAGCCTCCCGAGACATTGCGGCCGGGGAGGAGCTCCTGTACGACTATGGAGACCG
GAGCAAGGCCTCCATCGAAGCCTACCCTTGGCTGAAGCACTAACCAACCATGTGGCCTCCCTGC
CTCCCTGCCACCCTGCCTCCTTCAAAGGACAAAGTGCCCTCAAAGGGAAATGAATTTTTTACAC
ACACACACACACACACACACACACACACACACACACACACACACACACTCACACTCACTCTTAG
CTAATTACTTCAAATGTTTTTAAAAAGTATATTAAAGATGCCTTTTCATGTAGTATTTAAATAT
CTGTTACAGGTTTCCAAGGTGGACTTGAACAGATGGCCTTATATTACCAAAACTTTTATATTCT
AGTTGTTTTTCTACCTTTTTGCATACAAGCTGAACATTTGTGCTTCCCGCGCAGTGTAAGACTC
GGCACAGGTTTTAGAGAATGGAGTTGAACATGAACTAGGAAGCCGGGCTCTGCCCAAGATGAAA
GCCAGGACTCCCCCGCACCCCACGTCCGAGGACAGGCCGGTGTGAGGGTGCTGCCACCCCCACG
CACAGCCTGGACGGGATGTCTCCAAGCTCTTGTTCTCCTCAACGTCTTGACAGGTGTACACATT
GACGTGTATGAATATTTTTTAGCAAAAGTTTCACAGTAAGCTAGTCTTCCCCTCTGCTTTCTCC
AAAGCTTACTGAGCCCGGGGCTCGGAGGCCCGGCCAGGAACAGACCTCTTCCACAGGCTTACGG
CTTTTCCAGGCACCTTGAAGCATCAGGGTGGGCAGTCAGACTAGAGGCGGGCCGGGAAAAGCAC
TGTTCTCCTGCCCAAGAAGGGCAGGTCTCCTGAAACTGCATTAATTCTTTATAGAAATGTGAAC
ACTGAATTTATTTTAAAAAATAATAATAAAAAAACAAAATAGTAAAAAAAAATTTAAAAAGAAA
AAAAATGGAAAAAAAAAACCCACAGAAAACAACTTAACATGTATATAGGTTTTGAAGGGAGTGA
AATGAATGCAGTTTTCTTTTCTTCTGGGGTTTATTTTTCTTTTTGGCTTGGCTGGTTGGTTTGT
GTAGAGAAGATTTGAGATGGTACTCTATTCTAATCAAAAGTGAGGTTTGTAGTGGGACCAGAAA
TTACTAAGCCCACACCCCCTCCCCAACCCCAATTCTGCTACGTGGGAAGTTCTCTACCTGCTGT
CAAGGCAGAACCCCTGGTCTCCCGTGAAGATGCCGTCAGTCCTGTGGGCATCAGACACCAGATG
TGTTTGGCTCTAGGGTACCTGGCAGCCCGCAAGGCTTAGCAGCCAGAGATCAGGAGGATCCTTC
AGTTGTAACCTGTGATAGCAAGAGTAGGCTTCCTTCTCCCTCCTTGGGGAGGACTAACCATTCA
CCTTCAGTCCAGGGGGCCTGGGGTTCAGGAGCCAGGTGTAAGAGCCTACCCTTGTCCCCAGTAC
CTCCATCTCCCAGCCTCATGATGGTGCTACCTAAGAAAGTCTTCCCCGCACCCTTTGCTAGCCC
AGTCAGTGGTCAGACTTGGAGGAGGATCCGACAGGAGGGTGTAACTGTGAGATAAAATGTCTTG
GTTGTACCTGTTTGTGGCTTAGCTTTGTATTTAAATAGCAAACAAAAAAAGGAAATAAACTTGA
AACTTATTTGTCATCTTAAAAATAAAGCAAAAAAATTAAAGTATTTATTTCCAGGCAAGGGCA

hide sequence

RefSeq Acc Id:

XM_006249330 ⟹ XP_006249392

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	32,139,353 - 32,155,853 (-)	NCBI
Rnor_6.0	12	37,558,150 - 37,574,027 (-)	NCBI
Rnor_5.0	12	39,428,363 - 39,452,079 (-)	NCBI

Sequence:

show sequence

TTAGCCTGTTTCTGTGCTAGTGGCTGACTCCCTAGCCTGGGGGGCTAACCCCTGACTCAGCCCA
GCCCTTCGAATCCAGAGTCAGTTTTCCCTGGGTCATTCTGACCTCCCTGCTGCTGGAGAACGTG
TTTGCTGGGCAGTCAAAGATCTATGCCTACATGAGTCCGAACAAATGCTCTGGAATGCGTTCTC
CACTGCAGGAAGAGAACTCCGTCGCACATCATGAGGTCAAATGCCCGGGGAAACCATTGGCCGG
AATCTACAGGAAGCGAGAAGAGAAAAGAAACGCTGGGAATGTTATCCGAAGCGCTGTGAAGTCA
GAAGAACAGAAGAGCAAAGATACCAGGAGAGGTCCCCTGGCGCCTTTTCCAAACCAAAAACCTG
AAGCAACAGAACCTCCAAAAACTCCACCCCCGTCATGTGATTCTACCAGTGTAGCGGTTGCTAA
GCAAGCCCTGAAAAAGCCCCTCAAGGGCAAGCAGGCCCCTCGGAAGAAGTCTCAAGGGAAGACA
CAGCAGAATAGAAAACTCACAGATTTCTACCCCGTGCGAAGGAGCTCCAGGAAGAGCAAAGCTG
AGCTGCAGTCTGAAGAAAGGAAGAAGATAGATGAGCTAATTGAGAGCGGGAAGGAAGAGGGCAT
GAAGATTGATCTAATCGATGGCAAAGGCAGGGGTGTGATTGCTACCAAGCGATTCTCCCGGGGA
GACTTTGTGGTAGAATACCATGGAGACCTCATTGAAATCACCGATGCCAAGAAGCGGGAGGCTC
TGTATGCACAGGACCCCTCCACGGGCTGCTACATGTACTATTTTCAATATCTGAGCAAAACCTA
CTGCGTGGATGCCACTCAAGAAACGAACCGCCTGGGGAGACTGATCAATCACAGTAAGTGTGGG
AATTGCCAGACCAAACTGCATGACATCGACGGCGTGCCTCACCTCATCCTCATAGCCTCCCGAG
ACATTGCGGCCGGGGAGGAGCTCCTGTACGACTATGGAGACCGGAGCAAGGCCTCCATCGAAGC
CTACCCTTGGCTGAAGCACTAACCAACCATGTGGCCTCCCTGCCTCCCTGCCACCCTGCCTCCT
TCAAAGGACAAAGTGCCCTCAAAGGGAAATGAATTTTTTACACACACACACACACACACACACA
CACACACACACACACACACACACACACTCACACTCACTCTTAGCTAATTACTTCAAATGTTTTT
AAAAAGTATATTAAAGATGCCTTTTCATGTAGTATTTAAATATCTGTTACAGGTTTCCAAGGTG
GACTTGAACAGATGGCCTTATATTACCAAAACTTTTATATTCTAGTTGTTTTTCTACCTTTTTG
CATACAAGCTGAACATTTGTGCTTCCCGCGCAGTGTAAGACTCGGCACAGGTTTTAGAGAATGG
AGTTGAACATGAACTAGGAAGCCGGGCTCTGCCCAAGATGAAAGCCAGGACTCCCCCGCACCCC
ACGTCCGAGGACAGGCCGGTGTGAGGGTGCTGCCACCCCCACGCACAGCCTGGACGGGATGTCT
CCAAGCTCTTGTTCTCCTCAACGTCTTGACAGGTGTACACATTGACGTGTATGAATATTTTTTA
GCAAAAGTTTCACAGTAAGCTAGTCTTCCCCTCTGCTTTCTCCAAAGCTTACTGAGCCCGGGGC
TCGGAGGCCCGGCCAGGAACAGACCTCTTCCACAGGCTTACGGCTTTTCCAGGCACCTTGAAGC
ATCAGGGTGGGCAGTCAGACTAGAGGCGGGCCGGGAAAAGCACTGTTCTCCTGCCCAAGAAGGG
CAGGTCTCCTGAAACTGCATTAATTCTTTATAGAAATGTGAACACTGAATTTATTTTAAAAAAT
AATAATAAAAAAACAAAATAGTAAAAAAAAATTTAAAAAGAAAAAAAATGGAAAAAAAAAACCC
ACAGAAAACAACTTAACATGTATATAGGTTTTGAAGGGAGTGAAATGAATGCAGTTTTCTTTTC
TTCTGGGGTTTATTTTTCTTTTTGGCTTGGCTGGTTGGTTTGTGTAGAGAAGATTTGAGATGGT
ACTCTATTCTAATCAAAAGTGAGGTTTGTAGTGGGACCAGAAATTACTAAGCCCACACCCCCTC
CCCAACCCCAATTCTGCTACGTGGGAAGTTCTCTACCTGCTGTCAAGGCAGAACCCCTGGTCTC
CCGTGAAGATGCCGTCAGTCCTGTGGGCATCAGACACCAGATGTGTTTGGCTCTAGGGTACCTG
GCAGCCCGCAAGGCTTAGCAGCCAGAGATCAGGAGGATCCTTCAGTTGTAACCTGTGATAGCAA
GAGTAGGCTTCCTTCTCCCTCCTTGGGGAGGACTAACCATTCACCTTCAGTCCAGGGGGCCTGG
GGTTCAGGAGCCAGGTGTAAGAGCCTACCCTTGTCCCCAGTACCTCCATCTCCCAGCCTCATGA
TGGTGCTACCTAAGAAAGTCTTCCCCGCACCCTTTGCTAGCCCAGTCAGTGGTCAGACTTGGAG
GAGGATCCGACAGGAGGGTGTAACTGTGAGATAAAATGTCTTGGTTGTACCTGTTTGTGGCTTA
GCTTTGTATTTAAATAGCAAACAAAAAAAGGAAATAAACTTGAAACTTATTTGTCATCTTAAAA
ATAAAGCAAAAAAATTAAAGTATTTATTTCCAGGCAAGGGCA

hide sequence

RefSeq Acc Id:

XM_017598457 ⟹ XP_017453946

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	12	37,558,150 - 37,575,901 (-)	NCBI

Sequence:

show sequence

GGCCTGCTGCGGGCCATGGGCGAAGCGGGCGCCGTGGGGCGCCGCCGGCCCTTTCCCGGGGCGC
CGCGGCGGCGCTGGTGGCGGCGGCAGCAGCAGCAGCAGCAGCGGCGGCGGCAGCGCTGGTGGCC
GGGCCGCGGCGAGGGCGAGGGCGCCGGCCGTGCCGCCATGGGCCTAGCCGGGCTCCAGGAGAAC
GTGTTTGCTGGGCAGTCAAAGATCTATGCCTACATGAGTCCGAACAAATGCTCTGGAATGCGTT
CTCCACTGCAGGAAGAGAACTCCGTCGCACATCATGAGGTCAAATGCCCGGGGAAACCATTGGC
CGGAATCTACAGGAAGCGAGAAGAGAAAAGAAACGCTGGGAATGTTATCCGAAGCGCTGTGAAG
TCAGAAGAACAGAAGAGCAAAGATACCAGGAGAGGTCCCCTGGCGCCTTTTCCAAACCAAAAAC
CTGAAGCAACAGAACCTCCAAAAACTCCACCCCCGTCATGTGATTCTACCAGTGTAGCGGTTGC
TAAGCAAGCCCTGAAAAAGCCCCTCAAGGGCAAGCAGGCCCCTCGGAAGAAGTCTCAAGGGAAG
ACACAGCAGAATAGAAAACTCACAGATTTCTACCCCGTGCGAAGGAGCTCCAGGAAGAGCAAAG
CTGAGCTGCAGTCTGAAGAAAGGAAGAAGATAGATGAGCTAATTGAGAGCGGGAAGGAAGAGGG
CATGAAGATTGATCTAATCGATGGCAAAGGCAGGGGTGTGATTGCTACCAAGCGATTCTCCCGG
GGAGACTTTGTGGTAGAATACCATGGAGACCTCATTGAAATCACCGATGCCAAGAAGCGGGAGG
CTCTGTATGCACAGGACCCCTCCACGGGCTGCTACATGTACTATTTTCAATATCTGAGCAAAAC
CTACTGCGTGGATGCCACTCAAGAAACGAACCGCCTGGGGAGACTGATCAATCACAGTAAGTGT
GGGAATTGCCAGACCAAACTGCATGACATCGACGGCGTGCCTCACCTCATCCTCATAGCCTCCC
GAGACATTGCGGCCGGGGAGGAGCTCCTGTACGACTATGGAGACCGGAGCAAGGCCTCCATCGA
AGCCTACCCTTGGCTGAAGCACTAACCAACCATGTGGCCTCCCTGCCTCCCTGCCACCCTGCCT
CCTTCAAAGGACAAAGTGCCCTCAAAGGGAAATGAATTTTTTACACACACACACACACACACAC
ACACACACACACACACACACACACACACACTCACACTCACTCTTAGCTAATTACTTCAAATGTT
TTTAAAAAGTATATTAAAGATGCCTTTTCATGTAGTATTTAAATATCTGTTACAGGTTTCCAAG
GTGGACTTGAACAGATGGCCTTATATTACCAAAACTTTTATATTCTAGTTGTTTTTCTACCTTT
TTGCATACAAGCTGAACATTTGTGCTTCCCGCGCAGTGTAAGACTCGGCACAGGTTTTAGAGAA
TGGAGTTGAACATGAACTAGGAAGCCGGGCTCTGCCCAAGATGAAAGCCAGGACTCCCCCGCAC
CCCACGTCCGAGGACAGGCCGGTGTGAGGGTGCTGCCACCCCCACGCACAGCCTGGACGGGATG
TCTCCAAGCTCTTGTTCTCCTCAACGTCTTGACAGGTGTACACATTGACGTGTATGAATATTTT
TTAGCAAAAGTTTCACAGTAAGCTAGTCTTCCCCTCTGCTTTCTCCAAAGCTTACTGAGCCCGG
GGCTCGGAGGCCCGGCCAGGAACAGACCTCTTCCACAGGCTTACGGCTTTTCCAGGCACCTTGA
AGCATCAGGGTGGGCAGTCAGACTAGAGGCGGGCCGGGAAAAGCACTGTTCTCCTGCCCAAGAA
GGGCAGGTCTCCTGAAACTGCATTAATTCTTTATAGAAATGTGAACACTGAATTTATTTTAAAA
AATAATAATAAAAAAACAAAATAGTAAAAAAAAATTTAAAAAGAAAAAAAATGGAAAAAAAAAA
CCCACAGAAAACAACTTAACATGTATATAGGTTTTGAAGGGAGTGAAATGAATGCAGTTTTCTT
TTCTTCTGGGGTTTATTTTTCTTTTTGGCTTGGCTGGTTGGTTTGTGTAGAGAAGATTTGAGAT
GGTACTCTATTCTAATCAAAAGTGAGGTTTGTAGTGGGACCAGAAATTACTAAGCCCACACCCC
CTCCCCAACCCCAATTCTGCTACGTGGGAAGTTCTCTACCTGCTGTCAAGGCAGAACCCCTGGT
CTCCCGTGAAGATGCCGTCAGTCCTGTGGGCATCAGACACCAGATGTGTTTGGCTCTAGGGTAC
CTGGCAGCCCGCAAGGCTTAGCAGCCAGAGATCAGGAGGATCCTTCAGTTGTAACCTGTGATAG
CAAGAGTAGGCTTCCTTCTCCCTCCTTGGGGAGGACTAACCATTCACCTTCAGTCCAGGGGGCC
TGGGGTTCAGGAGCCAGGTGTAAGAGCCTACCCTTGTCCCCAGTACCTCCATCTCCCAGCCTCA
TGATGGTGCTACCTAAGAAAGTCTTCCCCGCACCCTTTGCTAGCCCAGTCAGTGGTCAGACTTG
GAGGAGGATCCGACAGGAGGGTGTAACTGTGAGATAAAATGTCTTGGTTGTACCTGTTTGTGGC
TTAGCTTTGTATTTAAATAGCAAACAAAAAAAGGAAATAAACTTGAAACTTATTTGTCATCTTA
AAAATAAAGCAAAAAAATTAAAGTATTTATTTCCAGGCAAGGGCA

hide sequence

RefSeq Acc Id:

XM_017598458 ⟹ XP_017453947

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	32,139,353 - 32,162,703 (-)	NCBI
Rnor_6.0	12	37,558,152 - 37,581,176 (-)	NCBI

Sequence:

show sequence

GCTACAGTTGTTGCAACTTTTTTCGAAAGCTGGGTTTCCCGGGAGATTCCAGACGGTGACAGAG
CGGGGCCATGGCTAGAGGAGAACGTGTTTGCTGGGCAGTCAAAGATCTATGCCTACATGAGTCC
GAACAAATGCTCTGGAATGCGTTCTCCACTGCAGGAAGAGAACTCCGTCGCACATCATGAGGTC
AAATGCCCGGGGAAACCATTGGCCGGAATCTACAGGAAGCGAGAAGAGAAAAGAAACGCTGGGA
ATGTTATCCGAAGCGCTGTGAAGTCAGAAGAACAGAAGAGCAAAGATACCAGGAGAGGTCCCCT
GGCGCCTTTTCCAAACCAAAAACCTGAAGCAACAGAACCTCCAAAAACTCCACCCCCGTCATGT
GATTCTACCAGTGTAGCGGTTGCTAAGCAAGCCCTGAAAAAGCCCCTCAAGGGCAAGCAGGCCC
CTCGGAAGAAGTCTCAAGGGAAGACACAGCAGAATAGAAAACTCACAGATTTCTACCCCGTGCG
AAGGAGCTCCAGGAAGAGCAAAGCTGAGCTGCAGTCTGAAGAAAGGAAGAAGATAGATGAGCTA
ATTGAGAGCGGGAAGGAAGAGGGCATGAAGATTGATCTAATCGATGGCAAAGGCAGGGGTGTGA
TTGCTACCAAGCGATTCTCCCGGGGAGACTTTGTGGTAGAATACCATGGAGACCTCATTGAAAT
CACCGATGCCAAGAAGCGGGAGGCTCTGTATGCACAGGACCCCTCCACGGGCTGCTACATGTAC
TATTTTCAATATCTGAGCAAAACCTACTGCGTGGATGCCACTCAAGAAACGAACCGCCTGGGGA
GACTGATCAATCACAGTAAGTGTGGGAATTGCCAGACCAAACTGCATGACATCGACGGCGTGCC
TCACCTCATCCTCATAGCCTCCCGAGACATTGCGGCCGGGGAGGAGCTCCTGTACGACTATGGA
GACCGGAGCAAGGCCTCCATCGAAGCCTACCCTTGGCTGAAGCACTAACCAACCATGTGGCCTC
CCTGCCTCCCTGCCACCCTGCCTCCTTCAAAGGACAAAGTGCCCTCAAAGGGAAATGAATTTTT
TACACACACACACACACACACACACACACACACACACACACACACACACACACTCACACTCACT
CTTAGCTAATTACTTCAAATGTTTTTAAAAAGTATATTAAAGATGCCTTTTCATGTAGTATTTA
AATATCTGTTACAGGTTTCCAAGGTGGACTTGAACAGATGGCCTTATATTACCAAAACTTTTAT
ATTCTAGTTGTTTTTCTACCTTTTTGCATACAAGCTGAACATTTGTGCTTCCCGCGCAGTGTAA
GACTCGGCACAGGTTTTAGAGAATGGAGTTGAACATGAACTAGGAAGCCGGGCTCTGCCCAAGA
TGAAAGCCAGGACTCCCCCGCACCCCACGTCCGAGGACAGGCCGGTGTGAGGGTGCTGCCACCC
CCACGCACAGCCTGGACGGGATGTCTCCAAGCTCTTGTTCTCCTCAACGTCTTGACAGGTGTAC
ACATTGACGTGTATGAATATTTTTTAGCAAAAGTTTCACAGTAAGCTAGTCTTCCCCTCTGCTT
TCTCCAAAGCTTACTGAGCCCGGGGCTCGGAGGCCCGGCCAGGAACAGACCTCTTCCACAGGCT
TACGGCTTTTCCAGGCACCTTGAAGCATCAGGGTGGGCAGTCAGACTAGAGGCGGGCCGGGAAA
AGCACTGTTCTCCTGCCCAAGAAGGGCAGGTCTCCTGAAACTGCATTAATTCTTTATAGAAATG
TGAACACTGAATTTATTTTAAAAAATAATAATAAAAAAACAAAATAGTAAAAAAAAATTTAAAA
AGAAAAAAAATGGAAAAAAAAAACCCACAGAAAACAACTTAACATGTATATAGGTTTTGAAGGG
AGTGAAATGAATGCAGTTTTCTTTTCTTCTGGGGTTTATTTTTCTTTTTGGCTTGGCTGGTTGG
TTTGTGTAGAGAAGATTTGAGATGGTACTCTATTCTAATCAAAAGTGAGGTTTGTAGTGGGACC
AGAAATTACTAAGCCCACACCCCCTCCCCAACCCCAATTCTGCTACGTGGGAAGTTCTCTACCT
GCTGTCAAGGCAGAACCCCTGGTCTCCCGTGAAGATGCCGTCAGTCCTGTGGGCATCAGACACC
AGATGTGTTTGGCTCTAGGGTACCTGGCAGCCCGCAAGGCTTAGCAGCCAGAGATCAGGAGGAT
CCTTCAGTTGTAACCTGTGATAGCAAGAGTAGGCTTCCTTCTCCCTCCTTGGGGAGGACTAACC
ATTCACCTTCAGTCCAGGGGGCCTGGGGTTCAGGAGCCAGGTGTAAGAGCCTACCCTTGTCCCC
AGTACCTCCATCTCCCAGCCTCATGATGGTGCTACCTAAGAAAGTCTTCCCCGCACCCTTTGCT
AGCCCAGTCAGTGGTCAGACTTGGAGGAGGATCCGACAGGAGGGTGTAACTGTGAGATAAAATG
TCTTGGTTGTACCTGTTTGTGGCTTAGCTTTGTATTTAAATAGCAAACAAAAAAAGGAAATAAA
CTTGAAACTTATTTGTCATCTTAAAAATAAAGCAAAAAAATTAAAGTATTTATTTCCAGGCAAG
GG

hide sequence

RefSeq Acc Id:

XM_039089770 ⟹ XP_038945698

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	32,139,353 - 32,157,410 (-)	NCBI

RefSeq Acc Id:

XM_039089771 ⟹ XP_038945699

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	32,139,353 - 32,162,626 (-)	NCBI

RefSeq Acc Id:

XM_039089772 ⟹ XP_038945700

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	32,139,353 - 32,156,949 (-)	NCBI

RefSeq Acc Id:

XM_039089773 ⟹ XP_038945701

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	32,139,353 - 32,157,614 (-)	NCBI

RefSeq Acc Id:

XM_039089774 ⟹ XP_038945702

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	32,139,353 - 32,167,777 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001233594	(Get FASTA)	NCBI Sequence Viewer
	XP_006249390	(Get FASTA)	NCBI Sequence Viewer
	XP_006249392	(Get FASTA)	NCBI Sequence Viewer
	XP_017453947	(Get FASTA)	NCBI Sequence Viewer
	XP_038945698	(Get FASTA)	NCBI Sequence Viewer
	XP_038945699	(Get FASTA)	NCBI Sequence Viewer
	XP_038945700	(Get FASTA)	NCBI Sequence Viewer
	XP_038945701	(Get FASTA)	NCBI Sequence Viewer
	XP_038945702	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	BAK43219	(Get FASTA)	NCBI Sequence Viewer
	EDM13586	(Get FASTA)	NCBI Sequence Viewer
	EDM13587	(Get FASTA)	NCBI Sequence Viewer
	EDM13588	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001233594 ⟸ NM_001246665

- UniProtKB:

D3ZEB9 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MVERRGPGRPRSDGENVFAGQSKIYAYMSPNKCSGMRSPLQEENSVAHHEVKCPGKPLAGIYRK
REEKRNAGNVIRSAVKSEEQKSKDTRRGPLAPFPNQKPEATEPPKTPPPSCDSTSVAVAKQALK
KPLKGKQAPRKKSQGKTQQNRKLTDFYPVRRSSRKSKAELQSEERKKIDELIESGKEEGMKIDL
IDGKGRGVIATKRFSRGDFVVEYHGDLIEITDAKKREALYAQDPSTGCYMYYFQYLSKTYCVDA
TQETNRLGRLINHSKCGNCQTKLHDIDGVPHLILIASRDIAAGEELLYDYGDRSKASIEAYPWL
KH

hide sequence

RefSeq Acc Id:

XP_006249390 ⟸ XM_006249328

- Peptide Label:

isoform X2

- Sequence:

show sequence

MARGRKMCKPRAVEAAAAAVAATAPGPEMVERRGPGRPRSDGENVFAGQSKIYAYMSPNKCSGM
RSPLQEENSVAHHEVKCPGKPLAGIYRKREEKRNAGNVIRSAVKSEEQKSKDTRRGPLAPFPNQ
KPEATEPPKTPPPSCDSTSVAVAKQALKKPLKGKQAPRKKSQGKTQQNRKLTDFYPVRRSSRKS
KAELQSEERKKIDELIESGKEEGMKIDLIDGKGRGVIATKRFSRGDFVVEYHGDLIEITDAKKR
EALYAQDPSTGCYMYYFQYLSKTYCVDATQETNRLGRLINHSKCGNCQTKLHDIDGVPHLILIA
SRDIAAGEELLYDYGDRSKASIEAYPWLKH

hide sequence

RefSeq Acc Id:

XP_006249392 ⟸ XM_006249330

- Peptide Label:

isoform X5

- Sequence:

show sequence

MSPNKCSGMRSPLQEENSVAHHEVKCPGKPLAGIYRKREEKRNAGNVIRSAVKSEEQKSKDTRR
GPLAPFPNQKPEATEPPKTPPPSCDSTSVAVAKQALKKPLKGKQAPRKKSQGKTQQNRKLTDFY
PVRRSSRKSKAELQSEERKKIDELIESGKEEGMKIDLIDGKGRGVIATKRFSRGDFVVEYHGDL
IEITDAKKREALYAQDPSTGCYMYYFQYLSKTYCVDATQETNRLGRLINHSKCGNCQTKLHDID
GVPHLILIASRDIAAGEELLYDYGDRSKASIEAYPWLKH

hide sequence

RefSeq Acc Id:

XP_017453946 ⟸ XM_017598457

- Peptide Label:

isoform X1

- Sequence:

show sequence

MGEAGAVGRRRPFPGAPRRRWWRRQQQQQQRRRQRWWPGRGEGEGAGRAAMGLAGLQENVFAGQ
SKIYAYMSPNKCSGMRSPLQEENSVAHHEVKCPGKPLAGIYRKREEKRNAGNVIRSAVKSEEQK
SKDTRRGPLAPFPNQKPEATEPPKTPPPSCDSTSVAVAKQALKKPLKGKQAPRKKSQGKTQQNR
KLTDFYPVRRSSRKSKAELQSEERKKIDELIESGKEEGMKIDLIDGKGRGVIATKRFSRGDFVV
EYHGDLIEITDAKKREALYAQDPSTGCYMYYFQYLSKTYCVDATQETNRLGRLINHSKCGNCQT
KLHDIDGVPHLILIASRDIAAGEELLYDYGDRSKASIEAYPWLKH

hide sequence

RefSeq Acc Id:

XP_017453947 ⟸ XM_017598458

- Peptide Label:

isoform X5

- Sequence:

show sequence

MSPNKCSGMRSPLQEENSVAHHEVKCPGKPLAGIYRKREEKRNAGNVIRSAVKSEEQKSKDTRR
GPLAPFPNQKPEATEPPKTPPPSCDSTSVAVAKQALKKPLKGKQAPRKKSQGKTQQNRKLTDFY
PVRRSSRKSKAELQSEERKKIDELIESGKEEGMKIDLIDGKGRGVIATKRFSRGDFVVEYHGDL
IEITDAKKREALYAQDPSTGCYMYYFQYLSKTYCVDATQETNRLGRLINHSKCGNCQTKLHDID
GVPHLILIASRDIAAGEELLYDYGDRSKASIEAYPWLKH

hide sequence

RefSeq Acc Id:

ENSRNOP00000062763 ⟸ ENSRNOT00000066253

RefSeq Acc Id:	XP_038945702 ⟸ XM_039089774
- Peptide Label:	isoform X5

RefSeq Acc Id:	XP_038945699 ⟸ XM_039089771
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038945701 ⟸ XM_039089773
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_038945698 ⟸ XM_039089770
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038945700 ⟸ XM_039089772
- Peptide Label:	isoform X4

Protein Domains

SET

Transcriptome

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

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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)

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

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

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

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)

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

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

LH/MavRrrc (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

LL/MavRrrc (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

LN/MavRrrc (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

M520/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

MHS/Gib (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

MNS/Gib (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

MR/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

SBH/Ygl (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:	SBH/Ygl sequenced by MCW

SBH/Ygl (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

SBN/Ygl (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:	SBN/Ygl sequenced by MCW

SBN/Ygl (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

SHR/NHsd (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

SHRSP/Gcrc (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

SR/JrHsd (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:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (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

SS/Jr (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

SS/JrHsdMcwi (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)

SS/JrHsdMcwi (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

WAG/Rij (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

WKY/Gcrc (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

WKY/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

WKY/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

WKY/NHsd (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

WN/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

Damaging Variants

Assembly: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
12	39430164	39430165	A	G	snv	ACI/EurMcwi (MCW), SDLEF7/Barth (UDEL), SS/JrHsdMcwi (MCW), SBH/Ygl (MCW)

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
12	37559951	37559952	A	G	snv	ACI/EurMcwi (MCW), CDS, SS/JrHsdMcwi (MCW), SBH/Ygl (MCW)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1587560	AgrOrtholog
Ensembl Genes	ENSRNOG00000001062	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000062763	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000066253	ENTREZGENE, UniProtKB/TrEMBL
InterPro	Hist_H4-K20_MeTrfase	UniProtKB/TrEMBL
	SET_dom	UniProtKB/TrEMBL
KEGG Report	rno:689820	UniProtKB/TrEMBL
NCBI Gene	689820	ENTREZGENE
Pfam	SET	UniProtKB/TrEMBL
PhenoGen	Kmt5a	PhenoGen
PIRSF	Histone_H4-K20_mtfrase	UniProtKB/TrEMBL
PROSITE	SAM_MT43_7	UniProtKB/TrEMBL
	SET	UniProtKB/TrEMBL
SMART	SET	UniProtKB/TrEMBL
UniProt	D3ZEB9	ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary	F7J138	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-17	Kmt5a	lysine methyltransferase 5A	Kmt5a	lysine (K)-specific methyltransferase 5A	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2015-11-13	Kmt5a	lysine (K)-specific methyltransferase 5A	Setd8	SET domain containing (lysine methyltransferase) 8	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2009-06-15	Setd8	SET domain containing (lysine methyltransferase) 8	LOC687538	similar to SET domain-containing protein	Data Merged	1643240	APPROVED
2009-01-26	Setd8	SET domain containing (lysine methyltransferase) 8	LOC689820	similar to SET domain-containing protein	Symbol and Name updated	1299863	APPROVED
2006-11-19	LOC689820	similar to SET domain-containing protein			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-19	LOC687538	similar to SET domain-containing protein			Symbol and Name status set to provisional	70820	PROVISIONAL

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

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

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

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

Imported Disease Annotations - ClinVar

RGD Manual Annotations

Imported Annotations - KEGG (archival)

Imported Annotations - PID (archival)

Send us a Message

Imported Disease Annotations - ClinVar

RGD Manual Annotations

Imported Annotations - KEGG (archival)

Imported Annotations - PID (archival)