Xrcc6 (X-ray repair cross complementing 6)

	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 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: Xrcc6 (X-ray repair cross complementing 6) Rattus norvegicus

Analyze

Symbol:

Xrcc6

Name:

X-ray repair cross complementing 6

RGD ID:

2643

Description:

Contributes to double-stranded DNA binding activity. Involved in brain development; cellular hyperosmotic salinity response; and cellular response to X-ray. Located in cytoplasm and nucleolus. Part of protein-containing complex. Orthologous to human XRCC6 (X-ray repair cross complementing 6); PARTICIPATES IN non-homologous end joining pathway of double-strand break repair; INTERACTS WITH (+)-alpha-tocopherol; 7,12-dimethyltetraphene; acrylonitrile.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

G22p1; Ku70; Ku70 DNA-binding component of DNA-dependent proteinkinase complex (thyroid autoantigen 70 kDa); Kup70; thyroid autoantigen; X-ray repair complementing defective repair in Chinese hamster cells 6; X-ray repair cross-complementing protein 6

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	7	113,542,992 - 113,563,762 (+)	NCBI
Rnor_6.0 Ensembl	7	123,259,761 - 123,280,612 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	123,259,881 - 123,280,613 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	123,244,581 - 123,265,278 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	120,401,944 - 120,422,923 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	120,436,196 - 120,457,039 (+)	NCBI
Celera	7	109,858,919 - 109,879,605 (+)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Animal Disease Models (ISO)

basal cell carcinoma (ISO)

Common Variable Immunodeficiency 4 (ISO)

lung adenocarcinoma (ISO)

squamous cell carcinoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-alpha-tocopherol (EXP)

(+)-dexrazoxane (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

17beta-hydroxy-17-methylestra-4,9,11-trien-3-one (ISO)

2,2'-dithiodiethanol (ISO)

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

3,3'-diindolylmethane (ISO)

5-aza-2'-deoxycytidine (ISO)

5-fluorouracil (ISO)

7,12-dimethyltetraphene (EXP,ISO)

acrolein (ISO)

acrylonitrile (EXP)

aldehydo-D-glucose (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

Aroclor 1254 (ISO)

arsenous acid (ISO)

benzene (ISO)

benzo[a]pyrene (ISO)

Benzo[ghi]perylene (ISO)

biphenyl-4-amine (ISO)

bisphenol A (EXP,ISO)

bupivacaine (ISO)

calcitriol (ISO)

carbon nanotube (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

coumestrol (ISO)

crocidolite asbestos (ISO)

curcumin (ISO)

cyclophosphamide (ISO)

D-glucose (ISO)

dexamethasone (ISO)

diarsenic trioxide (ISO)

dicrotophos (ISO)

diethylstilbestrol (ISO)

doxorubicin (EXP,ISO)

enzyme inhibitor (ISO)

ethanol (ISO)

folic acid (ISO)

glucose (ISO)

idarubicin (ISO)

lead(0) (ISO)

lead(2+) (ISO)

lipopolysaccharide (ISO)

methyl methanesulfonate (ISO)

N-acetyl-L-cysteine (EXP)

N-nitrosodiethylamine (ISO)

oxaliplatin (EXP)

ozone (ISO)

paracetamol (ISO)

phosphoramide mustard (EXP)

potassium bromate (ISO)

resveratrol (EXP)

rotenone (EXP)

sodium arsenite (ISO)

sulindac sulfide (ISO)

tamoxifen (EXP)

tetrachloromethane (EXP)

topotecan (EXP)

trichostatin A (ISO)

trimellitic anhydride (ISO)

vitamin E (EXP,ISO)

vorinostat (ISO)

wortmannin (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

activation of innate immune response (ISO)

brain development (IEP)

cellular hyperosmotic salinity response (IDA)

cellular response to DNA damage stimulus (ISO)

cellular response to gamma radiation (IBA,ISO)

cellular response to X-ray (IBA,IDA)

DNA duplex unwinding (IEA)

double-strand break repair (ISO,TAS)

double-strand break repair via classical nonhomologous end joining (ISO)

double-strand break repair via nonhomologous end joining (IBA,ISO)

negative regulation of transcription, DNA-templated (ISO)

positive regulation of lymphocyte differentiation (ISO)

positive regulation of neurogenesis (ISO)

positive regulation of protein kinase activity (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

positive regulation of transcription, DNA-templated (ISO)

regulation of smooth muscle cell proliferation (ISO)

response to ionizing radiation (ISO)

telomere maintenance (IBA)

V(D)J recombination (ISO)

Cellular Component

cytoplasm (IDA,ISO)

Ku70:Ku80 complex (IBA,ISO)

nonhomologous end joining complex (ISO)

nucleolus (IDA,ISO)

nucleoplasm (IEA,ISO)

nucleus (IDA,ISO)

protein-containing complex (IDA,ISO)

protein-DNA complex (ISO)

transcription regulator complex (ISO)

Molecular Function

5'-deoxyribose-5-phosphate lyase activity (ISO)

ATP binding (IEA)

ATP-dependent activity, acting on DNA (ISO)

cyclin binding (ISO)

damaged DNA binding (IEA)

DNA end binding (ISO)

DNA helicase activity (ISO)

double-stranded DNA binding (IBA,IDA,ISO)

double-stranded telomeric DNA binding (ISO)

hydrolase activity (IEA)

protein binding (IPI,ISO)

protein C-terminus binding (ISO)

protein-containing complex binding (ISO)

scaffold protein binding (IEA,ISO)

telomeric DNA binding (IBA)

transcription cis-regulatory region binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

non-homologous end joining pathway of double-strand break repair (IEA,ISO)

References

References - curated


1.	Bakalkin G, etal., Neuroreport. 1998 Jun 22;9(9):2147-51.
2.	Endoh D, etal., Radiat Res. 2001 Feb;155(2):320-7.
3.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4.	GOA data from the GO Consortium
5.	Hammer F, etal., Endocrinology 2004 Feb;145(2):901-12. Epub 2003 Oct 23.
6.	Higashiura M, etal., Exp Cell Res. 1992 Aug;201(2):444-51.
7.	Lieber MR Annu Rev Biochem. 2010;79:181-211. doi: 10.1146/annurev.biochem.052308.093131.
8.	MGD data from the GO Consortium
9.	Okui T, etal., Radiat Res 2002 May;157(5):553-61.
10.	Online Mendelian Inheritance in Man, OMIM (TM).
11.	Parrella P, etal., J Clin Pathol. 2006 Nov;59(11):1181-5. Epub 2006 Feb 23.
12.	Pipeline to import KEGG annotations from KEGG into RGD
13.	RGD automated data pipeline
14.	RGD automated import pipeline for gene-chemical interactions
15.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:8621488	PMID:10409678	PMID:10716994	PMID:10783163	PMID:11751629	PMID:12145306	PMID:12377759	PMID:12604618	PMID:15159402	PMID:15979950	PMID:18162465	PMID:18378183
PMID:18809223	PMID:19121380	PMID:19135898	PMID:19723106	PMID:19946888	PMID:20150414	PMID:20383123	PMID:21568942	PMID:22019940	PMID:22504299	PMID:22658674	PMID:22681889
PMID:24095731	PMID:25852083	PMID:25941166	PMID:26359349	PMID:27621182	PMID:27829214	PMID:28712728

Genomics

Comparative Map Data

Xrcc6
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	113,542,992 - 113,563,762 (+)	NCBI
Rnor_6.0 Ensembl	7	123,259,761 - 123,280,612 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	123,259,881 - 123,280,613 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	123,244,581 - 123,265,278 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	120,401,944 - 120,422,923 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	120,436,196 - 120,457,039 (+)	NCBI
Celera	7	109,858,919 - 109,879,605 (+)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

XRCC6
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	22	41,621,163 - 41,664,048 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	22	41,621,295 - 41,664,041 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	22	42,017,299 - 42,060,045 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	22	40,347,241 - 40,389,998 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	22	40,341,794 - 40,384,552	NCBI
Celera	22	25,823,724 - 25,866,486 (+)	NCBI
Cytogenetic Map	22	q13.2	NCBI
HuRef	22	24,982,897 - 25,025,516 (+)	NCBI		HuRef
CHM1_1	22	41,977,343 - 42,020,083 (+)	NCBI		CHM1_1

Xrcc6
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	81,868,805 - 81,924,286 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	15	81,872,036 - 81,924,286 (+)	Ensembl
GRCm38	15	81,987,833 - 82,040,085 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	81,987,835 - 82,040,085 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	81,846,799 - 81,870,514 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	15	81,843,555 - 81,867,327 (+)	NCBI			mm8
Celera	15	84,138,425 - 84,161,793 (+)	NCBI		Celera
Cytogenetic Map	15	E1	NCBI
cM Map	15	38.33	NCBI

Xrcc6
(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_004955413	27,135,805 - 27,159,750 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955413	27,135,785 - 27,158,344 (+)	NCBI	ChiLan1.0	ChiLan1.0

XRCC6
(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	22	40,626,191 - 40,643,540 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	40,603,038 - 40,643,314 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	22	22,516,281 - 22,557,379 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

XRCC6
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	23,637,905 - 23,661,618 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	23,638,237 - 23,661,480 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	23,571,669 - 23,594,987 (-)	NCBI
ROS_Cfam_1.0	10	24,383,246 - 24,406,874 (-)	NCBI
UMICH_Zoey_3.1	10	24,100,152 - 24,123,487 (-)	NCBI
UNSW_CanFamBas_1.0	10	24,421,552 - 24,445,083 (-)	NCBI
UU_Cfam_GSD_1.0	10	24,595,424 - 24,619,012 (-)	NCBI

Xrcc6
(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_024404945	7,293,429 - 7,315,475 (-)	NCBI
SpeTri2.0	NW_004936492	303,843 - 325,812 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

XRCC6
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	6,903,496 - 6,929,083 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	6,903,496 - 6,929,162 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	4,274,586 - 4,300,429 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

XRCC6
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	19	24,160,459 - 24,204,237 (+)	NCBI
ChlSab1.1 Ensembl	19	24,160,483 - 24,206,320 (+)	Ensembl
Vero_WHO_p1.0	NW_023666045	101,209,345 - 101,253,933 (-)	NCBI

Xrcc6
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624752	6,987,456 - 7,010,834 (-)	NCBI

Position Markers

RH131971

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	113,563,535 - 113,563,743 (+)	MAPPER
Rnor_6.0	7	123,280,387 - 123,280,594	NCBI	Rnor6.0
Rnor_5.0	7	123,265,052 - 123,265,259	UniSTS	Rnor5.0
RGSC_v3.4	7	120,422,697 - 120,422,904	UniSTS	RGSC3.4
Celera	16	17,241,644 - 17,241,851	UniSTS
Celera	7	109,879,379 - 109,879,586	UniSTS
RH 3.4 Map	7	893.1	UniSTS
Cytogenetic Map	7	q34	UniSTS

AI230026

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	113,559,122 - 113,559,330 (+)	MAPPER
Rnor_6.0	7	123,275,974 - 123,276,181	NCBI	Rnor6.0
Rnor_5.0	7	123,260,639 - 123,260,846	UniSTS	Rnor5.0
RGSC_v3.4	7	120,418,284 - 120,418,491	UniSTS	RGSC3.4
Celera	7	109,874,966 - 109,875,173	UniSTS
RH 3.4 Map	7	889.2	UniSTS
Cytogenetic Map	7	q34	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
634336	Anxrr17	Anxiety related response QTL 17	3.66		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	2920071	124838025	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	48118835	128611831	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	50704769	128085642	Rat
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	51251919	145729302	Rat
2316947	Rf58	Renal function QTL 58	7.8		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	7	55072862	123602998	Rat
2316952	Pur22	Proteinuria QTL 22	5.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	7	55072862	123602998	Rat
2316955	Stl24	Serum triglyceride level QTL 24	7.1		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	7	55072862	123602998	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	71448715	145729302	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	77428105	127748511	Rat
634331	Pia17	Pristane induced arthritis QTL 17	4.7		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	7	81645773	140745067	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	85595369	130595369	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	85595369	130595369	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	88365265	133365265	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	88365265	134673427	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	91018361	136018361	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	91832949	145158140	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	91832949	145158140	Rat
71114	Niddm14	Non-insulin dependent diabetes mellitus QTL 14	4.5		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	7	93726906	138726906	Rat
2298475	Eau6	Experimental allergic uveoretinitis QTL 6		0.0029	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	7	93726906	138726906	Rat
1558655	Swd4	Spike wave discharge measurement QTL 4	3.68	0.0002	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge severity grade (CMO:0001988)	7	96630946	141630946	Rat
2299163	Iddm34	Insulin dependent diabetes mellitus QTL 34	2.71		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	7	100028953	145729302	Rat
631687	Hcas1	Hepatocarcinoma susceptibility QTL 1	3.9	0.001	liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	7	100160423	140335001	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	100192194	145192194	Rat
2313102	Bmd79	Bone mineral density QTL 79	2.3	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	7	103815550	126525386	Rat
1357336	Gluco6	Glucose level QTL 6	3.4		blood glucose amount (VT:0000188)	serum glucose level (CMO:0000543)	7	103867802	126080176	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	106564316	145729302	Rat
1331731	Bp216	Blood pressure QTL 216	2.851		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	111519266	143965591	Rat
70159	Bp61	Blood pressure QTL 61		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	112429186	126525386	Rat
731174	Uae23	Urinary albumin excretion QTL 23	2.4	0.0042	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	7	114825174	145729302	Rat
2306821	Bp335	Blood pressure QTL 335		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	115922628	145729302	Rat
631663	Bw6	Body weight QTL 6	3.4		body mass (VT:0001259)	body weight (CMO:0000012)	7	120746024	145692398	Rat
1300112	Bp183	Blood pressure QTL 183	3.51		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	7	121654760	145729302	Rat
1331748	Bp215	Blood pressure QTL 215	4.043		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	121986439	143965591	Rat
1357339	Stl14	Serum triglyceride level QTL 14	3.45	0.0001	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	122421276	143965415	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	105
Count of miRNA genes:	75
Interacting mature miRNAs:	79
Transcripts:	ENSRNOT00000008819, ENSRNOT00000066849
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

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

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

Expression

RNA-SEQ Expression

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

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	26	56	40	19	40	2	5	74	35	41	11	2
Low		17	1	1		1	6	6					6
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_139080	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008765671	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AB066102	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC128377	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC061528	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC078718	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000187	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000008819 ⟹ ENSRNOP00000008819

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	123,259,761 - 123,280,612 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000066849 ⟹ ENSRNOP00000061920

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	123,260,607 - 123,280,510 (+)	Ensembl

RefSeq Acc Id:

NM_139080 ⟹ NP_620780

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	113,543,057 - 113,563,762 (+)	NCBI
Rnor_6.0	7	123,259,892 - 123,280,613 (+)	NCBI
Rnor_5.0	7	123,244,581 - 123,265,278 (+)	NCBI
RGSC_v3.4	7	120,401,944 - 120,422,923 (+)	RGD
Celera	7	109,858,919 - 109,879,605 (+)	RGD

Sequence:

show sequence

GAGACCTGGAGCCCGCGTGGAAGTGGCGCCCACCCTCTTCTGTCCCAGTGGCGCTCTCGCCTCC
GGCTAAGTGACCAAACAAACATGTCAGAGTGGGAATCCTACTACAAAACTGAGGGTGAGGAAGA
GGAAGAGGAGGAGCAGAGCCCTGACACAAATGGAGAATATAAATATTCAGGAAGAGATAGTTTG
ATTTTTCTGGTTGACGCCTCCAGGGCTATGTTTGAATCTCAGGGTGAAGACGAGCTCACACCTT
TTGATATGAGCATCCAGTGTATCCAGAGTGTGTACACCAGTAAGATCATAAGCAGCGATCGGGA
TCTCTTGGCAGTGGTGTTCTATGGTACCGAGAAAGACAAAAATTCAGTGAACTTCAAAAGTATT
TATGTCTTACAAGATCTGGATAACCCAGGAGCTAAACGAGTGTTAGAGCTTGACCGCTTTAAGG
GACAACAGGGGAAAAAACATTTCCGAGACACAATTGGCCATGGGTCTGACTACTCTTTGAGTGA
AGTGCTCTGGGTCTGTGCCAACCTCTTCAGCGACGTCCAGTTCAAGATGAGTCATAAGAGGATC
ATGCTATTCACCAATGAAGATGACCCCCATGGTAATGACAGTGCCAAAGCCAGCCGGGCCAGGA
CCAAAGCCAGCGATCTGCGGGACACTGGGATCTTCCTCGACTTGATGCACCTGAAGAAGCGAGG
GGGCTTTGACGTGTCCTTGTTCTACAGAGACATCATCAGCATCGCTGAGGATGAGGACCTCGGG
GTTCACTTTGAGGAGTCAAGCAAGCTGGAAGACCTGCTAAGGAAGGTTCGAGCCAAGGAGACCA
AAAAGCGAGTGCTGTCCAGGTTAAAGTTTAAGCTCGGCAAAGACGTAGCACTCATGGTGGGCGT
TTATAACTTGGTCCAGAAAGCTAACAAGCCTTTTCCAGTGAGGCTGTATCGAGAAACAAACGAA
CCAGTGAAAACTAAGACAAGGACTTTTAATGTAAACACAGGCAGTCTGCTCCTGCCCAGTGATA
CCAAGCGGTCTCTGACTTTTGGGACGCGTCAGATTGTGCTGGAGAAAGAGGAAACAGAGGAGCT
GAAGCGGTTTGATGAGCCAGGTTTGATTCTCATGGGCTTTAAGCCCATGGTAATGCTGAAGAAC
CACCACTACCTGAGGCCCTCTCTGTTCCTGTACCCAGAGGAGTCCTTGGTCAACGGGAGCTCAA
CCTTGTTCAGCGCCCTGCTCACCAAGTGTGTGGAGAAGGAGGTCATAGCAGTGTGTAGATACAC
AGCCCGAAAGAATGTCTCCCCTTATTTTGTGGCTTTGGTGCCACAGGAAGAGGAGCTAGATGAT
CAGAACATTCAGGTGACTCCCGCAGGCTTCCAGCTTGTCTTCCTCCCTTACGCCGATGACAAGC
GGAAGGTGCCCTTTACGGAGAAGGTGATGGCCAACCCGGAACAGATAGACAAGATGAAGGCCAT
TGTTCAAAAGCTCCGCTTTACATACAGGAGCGACAGTTTCGAGAACCCAGTGCTGCAGCAGCAC
TTCCGGAACCTGGAGGCCCTAGCTTTGGACATGATGGAGTCGGAGCAAGTGGTAGATCTGACAC
TGCCCAAGGTTGAAGCCATAAAGAAAAGACTGGGCTCCCTGGCAGATGAGTTTAAAGAACTTGT
CTACCCTCCAGGTTATAATCCTGAGGGAAAAATTGCCAAGAGAAAAGCAGACAATGAAGGTTCT
GCAAGTAAAAAGCCCAAGGTAGAGTTATCAGAAGAGGAGCTGAAGGACCTTTTTGCCAAGGGCA
CACTGGGCAAGCTCACTGTGCCTGCACTGAGGGACATCTGCAAGGCCTATGGGCTAAAGAGTGG
ACCGAAGAAGCAGGAACTACTCGAGGCTCTCAGCAGACACTTGGAGAAGAACTGACTAATGATC
ACACGCCCAGCCACCTTCCACACTGCAGTCAGGCCAAGCTAGGTGTTAGCTACAGAGAGCCACC
TAACAGAAAATGCAAGACCTTCACCATGGAGTGCTGCCCTCCCACCTCACTGTGCCTTACTCTG
TGAATAAAGAGCTCTAACTTTA

hide sequence

RefSeq Acc Id:

XM_008765671 ⟹ XP_008763893

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	113,542,992 - 113,563,762 (+)	NCBI
Rnor_6.0	7	123,259,881 - 123,280,613 (+)	NCBI

Sequence:

show sequence

TGATTGGACGAGAGACCTGGAGCCCGCGTGGAAGTGGCGCCCACCCTCTTCTGTCCCAGTGGCG
CTCTCGCCTCCGGCTAAGTGACCAAACAAACATGTCAGAGTGGGAATCCTACTACAAAACTGAG
GGTGAGGAAGAGGAAGAGGAGGAGCAGAGCCCTGACACAAATGGAGAATATAAATATTCAGGAA
GAGATAGTTTGATTTTTCTGGTTGACGCCTCCAGGGCTATGTTTGAATCTCAGGGTGAAGACGA
GCTCACACCTTTTGATATGAGCATCCAGTGTATCCAGAGTGTGTACACCAGTAAGATCATAAGC
AGCGATCGGGATCTCTTGGCAGTGGTGTTCTATGGTACCGAGAAAGACAAAAATTCAGTGAACT
TCAAAAGTATTTATGTCTTACAAGATCTGGATAACCCAGGAGCTAAACGAGTGTTAGAGCTTGA
CCGCTTTAAGGGACAACAGGGGAAAAAACATTTCCGAGACACAATTGGCCATGGGTCTGACTAC
TCTTTGAGTGAAGTGCTCTGGGTCTGTGCCAACCTCTTCAGCGACGTCCAGTTCAAGATGAGTC
ATAAGAGGATCATGCTATTCACCAATGAAGATGACCCCCATGGTAATGACAGTGCCAAAGCCAG
CCGGGCCAGGACCAAAGCCAGCGATCTGCGGGACACTGGGATCTTCCTCGACTTGATGCACCTG
AAGAAGCGAGGGGGCTTTGACGTGTCCTTGTTCTACAGAGACATCATCAGCATCGCTGAGGATG
AGGACCTCGGGGTTCACTTTGAGGAGTCAAGCAAGCTGGAAGACCTGCTAAGGAAGGTTCGAGC
CAAGGAGACCAAAAAGCGAGTGCTGTCCAGGTTAAAGTTTAAGCTCGGCAAAGACGTAGCACTC
ATGGTGGGCGTTTATAACTTGGTCCAGAAAGCTAACAAGCCTTTTCCAGTGAGGCTGTATCGAG
AAACAAACGAACCAGTGAAAACTAAGACAAGGACTTTTAATGTAAACACAGGCAGTCTGCTCCT
GCCCAGTGATACCAAGCGGTCTCTGACTTTTGGGACGCGTCAGATTGTGCTGGAGAAAGAGGAA
ACAGAGGAGCTGAAGCGGTTTGATGAGCCAGGTTTGATTCTCATGGGCTTTAAGCCCATGGTAA
TGCTGAAGAACCACCACTACCTGAGGCCCTCTCTGTTCCTGTACCCAGAGGAGTCCTTGGTCAA
CGGCTTCCAGCTTGTCTTCCTCCCTTACGCCGATGACAAGCGGAAGGTGCCCTTTACGGAGAAG
GTGATGGCCAACCCGGAACAGATAGACAAGATGAAGGCCATTGTTCAAAAGCTCCGCTTTACAT
ACAGGAGCGACAGTTTCGAGAACCCAGTGCTGCAGCAGCACTTCCGGAACCTGGAGGCCCTAGC
TTTGGACATGATGGAGTCGGAGCAAGTGGTAGATCTGACACTGCCCAAGGTTGAAGCCATAAAG
AAAAGACTGGGCTCCCTGGCAGATGAGTTTAAAGAACTTGTCTACCCTCCAGGTTATAATCCTG
AGGGAAAAATTGCCAAGAGAAAAGCAGACAATGAAGGTTCTGCAAGTAAAAAGCCCAAGGTAGA
GTTATCAGAAGAGGAGCTGAAGGACCTTTTTGCCAAGGGCACACTGGGCAAGCTCACTGTGCCT
GCACTGAGGGACATCTGCAAGGCCTATGGGCTAAAGAGTGGACCGAAGAAGCAGGAACTACTCG
AGGCTCTCAGCAGACACTTGGAGAAGAACTGACTAATGATCACACGCCCAGCCACCTTCCACAC
TGCAGTCAGGCCAAGCTAGGTGTTAGCTACAGAGAGCCACCTAACAGAAAATGCAAGACCTTCA
CCATGGAGTGCTGCCCTCCCACCTCACTGTGCCTTACTCTGTGAATAAAGAGCTCTAACTTTA

hide sequence

Protein Sequences


Protein RefSeqs	NP_620780	(Get FASTA)	NCBI Sequence Viewer
	XP_008763893	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH78718	(Get FASTA)	NCBI Sequence Viewer
	BAB83858	(Get FASTA)	NCBI Sequence Viewer
	EDM15680	(Get FASTA)	NCBI Sequence Viewer
	EDM15681	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_620780 ⟸ NM_139080

- UniProtKB:

Q6AZ64 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSEWESYYKTEGEEEEEEEQSPDTNGEYKYSGRDSLIFLVDASRAMFESQGEDELTPFDMSIQC
IQSVYTSKIISSDRDLLAVVFYGTEKDKNSVNFKSIYVLQDLDNPGAKRVLELDRFKGQQGKKH
FRDTIGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDDPHGNDSAKASRARTKASDLR
DTGIFLDLMHLKKRGGFDVSLFYRDIISIAEDEDLGVHFEESSKLEDLLRKVRAKETKKRVLSR
LKFKLGKDVALMVGVYNLVQKANKPFPVRLYRETNEPVKTKTRTFNVNTGSLLLPSDTKRSLTF
GTRQIVLEKEETEELKRFDEPGLILMGFKPMVMLKNHHYLRPSLFLYPEESLVNGSSTLFSALL
TKCVEKEVIAVCRYTARKNVSPYFVALVPQEEELDDQNIQVTPAGFQLVFLPYADDKRKVPFTE
KVMANPEQIDKMKAIVQKLRFTYRSDSFENPVLQQHFRNLEALALDMMESEQVVDLTLPKVEAI
KKRLGSLADEFKELVYPPGYNPEGKIAKRKADNEGSASKKPKVELSEEELKDLFAKGTLGKLTV
PALRDICKAYGLKSGPKKQELLEALSRHLEKN

hide sequence

RefSeq Acc Id:

XP_008763893 ⟸ XM_008765671

- Peptide Label:

isoform X1

- Sequence:

show sequence

MSEWESYYKTEGEEEEEEEQSPDTNGEYKYSGRDSLIFLVDASRAMFESQGEDELTPFDMSIQC
IQSVYTSKIISSDRDLLAVVFYGTEKDKNSVNFKSIYVLQDLDNPGAKRVLELDRFKGQQGKKH
FRDTIGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDDPHGNDSAKASRARTKASDLR
DTGIFLDLMHLKKRGGFDVSLFYRDIISIAEDEDLGVHFEESSKLEDLLRKVRAKETKKRVLSR
LKFKLGKDVALMVGVYNLVQKANKPFPVRLYRETNEPVKTKTRTFNVNTGSLLLPSDTKRSLTF
GTRQIVLEKEETEELKRFDEPGLILMGFKPMVMLKNHHYLRPSLFLYPEESLVNGFQLVFLPYA
DDKRKVPFTEKVMANPEQIDKMKAIVQKLRFTYRSDSFENPVLQQHFRNLEALALDMMESEQVV
DLTLPKVEAIKKRLGSLADEFKELVYPPGYNPEGKIAKRKADNEGSASKKPKVELSEEELKDLF
AKGTLGKLTVPALRDICKAYGLKSGPKKQELLEALSRHLEKN

hide sequence

RefSeq Acc Id:

ENSRNOP00000008819 ⟸ ENSRNOT00000008819

RefSeq Acc Id:

ENSRNOP00000061920 ⟸ ENSRNOT00000066849

Protein Domains

SAP

Transcriptome

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

Promoters

RGD ID:

13695525

Promoter ID:

EPDNEW_R6049

Type:

multiple initiation site

Name:

Xrcc6_1

Description:

X-ray repair cross complementing 6

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	7	123,259,938 - 123,259,998	EPDNEW

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:2643	AgrOrtholog
Ensembl Genes	ENSRNOG00000006392	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000008819	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000061920	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000008819	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000066849	UniProtKB/TrEMBL
Gene3D-CATH	1.10.720.30	UniProtKB/TrEMBL
	2.40.290.10	UniProtKB/TrEMBL
	3.40.50.410	UniProtKB/TrEMBL
	4.10.970.10	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7115290	IMAGE-MGC_LOAD
InterPro	DNA_helicase_ATP-dep_Ku	UniProtKB/TrEMBL
	DNA_helicase_ATP-dep_Ku70	UniProtKB/TrEMBL
	Ku70_bridge/pillars_dom	UniProtKB/TrEMBL
	Ku_C	UniProtKB/TrEMBL
	Ku_N	UniProtKB/TrEMBL
	SAP_DNA-bd	UniProtKB/TrEMBL
	SAP_dom_sf	UniProtKB/TrEMBL
	SPOC-like	UniProtKB/TrEMBL
	vWFA_dom_sf	UniProtKB/TrEMBL
KEGG Report	rno:25019	UniProtKB/TrEMBL
MGC_CLONE	MGC:93146	IMAGE-MGC_LOAD
NCBI Gene	25019	ENTREZGENE
Pfam	Ku_C	UniProtKB/TrEMBL
	Ku_N	UniProtKB/TrEMBL
	PF02735	UniProtKB/TrEMBL
	SAP	UniProtKB/TrEMBL
PhenoGen	Xrcc6	PhenoGen
PIRSF	Ku70	UniProtKB/TrEMBL
PROSITE	SAP	UniProtKB/TrEMBL
SMART	Ku78	UniProtKB/TrEMBL
	SAP	UniProtKB/TrEMBL
Superfamily-SCOP	SPOC-like	UniProtKB/TrEMBL
	SSF53300	UniProtKB/TrEMBL
	SSF68906	UniProtKB/TrEMBL
TIGRFAMs	ku70	UniProtKB/TrEMBL
UniProt	E9PT85_RAT	UniProtKB/TrEMBL
	Q6AZ64	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-06-08	Xrcc6	X-ray repair cross complementing 6	Xrcc6	X-ray repair complementing defective repair in Chinese hamster cells 6	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Xrcc6	X-ray repair complementing defective repair in Chinese hamster cells 6	G22p1	thyroid autoantigen	Symbol and Name updated	1299863	APPROVED
2002-11-06	G22p1	thyroid autoantigen		Ku70 DNA-binding component of DNA-dependent proteinkinase complex (thyroid autoantigen 70 kDa)	Name updated	625702	APPROVED
2002-06-10	G22p1	Ku70 DNA-binding component of DNA-dependent proteinkinase complex (thyroid autoantigen 70 kDa)			Symbol and Name status set to approved	70586	APPROVED

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

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

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

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

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

Imported Annotations - KEGG (archival)

Send us a Message

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

Imported Annotations - KEGG (archival)