Xrcc4 (X-ray repair cross complementing 4)

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Gene: Xrcc4 (X-ray repair cross complementing 4) Rattus norvegicus

Analyze

Symbol:

Xrcc4

Name:

X-ray repair cross complementing 4

RGD ID:

1359573

Description:

Predicted to enable FHA domain binding activity; identical protein binding activity; and protein C-terminus binding activity. Predicted to contribute to 3' overhang single-stranded DNA endodeoxyribonuclease activity. Involved in cellular response to lithium ion. Predicted to be located in chromosome, telomeric region; cytosol; and nucleoplasm. Predicted to be part of DNA ligase IV complex; DNA-dependent protein kinase-DNA ligase 4 complex; and ERCC4-ERCC1 complex. Predicted to be active in cytoplasm; nucleus; and site of double-strand break. Human ortholog(s) of this gene implicated in multiple myeloma; salivary gland adenoid cystic carcinoma; and salivary gland carcinoma. Orthologous to human XRCC4 (X-ray repair cross complementing 4); PARTICIPATES IN non-homologous end joining pathway of double-strand break repair; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

DNA repair protein XRCC4; MGC95022; X-ray repair complementing defective repair in Chinese hamster cells 4; X-ray repair cross complementing protein 4

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	2	20,948,464 - 21,197,705 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	2	20,951,200 - 21,197,808 (-)	Ensembl
Rnor_6.0	2	18,674,496 - 18,927,463 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	18,677,220 - 18,927,365 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	18,550,304 - 18,803,313 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	19,904,490 - 20,158,358 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	2	19,824,860 - 20,078,727 (-)	NCBI
Celera	2	17,092,971 - 17,325,919 (-)	NCBI		Celera
Cytogenetic Map	2	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Chromosome Aberrations (ISO)

isolated growth hormone deficiency type IA (ISO)

multiple myeloma (ISO)

Neurodevelopmental Disorders (ISO)

salivary gland adenoid cystic carcinoma (ISO)

salivary gland carcinoma (ISO)

SHORT STATURE, MICROCEPHALY, AND ENDOCRINE DYSFUNCTION (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-taxifolin (ISO)

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (ISO)

1H-pyrazole (ISO)

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

2,6-dinitrotoluene (EXP)

2-hydroxypropanoic acid (ISO)

3-chlorophenol (ISO)

aflatoxin B1 (ISO)

aflatoxin M1 (ISO)

aphidicolin (ISO)

aristolochic acid (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bisphenol A (EXP)

cadmium atom (ISO)

cadmium dichloride (ISO)

camptothecin (ISO)

chlorpromazine (ISO)

chromium(6+) (ISO)

cisplatin (ISO)

curcumin (ISO)

diarsenic trioxide (ISO)

doxorubicin (ISO)

entinostat (ISO)

etoposide (ISO)

floxuridine (ISO)

folic acid (ISO)

formaldehyde (ISO)

gallic acid (ISO)

gentamycin (EXP)

hydroxyurea (ISO)

irinotecan (ISO)

ivermectin (ISO)

lead(0) (ISO)

lead(2+) (ISO)

lithium chloride (EXP)

methyl methanesulfonate (ISO)

mitomycin C (ISO)

monocrotaline (ISO)

N-Nitrosopyrrolidine (ISO)

nickel atom (ISO)

nickel dichloride (ISO)

O-methyleugenol (ISO)

okadaic acid (ISO)

oxaliplatin (EXP)

paracetamol (EXP,ISO)

pentachlorophenol (ISO)

phenobarbital (ISO)

phenytoin (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

progesterone (ISO)

rac-lactic acid (ISO)

rifampicin (ISO)

sodium arsenite (ISO)

taurine (ISO)

topotecan (EXP)

triphenyl phosphate (EXP)

valproic acid (ISO)

vorinostat (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to lithium ion (IEP)

central nervous system development (ISO)

DN2 thymocyte differentiation (ISO)

DNA ligation (ISO)

DNA ligation involved in DNA repair (IBA,ISO)

double-strand break repair (ISO)

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

fibroblast proliferation (ISO)

immunoglobulin V(D)J recombination (IBA,ISO)

in utero embryonic development (ISO)

isotype switching (ISO)

negative regulation of neuron apoptotic process (ISO)

negative regulation of protection from non-homologous end joining at telomere (ISO)

neurogenesis (ISO)

neuron apoptotic process (ISO)

positive regulation of fibroblast proliferation (ISO)

positive regulation of ligase activity (IBA,ISO)

positive regulation of neurogenesis (ISO)

positive regulation of phosphatidylserine exposure on apoptotic cell surface (ISO)

pro-B cell differentiation (ISO)

protein localization to nuclear envelope (ISO)

protein localization to site of double-strand break (ISO)

response to gamma radiation (ISO)

response to ionizing radiation (ISO)

response to X-ray (IBA,ISO)

T cell differentiation in thymus (ISO)

telomeric DNA-containing double minutes formation (ISO)

V(D)J recombination (ISO)

Cellular Component

cellular_component (ND)

chromosome, telomeric region (ISO)

condensed chromosome (ISO)

cytoplasm (ISO)

cytosol (ISO)

DNA ligase IV complex (IBA,ISO)

DNA-dependent protein kinase-DNA ligase 4 complex (IBA,ISO)

ERCC4-ERCC1 complex (ISO)

nonhomologous end joining complex (ISO)

nucleoplasm (ISO)

nucleus (ISO)

site of double-strand break (ISO)

Molecular Function

3' overhang single-stranded DNA endodeoxyribonuclease activity (ISO)

DNA binding (ISO)

FHA domain binding (ISO)

identical protein binding (ISO)

ligase activity (ISO)

molecular_function (ND)

protein binding (ISO)

protein C-terminus 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.	Gao Y, etal., Nature 2000 Apr 20;404(6780):897-900.
2.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	Hayden PJ, etal., Hum Mol Genet. 2007 Dec 15;16(24):3117-27. Epub 2007 Sep 26.
4.	Lieber MR Annu Rev Biochem. 2010;79:181-211. doi: 10.1146/annurev.biochem.052308.093131.
5.	MGD data from the GO Consortium
6.	Pipeline to import KEGG annotations from KEGG into RGD
7.	RGD automated data pipeline
8.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9.	RGD automated import pipeline for gene-chemical interactions
10.	RGD comprehensive gene curation
11.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
12.	Xu L, etal., PLoS One. 2015 Jun 2;10(6):e0128753. doi: 10.1371/journal.pone.0128753. eCollection 2015.
13.	Zhuang J, etal., Biochem Biophys Res Commun. 2009 Mar 13;380(3):650-4. Epub 2009 Jan 31.

Additional References at PubMed

PMID:9242410	PMID:9259561	PMID:9809069	PMID:9875844	PMID:10716994	PMID:11751629	PMID:12517771	PMID:12589063	PMID:14690602	PMID:15194694	PMID:16169070	PMID:17713479
PMID:20383123	PMID:21070942	PMID:21768349	PMID:25416956	PMID:25941166	PMID:27644316	PMID:31515488

Genomics

Comparative Map Data

Xrcc4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	2	20,948,464 - 21,197,705 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	2	20,951,200 - 21,197,808 (-)	Ensembl
Rnor_6.0	2	18,674,496 - 18,927,463 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	18,677,220 - 18,927,365 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	18,550,304 - 18,803,313 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	19,904,490 - 20,158,358 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	2	19,824,860 - 20,078,727 (-)	NCBI
Celera	2	17,092,971 - 17,325,919 (-)	NCBI		Celera
Cytogenetic Map	2	q12	NCBI

XRCC4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	5	83,077,547 - 83,374,473 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	5	83,077,498 - 83,353,787 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	5	82,373,366 - 82,649,579 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	82,409,073 - 82,685,335 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	5	82,409,072 - 82,685,333	NCBI
Celera	5	78,277,921 - 78,554,649 (+)	NCBI
Cytogenetic Map	5	q14.2	NCBI
HuRef	5	77,581,701 - 77,857,876 (+)	NCBI		HuRef
CHM1_1	5	81,806,225 - 82,082,296 (+)	NCBI		CHM1_1

Xrcc4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	89,997,033 - 90,237,727 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	13	89,922,146 - 90,237,727 (-)	Ensembl
GRCm38	13	89,848,914 - 90,089,608 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	89,774,027 - 90,089,608 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	89,988,519 - 90,229,213 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	13	90,323,160 - 90,563,762 (-)	NCBI			mm8
Celera	13	90,272,259 - 90,272,798 (-)	ENTREZGENE		Celera
Cytogenetic Map	13	C3	NCBI

Xrcc4
(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_004955418	27,173,659 - 27,426,264 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955418	27,174,510 - 27,426,245 (-)	NCBI	ChiLan1.0	ChiLan1.0

XRCC4
(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	5	32,246,959 - 32,521,724 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	32,246,320 - 32,521,490 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	5	31,927,463 - 32,202,394 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

XRCC4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	3	24,316,598 - 24,547,463 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	3	24,269,974 - 24,533,465 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	3	25,552,786 - 25,784,876 (-)	NCBI
ROS_Cfam_1.0	3	24,221,065 - 24,459,863 (-)	NCBI
ROS_Cfam_1.0 Ensembl	3	24,223,262 - 24,459,740 (-)	Ensembl
UMICH_Zoey_3.1	3	24,183,704 - 24,415,864 (-)	NCBI
UNSW_CanFamBas_1.0	3	24,144,360 - 24,382,706 (-)	NCBI
UU_Cfam_GSD_1.0	3	24,431,265 - 24,663,456 (-)	NCBI

Xrcc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024407213	180,130,706 - 180,377,405 (-)	NCBI
SpeTri2.0	NW_004936469	2,248,367 - 2,495,215 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

XRCC4
(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	4	77,182,569 - 77,468,786 (+)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	4	77,182,793 - 77,468,775 (+)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666049	26,084,964 - 26,376,614 (+)	NCBI	Vero_WHO_p1.0

Xrcc4
(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_004624743	3,299,329 - 3,549,182 (+)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

D10Ulb1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	2	21,143,394 - 21,144,889 (+)	MAPPER	mRatBN7.2
mRatBN7.2	10	5,796,328 - 5,796,484 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	5,872,003 - 5,872,158	NCBI	Rnor6.0
Rnor_6.0	2	18,873,175 - 18,874,669	NCBI	Rnor6.0
Rnor_5.0	10	4,690,107 - 4,690,262	UniSTS	Rnor5.0
Rnor_5.0	2	18,748,955 - 18,750,449	UniSTS	Rnor5.0
RGSC_v3.4	2	20,104,168 - 20,105,662	UniSTS	RGSC3.4
RGSC_v3.4	10	5,755,479 - 5,755,634	UniSTS	RGSC3.4
Celera	10	4,807,109 - 4,807,263	UniSTS
Celera	2	17,271,726 - 17,273,220	UniSTS
Cytogenetic Map	2	q12	UniSTS
Cytogenetic Map	10	q11	UniSTS

BI303647

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	2	21,195,901 - 21,196,021 (+)	MAPPER	mRatBN7.2
Rnor_6.0	2	18,925,682 - 18,925,801	NCBI	Rnor6.0
Rnor_5.0	2	18,801,462 - 18,801,581	UniSTS	Rnor5.0
RGSC_v3.4	2	20,156,675 - 20,156,794	UniSTS	RGSC3.4
Celera	2	17,324,236 - 17,324,355	UniSTS
Cytogenetic Map	2	q12	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631682	Bp115	Blood pressure QTL 115	4.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	1	37410502	Rat
738010	Lnnr3	Liver neoplastic nodule remodeling QTL 3	2.94		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	2	1	41244106	Rat
61355	Bp36	Blood pressure QTL 36	2.9		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	2	5873687	102844969	Rat
61368	Mcs1	Mammary carcinoma susceptibility QTL 1	4.4		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	2	7887772	23319447	Rat
1600379	Mcs18	Mammary carcinoma susceptibility QTL 18	2.6		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	2	7887772	42804738	Rat
738012	Anxrr3	Anxiety related response QTL 3	3.8		exploratory behavior trait (VT:0010471)	percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)	2	9023519	54023519	Rat
10755430	Coatc6	Coat color QTL 6		0.02576	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	2	11591100	56591100	Rat
1578664	Bmd9	Bone mineral QTL density 9	5		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	2	11852062	49003364	Rat
731184	Mamtr4	Mammary tumor resistance QTL 4		0.0003	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	2	16491740	61491740	Rat
1357990	Ael1	Aortic elastin QTL 1	3.1	0.00091	aorta elastin amount (VT:0003905)	aortic elastin	2	19076825	64076825	Rat
731167	Glom4	Glomerulus QTL 4	2.4	0.0082	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	2	20304672	65304672	Rat
2300168	Bmd47	Bone mineral density QTL 47	6.6	0.0001	femur mineral mass (VT:0010011)	bone mineral density (CMO:0001226)	2	20662448	65662448	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	223
Count of miRNA genes:	151
Interacting mature miRNAs:	172
Transcripts:	ENSRNOT00000045850
Prediction methods:	Microtar, Miranda, 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		26	11	4	12	4			68	14	34	8
Low	3	17	46	37	7	37	8	11	6	21	7	3	8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001006999	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006231751	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008760636	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008760637	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102165	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102166	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102167	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102168	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102169	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC083848	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473955	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ230968	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000065	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000045850 ⟹ ENSRNOP00000048754

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	2	20,951,200 - 21,191,701 (-)	Ensembl
Rnor_6.0 Ensembl	2	18,677,220 - 18,927,365 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000097360 ⟹ ENSRNOP00000085204

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	2	20,951,202 - 21,197,546 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000114855 ⟹ ENSRNOP00000077554

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	2	20,951,201 - 21,197,808 (-)	Ensembl

RefSeq Acc Id:

NM_001006999 ⟹ NP_001007000

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	20,951,198 - 21,197,585 (-)	NCBI
Rnor_6.0	2	18,677,218 - 18,927,365 (-)	NCBI
Rnor_5.0	2	18,550,304 - 18,803,313 (-)	NCBI
RGSC_v3.4	2	19,904,490 - 20,158,358 (-)	RGD
Celera	2	17,092,971 - 17,325,919 (-)	RGD

Sequence:

show sequence

GAAGTGGAGTCACTGAGAGGTCATCAGAAATGGAAAGGAAAGTCAGCAGAATCTCTCTGGCTTC
TGAACCCAATGTAACCTACTTTCTACAAGTGTCTTGGGAGGGGACGATAGGATCTGGTTTTGTT
ATTACACTTACGGATGGCCATTCAGCCTGGACTGCAAAAGTTTCTGAATCGGAGATTGCACAGG
AAGCTGATGACATGGCTATGGAGCAGGAAAAATACATGGATGAGCTGAGACGGGCACTGGTGCC
AGAGTCGGGAGCAGCTGGTGCATACAAGTTCATCTTTTCCAAGGACACTCAGCATTTCTCCCTG
GAGAAAGAACTGAAAGATGTTTCTTTCAGACTTGGTTCCTTCAACCTAGACAAAGTTACAAACC
CAACTGAAGTCATCAGAGAACTCATTTGCTACTGCCTGGACACCATTGCGGAAAAACAAGCCAA
AAACGAGCACCTGCAGAAGGAAAACGAAAGGCTCCTGAGAGATTGGACTGACGTTCAAGGCCGA
TTTGAGAAATGTGTGAGTGACAAAGAAGCCTTGGAGGCCGATTTGTATCAAAGATTTATCTTGG
TGCTGAATGAGAAGAAAACAAAAATCCGAAGCTTGTTGAGTGAAGTCCAGCAGCTGGAGAAGAG
TACCAAACCTGAAAGGGAAACTCCGAGTTCTGACAAAATACCTGAGGAGGATGGGCTTTATGAT
GGCAGCACTGATGAAGAAAGCGGAGCCCCTGTGCTGGGCGCAGATACCCTTGATAAGGATGATT
CCTTATTTTCAAGTCCAGATGTCACTGATATTGCACCAAGTAGGAAGAGGAGACACCGAATGCA
GACAAATCTTGGGACAGAACCTAAAATGGCTCCACAGGAGCTGCCACTACAGGAGAAGGAAAGG
CTTGGCTCTTCACCGCCTCAGACCTTGAAAGAGGAGGGCACCTCTGCTGCAAAGATGTCCTTAG
AAACCCTGAGAAACAGCAGCCCAGAAGACCTCTTTGACTAGATAGAAACCCTAGAAGACAACGG
TGGTGTTCAATAAACTACACTCTTTACCCAGTTCCGTTGGATGAAAAGACAGGCTTTCACCTTA
GCGGCCATGGTTACTGTGTCTTGCACCTTCACTCTATGTACCCAATGGATTACACAGTATGTGA
CCATCAGACTGCATGACAGAGGGACACGTTTCTCCCCTTCTAGTTCCATTGTTTGTTAAGTATG
AATTTTGTGGCAAAGTGTACATTATCGTATTTGTTTACACATCATTGTAACTTTCTAATGACTC
TTGGAAGATTTTGGAAATATAGCAAAGAAAAACTTTAATTCTTTTTTATTTCACTTTAAATTAT
TTTTTGAACATTTGTGATGTGACACATATAAAATACATCTTTATCTTATATATAAACAATCTGA
TGGTTAATAAAAGTTTGTGTTCTTAAAGGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006231751 ⟹ XP_006231813

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	20,948,464 - 21,197,560 (-)	NCBI
Rnor_6.0	2	18,674,496 - 18,927,340 (-)	NCBI
Rnor_5.0	2	18,550,304 - 18,803,313 (-)	NCBI

Sequence:

show sequence

CCCGGAAGTGGCTGTGGTGTCTTTCCACTAGCAGTGCTATTTTTCTTGCGCTTTCCTCGTCTTT
TCTTTCTATGTCAACCTCCTGTAGTTCTCGGATCTTAGCTTTAAAGCTGCTCTGTGCGTGTTTT
TCACCCGGTCTGTGACCCCTGAGCCTTTTGTTTGTGGATATCAGATTTCCCCAAGGTCATCAGA
AATGGAAAGGAAAGTCAGCAGAATCTCTCTGGCTTCTGAACCCAATGTAACCTACTTTCTACAA
GTGTCTTGGGAGGGGACGATAGGATCTGGTTTTGTTATTACACTTACGGATGGCCATTCAGCCT
GGACTGCAAAAGTTTCTGAATCGGAGATTGCACAGGAAGCTGATGACATGGCTATGGAGCAGGA
AAAATACATGGATGAGCTGAGACGGGCACTGGTGCCAGAGTCGGGAGCAGCTGGTGCATACAAG
TTCATCTTTTCCAAGGACACTCAGCATTTCTCCCTGGAGAAAGAACTGAAAGATGTTTCTTTCA
GACTTGGTTCCTTCAACCTAGACAAAGTTACAAACCCAACTGAAGTCATCAGAGAACTCATTTG
CTACTGCCTGGACACCATTGCGGAAAAACAAGCCAAAAACGAGCACCTGCAGAAGGAAAACGAA
AGGCTCCTGAGAGATTGGACTGACGTTCAAGGCCGATTTGAGAAATGTGTGAGTGACAAAGAAG
CCTTGGAGGCCGATTTGTATCAAAGATTTATCTTGGTGCTGAATGAGAAGAAAACAAAAATCCG
AAGCTTGTTGAGTGAAGTCCAGCAGCTGGAGAAGAGTACCAAACCTGAAAGGGAAACTCCGAGT
TCTGACAAAATACCTGAGGAGGATGGGCTTTATGATGGCAGCACTGATGAAGAAAGCGGAGCCC
CTGTGCTGGGCGCAGATACCCTTGATAAGGATGATTCCTTATTTTCAAGTCCAGATGTCACTGA
TATTGCACCAAGTAGGAAGAGGAGACACCGAATGCAGACAAATCTTGGGACAGAACCTAAAATG
GCTCCACAGGAGCTGCCACTACAGGAGAAGGAAAGGCTTGGCTCTTCACCGCCTCAGACCTTGA
AAGAGGAGGGCACCTCTGCTGCAAAGATGTCCTTAGAAACCCTGAGAAACAGCAGCCCAGAAGA
CCTCTTTGACTAGATAGAAACCCTAGAAGACAACGGTGGTGTTCAATAAACTACACTCTTTACC
CAGTTCCGTTGGATGAAAAGACAGGCTTTCACCTTAGCGGCCATGGTTACTGTGTCTTGCACCT
TCACTCTATGTACCCAATGGATTACACAGTATGTGACCATCAGACTGCATGACAGAGGGACACG
TTTCTCCCCTTCTAGTTCCATTGTTTGTTAAGTATGAATTTTGTGGCAAAGTGTACATTATCGT
ATTTGTTTACACATCATTGTAACTTTCTAATGACTCTTGGAAGATTTTGGAAATATAGCAAAGA
AAAACTTTAATTCTTTTTTATTTCACTTTAAATTATTTTTTGAACATTTGTGATGTGACACATA
TAAAATACATCTTTATCTTATATATAAACAATCTGATGGTTAATAAAAGTTTGTGTTCTTAAAG
GAATTATTCAACTGAACTTTTTCTTTACCATAGTAACTTGACTTTCTAAAGTGCTTACTATTAG
GCATCCTAATAGTGTTCGAGTGATGATGGCCCCACACCCATGCACACACTGGCAGTACTAGCTG
GTTCTAGTAGGTTATTTAAAAATAGAAATAACTTTGGGAAGAGAACATATTGAAGAGTATGTGG
AAGGAATTAGGGAGAAATCAGAAGACATTTTGTACTTTATGTATATATGAACCTCTCAAGAAAA
AAAGAAAGAAAAGCAAATGTTTGCATATATAAATGTAACCATTTGGAGGACAAAAAAAGACCCC
AATAACATTTTAGGCCCTTCTCGAAGGCAACGACTGTGCCTCATCTGTCACCTTTAAAAGTTGG
TGCTTTGCTTTTTCTATTCCCCCTTCTGTTCCTGACCCAGTCCTGTCGGTTCCTTCCAGCTAAG
ATTGATTTCCTCCTACCAAAATCATGATGGACACTATGTTGGCACATGCGGAATTTGGTCCATT
CTGTGACATCAGCATGATTGATAAAGCTCATCACTTCTATTTTCCCCTCATGACTTTTGGAACA
ACATTTGTGCAGTGTGGTCTTCATTTATTCTGGCCACTTATTTTTGGCTTCTTGAGTGATTCTA
CTCTGCTCAGTAGATCACTAACTGTAGGCTCAGTCTTCAACACTCTCCTCTTCATGGCCCTTAG
GTTTCCTGTGATTTTCAATATCACATTTACTTTTATTATCAAACCTAATAGGAAAAATTATAAA
TGGACTTACATGTACATATGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA
TTGATTCATACATTTTATCCATGTATGGCTTGTGCTTATACTCTCATGACTTCAGAGGCCAAAG
CTGCTGGAGAATTTTCCGTGGATTCAAGGTCAGCCTGGATTATCTAGTAAGTTCTAGCCTATCC
TGGGCTTCATAAAAAGTATATATTTTAAAATTTTATCACATTTCAATTTTCTAATGGATTAAAT
TTAAGAAAAATCTGTGTATCTATAAATGTACCAATTACAAATATAAGACTAATGAATTTCTACT
TAGTCATGCAAGAATGTTACTATACTGTTGAGTTTTCTATAATAATCTAAGATGCATGTACCTT
AGCTCTTTCCAAGGGACTTTAAAATGAGACAGAATACAAGTAATTAAAAGGACACAACCAGTAT
GTGTAAAGTAATGAGAAAAATCAGTGATGAGTGATTCCCAAAGTAAGGCTAGCAATAGCATCCA
TCGAGTTCGTCATATTTAGAACATTTTAGATTTTTATTTTATCTTTGTAAGACAATAGATATTT
TCACCCATCACTGCATTGCATTGATTCACTTGTTTACAAAAGTGTGCATACAGCCTCTAAGCAC
AGGTTGTTCATATCTTTCGAAGACACAAAAGCCATAACATTCTGTTTCAAGCACACTGTAGACA
ACACTCCACAACATGCTTAGATCATGCTATTCCAGACCATGTCTATGGTTTCCACTGTCTGTGT
GTGAAAACAAAGTGCTCTGGAGACCACTGGCTGACTTGAAAGGCACAGAAACAGAGTATGAAGG
CATTGTGACTCTTTGAATGTTAGTATCCCCACTTCTAAGACAAGTGGATTTCATTTCTGAGGGA
TTTTTTTTCATCTTAAAATTTATAAGTTGGGGCTGGCATCAGATATGGTGTAGAGTTCATTAGG
GAAGAAAAAAGAGACCCTGCATAAGCAGAGATGTCTTTATTATATAATTTTAAAAGGTCATATA
TCTACTTTACAAAAGGTTTGCTTCATGACCTATAATCAAATTTATAAAATACAGGACTGTGATT
TTGAGCCAAACAACTCTTTATTGGGTGTTTGATTCAACACGTGTTTACCAAGGAAATGTTGTAC
ACAAAGTACAGACCTGGGCCATCTGGAGAAATAAAGGAAAAATCTATTCATTTTACAAACAGTT
GCTGAACATTTGTGCTAGTTTTGGTTCTTGGCATTAGCTGTGGTTATGAGCACAACAGGTAAGC
AACTTTTCGCCACAGAGCACTCATTGTAGTAAATGAAGCCTAGGGCCCTTCAAAACAAGGCTGA
AACTTCCCTGTAATTAACTGTGAGTTCAAAGAGCTCTTTTAGGGCATCTGAGAATAAGGAAAAA
AATGTTGTTCTGTGAGACTTTTGCTAGACATGGCCCAGAAAAAACAACCGTTGTCTTTTTGTGC
CACCCCTATACTCAAACATCAATTTTAGAATCCTTCACAAGTATCTGACATCTATATTCAAAGT
GAGCCTCCTCAATTTACCTGTGAGTTGATAATCCCAGAAAACACAGTTACAGTTCTGCCCCACC
CTAATGATATTGTAAGGTGAAATCATGACACCCACAAGATCTCCCCTGCACACATTTATGCCTA
TTACCTGGATTTTACATTTCTCACAAAGTGTGTGAATTTTCTAGCAAATTCTTTAGATGAAATT
TCATTATAGATGTTCCATGAATTATCCTAAAATGATCTTCTCTGTATTCTAATTATAAAGAGTA
CCTTGAAATGATTGTCTGACTTCTCTCTTTCTGGCCAGTAACTTTCTTACCTCCTCAGGTATCT
GGGCTACACTGGTTCATGTTTAATCTGCTCAGCAATTCTTTCATTTGCCCATGACTTTTTATTT
TTTTCCTCCCCCATATTTGAATAAAGTTCAACATGAA

hide sequence

RefSeq Acc Id:

XM_008760636 ⟹ XP_008758858

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	20,948,464 - 21,197,705 (-)	NCBI
Rnor_6.0	2	18,674,496 - 18,927,463 (-)	NCBI

Sequence:

show sequence

GGGCTTGGTCTACTACTTACAAACCACGGTATTAGCGGATTCTCTCATTGGGCGCCCAGGTTTA
AAGCTGGGTGTCCACAATTTTTTTTAAAAGACCGGAAGTGGAGTCACTGAGAGGTCATCAGAAA
TGGAAAGGAAAGTCAGCAGAATCTCTCTGGCTTCTGAACCCAATGTAACCTACTTTCTACAAGT
GTCTTGGGAGGGGACGATAGGATCTGGTTTTGTTATTACACTTACGGATGGCCATTCAGCCTGG
ACTGCAAAAGGTAATCTGGACAACAATCCTGTTTCAAGTAAAATTTCTGAATCGGAGATTGCAC
AGGAAGCTGATGACATGGCTATGGAGCAGGAAAAATACATGGATGAGCTGAGACGGGCACTGGT
GCCAGAGTCGGGAGCAGCTGGTGCATACAAGTTCATCTTTTCCAAGGACACTCAGCATTTCTCC
CTGGAGAAAGAACTGAAAGATGTTTCTTTCAGACTTGGTTCCTTCAACCTAGACAAAGTTACAA
ACCCAACTGAAGTCATCAGAGAACTCATTTGCTACTGCCTGGACACCATTGCGGAAAAACAAGC
CAAAAACGAGCACCTGCAGAAGGAAAACGAAAGGCTCCTGAGAGATTGGACTGACGTTCAAGGC
CGATTTGAGAAATGTGTGAGTGACAAAGAAGCCTTGGAGGCCGATTTGTATCAAAGATTTATCT
TGGTGCTGAATGAGAAGAAAACAAAAATCCGAAGCTTGTTGAGTGAAGTCCAGCAGCTGGAGAA
GAGTACCAAACCTGAAAGGGAAACTCCGAGTTCTGACAAAATACCTGAGGAGGATGGGCTTTAT
GATGGCAGCACTGATGAAGAAAGCGGAGCCCCTGTGCTGGGCGCAGATACCCTTGATAAGGATG
ATTCCTTATTTTCAAGTCCAGATGTCACTGATATTGCACCAAGTAGGAAGAGGAGACACCGAAT
GCAGACAAATCTTGGGACAGAACCTAAAATGGCTCCACAGGAGCTGCCACTACAGGAGAAGGAA
AGGCTTGGCTCTTCACCGCCTCAGACCTTGAAAGAGGAGGGCACCTCTGCTGCAAAGATGTCCT
TAGAAACCCTGAGAAACAGCAGCCCAGAAGACCTCTTTGACTAGATAGAAACCCTAGAAGACAA
CGGTGGTGTTCAATAAACTACACTCTTTACCCAGTTCCGTTGGATGAAAAGACAGGCTTTCACC
TTAGCGGCCATGGTTACTGTGTCTTGCACCTTCACTCTATGTACCCAATGGATTACACAGTATG
TGACCATCAGACTGCATGACAGAGGGACACGTTTCTCCCCTTCTAGTTCCATTGTTTGTTAAGT
ATGAATTTTGTGGCAAAGTGTACATTATCGTATTTGTTTACACATCATTGTAACTTTCTAATGA
CTCTTGGAAGATTTTGGAAATATAGCAAAGAAAAACTTTAATTCTTTTTTATTTCACTTTAAAT
TATTTTTTGAACATTTGTGATGTGACACATATAAAATACATCTTTATCTTATATATAAACAATC
TGATGGTTAATAAAAGTTTGTGTTCTTAAAGGAATTATTCAACTGAACTTTTTCTTTACCATAG
TAACTTGACTTTCTAAAGTGCTTACTATTAGGCATCCTAATAGTGTTCGAGTGATGATGGCCCC
ACACCCATGCACACACTGGCAGTACTAGCTGGTTCTAGTAGGTTATTTAAAAATAGAAATAACT
TTGGGAAGAGAACATATTGAAGAGTATGTGGAAGGAATTAGGGAGAAATCAGAAGACATTTTGT
ACTTTATGTATATATGAACCTCTCAAGAAAAAAAGAAAGAAAAGCAAATGTTTGCATATATAAA
TGTAACCATTTGGAGGACAAAAAAAGACCCCAATAACATTTTAGGCCCTTCTCGAAGGCAACGA
CTGTGCCTCATCTGTCACCTTTAAAAGTTGGTGCTTTGCTTTTTCTATTCCCCCTTCTGTTCCT
GACCCAGTCCTGTCGGTTCCTTCCAGCTAAGATTGATTTCCTCCTACCAAAATCATGATGGACA
CTATGTTGGCACATGCGGAATTTGGTCCATTCTGTGACATCAGCATGATTGATAAAGCTCATCA
CTTCTATTTTCCCCTCATGACTTTTGGAACAACATTTGTGCAGTGTGGTCTTCATTTATTCTGG
CCACTTATTTTTGGCTTCTTGAGTGATTCTACTCTGCTCAGTAGATCACTAACTGTAGGCTCAG
TCTTCAACACTCTCCTCTTCATGGCCCTTAGGTTTCCTGTGATTTTCAATATCACATTTACTTT
TATTATCAAACCTAATAGGAAAAATTATAAATGGACTTACATGTACATATGGAGAGAGAGAGAG
AGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATTGATTCATACATTTTATCCATGTATGGCTTGT
GCTTATACTCTCATGACTTCAGAGGCCAAAGCTGCTGGAGAATTTTCCGTGGATTCAAGGTCAG
CCTGGATTATCTAGTAAGTTCTAGCCTATCCTGGGCTTCATAAAAAGTATATATTTTAAAATTT
TATCACATTTCAATTTTCTAATGGATTAAATTTAAGAAAAATCTGTGTATCTATAAATGTACCA
ATTACAAATATAAGACTAATGAATTTCTACTTAGTCATGCAAGAATGTTACTATACTGTTGAGT
TTTCTATAATAATCTAAGATGCATGTACCTTAGCTCTTTCCAAGGGACTTTAAAATGAGACAGA
ATACAAGTAATTAAAAGGACACAACCAGTATGTGTAAAGTAATGAGAAAAATCAGTGATGAGTG
ATTCCCAAAGTAAGGCTAGCAATAGCATCCATCGAGTTCGTCATATTTAGAACATTTTAGATTT
TTATTTTATCTTTGTAAGACAATAGATATTTTCACCCATCACTGCATTGCATTGATTCACTTGT
TTACAAAAGTGTGCATACAGCCTCTAAGCACAGGTTGTTCATATCTTTCGAAGACACAAAAGCC
ATAACATTCTGTTTCAAGCACACTGTAGACAACACTCCACAACATGCTTAGATCATGCTATTCC
AGACCATGTCTATGGTTTCCACTGTCTGTGTGTGAAAACAAAGTGCTCTGGAGACCACTGGCTG
ACTTGAAAGGCACAGAAACAGAGTATGAAGGCATTGTGACTCTTTGAATGTTAGTATCCCCACT
TCTAAGACAAGTGGATTTCATTTCTGAGGGATTTTTTTTCATCTTAAAATTTATAAGTTGGGGC
TGGCATCAGATATGGTGTAGAGTTCATTAGGGAAGAAAAAAGAGACCCTGCATAAGCAGAGATG
TCTTTATTATATAATTTTAAAAGGTCATATATCTACTTTACAAAAGGTTTGCTTCATGACCTAT
AATCAAATTTATAAAATACAGGACTGTGATTTTGAGCCAAACAACTCTTTATTGGGTGTTTGAT
TCAACACGTGTTTACCAAGGAAATGTTGTACACAAAGTACAGACCTGGGCCATCTGGAGAAATA
AAGGAAAAATCTATTCATTTTACAAACAGTTGCTGAACATTTGTGCTAGTTTTGGTTCTTGGCA
TTAGCTGTGGTTATGAGCACAACAGGTAAGCAACTTTTCGCCACAGAGCACTCATTGTAGTAAA
TGAAGCCTAGGGCCCTTCAAAACAAGGCTGAAACTTCCCTGTAATTAACTGTGAGTTCAAAGAG
CTCTTTTAGGGCATCTGAGAATAAGGAAAAAAATGTTGTTCTGTGAGACTTTTGCTAGACATGG
CCCAGAAAAAACAACCGTTGTCTTTTTGTGCCACCCCTATACTCAAACATCAATTTTAGAATCC
TTCACAAGTATCTGACATCTATATTCAAAGTGAGCCTCCTCAATTTACCTGTGAGTTGATAATC
CCAGAAAACACAGTTACAGTTCTGCCCCACCCTAATGATATTGTAAGGTGAAATCATGACACCC
ACAAGATCTCCCCTGCACACATTTATGCCTATTACCTGGATTTTACATTTCTCACAAAGTGTGT
GAATTTTCTAGCAAATTCTTTAGATGAAATTTCATTATAGATGTTCCATGAATTATCCTAAAAT
GATCTTCTCTGTATTCTAATTATAAAGAGTACCTTGAAATGATTGTCTGACTTCTCTCTTTCTG
GCCAGTAACTTTCTTACCTCCTCAGGTATCTGGGCTACACTGGTTCATGTTTAATCTGCTCAGC
AATTCTTTCATTTGCCCATGACTTTTTATTTTTTTCCTCCCCCATATTTGAATAAAGTTCAACA
TGAA

hide sequence

RefSeq Acc Id:

XM_008760637 ⟹ XP_008758859

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	20,948,464 - 21,197,560 (-)	NCBI
Rnor_6.0	2	18,674,496 - 18,927,340 (-)	NCBI

Sequence:

show sequence

CCCGGAAGTGGCTGTGGTGTCTTTCCACTAGCAGTGCTATTTTTCTTGCGCTTTCCTCGTCTTT
TCTTTCTATGTCAACCTCCTGTAGTTCTCGGATCTTAGCTTTAAAGCTGCTCTGTGCGTGTTTT
TCACCCGGTCTGTGACCCCTGAGCCTTTTGTTTGTGGATATCAGATTTCCCCAAGGTCATCAGA
AATGGAAAGGAAAGTCAGCAGAATCTCTCTGGCTTCTGAACCCAATGTAACCTACTTTCTACAA
GTGTCTTGGGAGGGGACGATAGGATCTGGTTTTGTTATTACACTTACGGATGGCCATTCAGCCT
GGACTGCAAAAGGTAATCTGGACAACAATCCTGTTTCAAGTAAAATTTCTGAATCGGAGATTGC
ACAGGAAGCTGATGACATGGCTATGGAGCAGGAAAAATACATGGATGAGCTGAGACGGGCACTG
GTGCCAGAGTCGGGAGCAGCTGGTGCATACAAGTTCATCTTTTCCAAGGACACTCAGCATTTCT
CCCTGGAGAAAGAACTGAAAGATGTTTCTTTCAGACTTGGTTCCTTCAACCTAGACAAAGTTAC
AAACCCAACTGAAGTCATCAGAGAACTCATTTGCTACTGCCTGGACACCATTGCGGAAAAACAA
GCCAAAAACGAGCACCTGCAGAAGGAAAACGAAAGGCTCCTGAGAGATTGGACTGACGTTCAAG
GCCGATTTGAGAAATGTGTGAGTGACAAAGAAGCCTTGGAGGCCGATTTGTATCAAAGATTTAT
CTTGGTGCTGAATGAGAAGAAAACAAAAATCCGAAGCTTGTTGAGTGAAGTCCAGCAGCTGGAG
AAGAGTACCAAACCTGAAAGGGAAACTCCGAGTTCTGACAAAATACCTGAGGAGGATGGGCTTT
ATGATGGCAGCACTGATGAAGAAAGCGGAGCCCCTGTGCTGGGCGCAGATACCCTTGATAAGGA
TGATTCCTTATTTTCAAGTCCAGATGTCACTGATATTGCACCAAGTAGGAAGAGGAGACACCGA
ATGCAGACAAATCTTGGGACAGAACCTAAAATGGCTCCACAGGAGCTGCCACTACAGGAGAAGG
AAAGGCTTGGCTCTTCACCGCCTCAGACCTTGAAAGAGGAGGGCACCTCTGCTGCAAAGATGTC
CTTAGAAACCCTGAGAAACAGCAGCCCAGAAGACCTCTTTGACTAGATAGAAACCCTAGAAGAC
AACGGTGGTGTTCAATAAACTACACTCTTTACCCAGTTCCGTTGGATGAAAAGACAGGCTTTCA
CCTTAGCGGCCATGGTTACTGTGTCTTGCACCTTCACTCTATGTACCCAATGGATTACACAGTA
TGTGACCATCAGACTGCATGACAGAGGGACACGTTTCTCCCCTTCTAGTTCCATTGTTTGTTAA
GTATGAATTTTGTGGCAAAGTGTACATTATCGTATTTGTTTACACATCATTGTAACTTTCTAAT
GACTCTTGGAAGATTTTGGAAATATAGCAAAGAAAAACTTTAATTCTTTTTTATTTCACTTTAA
ATTATTTTTTGAACATTTGTGATGTGACACATATAAAATACATCTTTATCTTATATATAAACAA
TCTGATGGTTAATAAAAGTTTGTGTTCTTAAAGGAATTATTCAACTGAACTTTTTCTTTACCAT
AGTAACTTGACTTTCTAAAGTGCTTACTATTAGGCATCCTAATAGTGTTCGAGTGATGATGGCC
CCACACCCATGCACACACTGGCAGTACTAGCTGGTTCTAGTAGGTTATTTAAAAATAGAAATAA
CTTTGGGAAGAGAACATATTGAAGAGTATGTGGAAGGAATTAGGGAGAAATCAGAAGACATTTT
GTACTTTATGTATATATGAACCTCTCAAGAAAAAAAGAAAGAAAAGCAAATGTTTGCATATATA
AATGTAACCATTTGGAGGACAAAAAAAGACCCCAATAACATTTTAGGCCCTTCTCGAAGGCAAC
GACTGTGCCTCATCTGTCACCTTTAAAAGTTGGTGCTTTGCTTTTTCTATTCCCCCTTCTGTTC
CTGACCCAGTCCTGTCGGTTCCTTCCAGCTAAGATTGATTTCCTCCTACCAAAATCATGATGGA
CACTATGTTGGCACATGCGGAATTTGGTCCATTCTGTGACATCAGCATGATTGATAAAGCTCAT
CACTTCTATTTTCCCCTCATGACTTTTGGAACAACATTTGTGCAGTGTGGTCTTCATTTATTCT
GGCCACTTATTTTTGGCTTCTTGAGTGATTCTACTCTGCTCAGTAGATCACTAACTGTAGGCTC
AGTCTTCAACACTCTCCTCTTCATGGCCCTTAGGTTTCCTGTGATTTTCAATATCACATTTACT
TTTATTATCAAACCTAATAGGAAAAATTATAAATGGACTTACATGTACATATGGAGAGAGAGAG
AGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATTGATTCATACATTTTATCCATGTATGGCTT
GTGCTTATACTCTCATGACTTCAGAGGCCAAAGCTGCTGGAGAATTTTCCGTGGATTCAAGGTC
AGCCTGGATTATCTAGTAAGTTCTAGCCTATCCTGGGCTTCATAAAAAGTATATATTTTAAAAT
TTTATCACATTTCAATTTTCTAATGGATTAAATTTAAGAAAAATCTGTGTATCTATAAATGTAC
CAATTACAAATATAAGACTAATGAATTTCTACTTAGTCATGCAAGAATGTTACTATACTGTTGA
GTTTTCTATAATAATCTAAGATGCATGTACCTTAGCTCTTTCCAAGGGACTTTAAAATGAGACA
GAATACAAGTAATTAAAAGGACACAACCAGTATGTGTAAAGTAATGAGAAAAATCAGTGATGAG
TGATTCCCAAAGTAAGGCTAGCAATAGCATCCATCGAGTTCGTCATATTTAGAACATTTTAGAT
TTTTATTTTATCTTTGTAAGACAATAGATATTTTCACCCATCACTGCATTGCATTGATTCACTT
GTTTACAAAAGTGTGCATACAGCCTCTAAGCACAGGTTGTTCATATCTTTCGAAGACACAAAAG
CCATAACATTCTGTTTCAAGCACACTGTAGACAACACTCCACAACATGCTTAGATCATGCTATT
CCAGACCATGTCTATGGTTTCCACTGTCTGTGTGTGAAAACAAAGTGCTCTGGAGACCACTGGC
TGACTTGAAAGGCACAGAAACAGAGTATGAAGGCATTGTGACTCTTTGAATGTTAGTATCCCCA
CTTCTAAGACAAGTGGATTTCATTTCTGAGGGATTTTTTTTCATCTTAAAATTTATAAGTTGGG
GCTGGCATCAGATATGGTGTAGAGTTCATTAGGGAAGAAAAAAGAGACCCTGCATAAGCAGAGA
TGTCTTTATTATATAATTTTAAAAGGTCATATATCTACTTTACAAAAGGTTTGCTTCATGACCT
ATAATCAAATTTATAAAATACAGGACTGTGATTTTGAGCCAAACAACTCTTTATTGGGTGTTTG
ATTCAACACGTGTTTACCAAGGAAATGTTGTACACAAAGTACAGACCTGGGCCATCTGGAGAAA
TAAAGGAAAAATCTATTCATTTTACAAACAGTTGCTGAACATTTGTGCTAGTTTTGGTTCTTGG
CATTAGCTGTGGTTATGAGCACAACAGGTAAGCAACTTTTCGCCACAGAGCACTCATTGTAGTA
AATGAAGCCTAGGGCCCTTCAAAACAAGGCTGAAACTTCCCTGTAATTAACTGTGAGTTCAAAG
AGCTCTTTTAGGGCATCTGAGAATAAGGAAAAAAATGTTGTTCTGTGAGACTTTTGCTAGACAT
GGCCCAGAAAAAACAACCGTTGTCTTTTTGTGCCACCCCTATACTCAAACATCAATTTTAGAAT
CCTTCACAAGTATCTGACATCTATATTCAAAGTGAGCCTCCTCAATTTACCTGTGAGTTGATAA
TCCCAGAAAACACAGTTACAGTTCTGCCCCACCCTAATGATATTGTAAGGTGAAATCATGACAC
CCACAAGATCTCCCCTGCACACATTTATGCCTATTACCTGGATTTTACATTTCTCACAAAGTGT
GTGAATTTTCTAGCAAATTCTTTAGATGAAATTTCATTATAGATGTTCCATGAATTATCCTAAA
ATGATCTTCTCTGTATTCTAATTATAAAGAGTACCTTGAAATGATTGTCTGACTTCTCTCTTTC
TGGCCAGTAACTTTCTTACCTCCTCAGGTATCTGGGCTACACTGGTTCATGTTTAATCTGCTCA
GCAATTCTTTCATTTGCCCATGACTTTTTATTTTTTTCCTCCCCCATATTTGAATAAAGTTCAA
CATGAA

hide sequence

RefSeq Acc Id:

XM_039102165 ⟹ XP_038958093

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	20,948,464 - 21,197,051 (-)	NCBI

RefSeq Acc Id:

XM_039102166 ⟹ XP_038958094

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	20,948,464 - 21,197,370 (-)	NCBI

RefSeq Acc Id:

XM_039102167 ⟹ XP_038958095

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	20,948,464 - 21,194,902 (-)	NCBI

RefSeq Acc Id:

XM_039102168 ⟹ XP_038958096

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	20,948,464 - 21,195,085 (-)	NCBI

RefSeq Acc Id:

XM_039102169 ⟹ XP_038958097

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	21,166,392 - 21,194,840 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001007000	(Get FASTA)	NCBI Sequence Viewer
	XP_006231813	(Get FASTA)	NCBI Sequence Viewer
	XP_008758858	(Get FASTA)	NCBI Sequence Viewer
	XP_008758859	(Get FASTA)	NCBI Sequence Viewer
	XP_038958093	(Get FASTA)	NCBI Sequence Viewer
	XP_038958094	(Get FASTA)	NCBI Sequence Viewer
	XP_038958095	(Get FASTA)	NCBI Sequence Viewer
	XP_038958096	(Get FASTA)	NCBI Sequence Viewer
	XP_038958097	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH83848	(Get FASTA)	NCBI Sequence Viewer
	EDM09993	(Get FASTA)	NCBI Sequence Viewer
	EDM09994	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001007000 ⟸ NM_001006999

- UniProtKB:

Q5XI44 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MERKVSRISLASEPNVTYFLQVSWEGTIGSGFVITLTDGHSAWTAKVSESEIAQEADDMAMEQE
KYMDELRRALVPESGAAGAYKFIFSKDTQHFSLEKELKDVSFRLGSFNLDKVTNPTEVIRELIC
YCLDTIAEKQAKNEHLQKENERLLRDWTDVQGRFEKCVSDKEALEADLYQRFILVLNEKKTKIR
SLLSEVQQLEKSTKPERETPSSDKIPEEDGLYDGSTDEESGAPVLGADTLDKDDSLFSSPDVTD
IAPSRKRRHRMQTNLGTEPKMAPQELPLQEKERLGSSPPQTLKEEGTSAAKMSLETLRNSSPED
LFD

hide sequence

RefSeq Acc Id:	XP_006231813 ⟸ XM_006231751
- Peptide Label:	isoform X2
- UniProtKB:	Q5XI44 (UniProtKB/TrEMBL)
- Sequence:	show sequence MERKVSRISLASEPNVTYFLQVSWEGTIGSGFVITLTDGHSAWTAKVSESEIAQEADDMAMEQE KYMDELRRALVPESGAAGAYKFIFSKDTQHFSLEKELKDVSFRLGSFNLDKVTNPTEVIRELIC YCLDTIAEKQAKNEHLQKENERLLRDWTDVQGRFEKCVSDKEALEADLYQRFILVLNEKKTKIR SLLSEVQQLEKSTKPERETPSSDKIPEEDGLYDGSTDEESGAPVLGADTLDKDDSLFSSPDVTD IAPSRKRRHRMQTNLGTEPKMAPQELPLQEKERLGSSPPQTLKEEGTSAAKMSLETLRNSSPED LFD hide sequence

RefSeq Acc Id:

XP_008758858 ⟸ XM_008760636

- Peptide Label:

isoform X1

- Sequence:

show sequence

MERKVSRISLASEPNVTYFLQVSWEGTIGSGFVITLTDGHSAWTAKGNLDNNPVSSKISESEIA
QEADDMAMEQEKYMDELRRALVPESGAAGAYKFIFSKDTQHFSLEKELKDVSFRLGSFNLDKVT
NPTEVIRELICYCLDTIAEKQAKNEHLQKENERLLRDWTDVQGRFEKCVSDKEALEADLYQRFI
LVLNEKKTKIRSLLSEVQQLEKSTKPERETPSSDKIPEEDGLYDGSTDEESGAPVLGADTLDKD
DSLFSSPDVTDIAPSRKRRHRMQTNLGTEPKMAPQELPLQEKERLGSSPPQTLKEEGTSAAKMS
LETLRNSSPEDLFD

hide sequence

RefSeq Acc Id:

XP_008758859 ⟸ XM_008760637

- Peptide Label:

isoform X1

- Sequence:

show sequence

MERKVSRISLASEPNVTYFLQVSWEGTIGSGFVITLTDGHSAWTAKGNLDNNPVSSKISESEIA
QEADDMAMEQEKYMDELRRALVPESGAAGAYKFIFSKDTQHFSLEKELKDVSFRLGSFNLDKVT
NPTEVIRELICYCLDTIAEKQAKNEHLQKENERLLRDWTDVQGRFEKCVSDKEALEADLYQRFI
LVLNEKKTKIRSLLSEVQQLEKSTKPERETPSSDKIPEEDGLYDGSTDEESGAPVLGADTLDKD
DSLFSSPDVTDIAPSRKRRHRMQTNLGTEPKMAPQELPLQEKERLGSSPPQTLKEEGTSAAKMS
LETLRNSSPEDLFD

hide sequence

RefSeq Acc Id:

ENSRNOP00000048754 ⟸ ENSRNOT00000045850

RefSeq Acc Id:	XP_038958094 ⟸ XM_039102166
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038958093 ⟸ XM_039102165
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038958096 ⟸ XM_039102168
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038958095 ⟸ XM_039102167
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038958097 ⟸ XM_039102169
- Peptide Label:	isoform X3

RefSeq Acc Id:

ENSRNOP00000085204 ⟸ ENSRNOT00000097360

RefSeq Acc Id:

ENSRNOP00000077554 ⟸ ENSRNOT00000114855

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q5XI44-F1-model_v2	AlphaFold	Q5XI44	1-323	view protein structure

Transcriptome

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

Promoters

RGD ID:

13691052

Promoter ID:

EPDNEW_R1577

Type:

single initiation site

Name:

Xrcc4_1

Description:

X-ray repair cross complementing 4

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	2	18,927,417 - 18,927,477	EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)

ACI/EurMcwi (2019)

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

ACI/N (2020)

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

BN-Lx/CubMcwi (2019)

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

BN/NHsdMcwi (2019)

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

BN/NHsdMcwi (2020)

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

BN/SsN (2020)

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

BUF/N (2020)

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

BXH2/CubMcwi (2020)

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

BXH3/CubMcwi (2020)

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

DA/OlaHsd (2019)

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

F344/DuCrl (2019)

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

F344/N (2020)

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

F344/NCrl (2019)

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

F344/Stm (2019)

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

FHH/EurMcwi (2019)

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

FXLE16/Stm (2020)

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

FXLE18/Stm (2020)

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

GK/FarMcwi (2019)

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

HXB10/IpcvMcwi (2019)

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

HXB2/IpcvMcwi (2019)

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

HXB20/IpcvMcwi (2020)

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

HXB31/IpcvMcwi (2019)

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

HXB4/IpcvMcwi (2020)

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

LE/Stm (2019)

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

LEW/Crl (2019)

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

LEXF10A/StmMcwi (2020)

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

LEXF11/Stm (2020)

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

LEXF1A/Stm (2019)

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

LEXF1C/Stm (2019)

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

LEXF2B/Stm (2019)

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

LEXF3/Stm (2020)

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

LEXF4/Stm (2020)

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

LH/MavRrrcAek (2020)

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

LL/MavRrrcAek (2020)

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

LN/MavRrrcAek (2020)

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

M520/N (2020)

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

M520/NRrrcMcwi (2019)

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

MR/N (2020)

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

MWF/Hsd (2019)

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

PVG/Seac (2019)

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

SHR/OlalpcvMcwi (2019)

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

SHRSP/A3NCrl (2019)

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

SR/JrHsd (2020)

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

SS/JrHsdMcwi (2019)

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

WAG/RijCrl (2020)

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

WKY/N (2020)

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

WKY/NCrl (2019)

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

WN/N (2020)

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

Damaging Variants

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
2	18805545	18805546	C	T	snv	SS/JrHsdMcwi (MCW), SS/Jr (RGD), SS/JrHsdMcwi (RGD), SR/JrHsd (RGD), SR/JrHsd (2020), SR/JrHsd (MCW), SS/JrHsdMcwi (2019)

Assembly: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
2	18681325	18681326	C	T	snv	SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), SS/JrHsdMcwi (KNAW), SS/Jr (KNAW), SR/JrHsd (KNAW)

Assembly: RGSC_v3.4

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
2	20038219	20038220	C	T	snv	SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), SS/JrHsdMcwi (ICL), SR/JrHsd (ICL), SS/Jr (ICL), SS/JrHsdMcwi (MDC)

Assembly: mRatBN7.2

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
2	21079490	21079491	C	T	snv	SS/JrHsdMcwi (2019), SR/JrHsd (2020)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1359573	AgrOrtholog
BioCyc Gene	G2FUF-54902	BioCyc
Ensembl Genes	ENSRNOG00000029966	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000048754	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000085204	ENTREZGENE
Ensembl Transcript	ENSRNOT00000045850	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000097360	ENTREZGENE
Gene3D-CATH	1.20.5.370	UniProtKB/TrEMBL
	2.170.210.10	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7122361	IMAGE-MGC_LOAD
InterPro	DNA_ds_break_repair_XRCC4	UniProtKB/TrEMBL
	XRCC4-like_C	UniProtKB/TrEMBL
	XRCC4-like_N_sf	UniProtKB/TrEMBL
	XRCC4_N	UniProtKB/TrEMBL
KEGG Report	rno:309995	UniProtKB/TrEMBL
MGC_CLONE	MGC:95022	IMAGE-MGC_LOAD
NCBI Gene	309995	ENTREZGENE
PANTHER	PTHR28559	UniProtKB/TrEMBL
Pfam	XRCC4	UniProtKB/TrEMBL
PharmGKB	XRCC4	RGD
PhenoGen	Xrcc4	PhenoGen
Superfamily-SCOP	XRCC4_N	UniProtKB/TrEMBL
UniProt	Q5XI44	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-06-08	Xrcc4	X-ray repair cross complementing 4	Xrcc4	X-ray repair complementing defective repair in Chinese hamster cells 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Xrcc4	X-ray repair complementing defective repair in Chinese hamster cells 4		X-ray repair cross complementing protein 4	Name updated	1299863	APPROVED
2005-07-29	Xrcc4	X-ray repair cross complementing protein 4			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

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)