Nectin3 (nectin cell adhesion molecule 3)

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Gene: Nectin3 (nectin cell adhesion molecule 3) Rattus norvegicus

Analyze

Symbol:

Nectin3

Name:

nectin cell adhesion molecule 3

RGD ID:

1309516

Description:

Predicted to have cell adhesion molecule binding activity and protein homodimerization activity. Predicted to be involved in several processes, including camera-type eye morphogenesis; heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules; and homophilic cell adhesion via plasma membrane adhesion molecules. Localizes to axon; dendrite; and synapse. Orthologous to human NECTIN3 (nectin cell adhesion molecule 3); INTERACTS WITH 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

LOC288124; nectin-3; poliovirus receptor-related 3; poliovirus receptor-related protein 3; Pvrl3

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	11	54,362,712 - 54,461,316 (+)	NCBI
Rnor_6.0 Ensembl	11	57,897,879 - 57,993,548 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	57,897,879 - 57,995,193 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	62,049,050 - 62,146,379 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	55,843,801 - 55,940,634 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	11	55,901,379 - 55,946,114 (+)	NCBI
Celera	11	53,897,883 - 53,994,695 (+)	NCBI		Celera
Cytogenetic Map	11	q21	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

cataract (ISO)

Teratozoospermia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1-dichloroethene (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

1,3-dinitrobenzene (EXP)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

8-Br-cAMP (ISO)

acetamide (EXP)

acrylamide (EXP)

aflatoxin B1 (ISO)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

benzo[b]fluoranthene (ISO)

bisphenol A (EXP,ISO)

buspirone (EXP)

cadmium atom (ISO)

chloroprene (ISO)

choline (ISO)

clofibric acid (EXP)

cobalt dichloride (EXP)

copper(II) sulfate (ISO)

crocidolite asbestos (ISO)

decabromodiphenyl ether (EXP)

diarsenic trioxide (ISO)

dibenz[a,h]anthracene (ISO)

dichloromethane (EXP)

dicrotophos (ISO)

diuron (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

endosulfan (EXP)

ethanol (ISO)

ethylbenzene (EXP)

flutamide (EXP)

folic acid (ISO)

glafenine (EXP)

ketamine (EXP)

L-methionine (ISO)

leflunomide (ISO)

N-nitrosodiethylamine (EXP)

nefazodone (EXP)

nimesulide (EXP)

ouabain (ISO)

oxaliplatin (EXP)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

phenobarbital (ISO)

pirinixic acid (ISO)

propiconazole (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

silver atom (ISO)

silver(0) (ISO)

sodium arsenite (ISO)

Soman (EXP)

succimer (ISO)

sunitinib (ISO)

tamoxifen (ISO)

tetrachloromethane (ISO)

thapsigargin (ISO)

titanium dioxide (ISO)

topotecan (EXP)

trichloroethene (EXP)

troglitazone (ISO)

urethane (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell adhesion (ISO)

cell-cell adhesion (ISO)

establishment of protein localization to plasma membrane (ISO)

fertilization (ISO)

heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules (IBA)

homophilic cell adhesion via plasma membrane adhesion molecules (IBA,ISO)

lens morphogenesis in camera-type eye (ISO)

protein localization to cell junction (ISO)

retina morphogenesis in camera-type eye (ISO)

spermatid development (IEA)

Cellular Component

adherens junction (IBA,ISO)

apical junction complex (IBA,ISO)

axon (IDA)

cell-cell contact zone (ISO)

cell-cell junction (ISO)

dendrite (IDA)

hippocampal mossy fiber to CA3 synapse (ISO)

integral component of postsynaptic density membrane (ISO)

plasma membrane (ISO)

synapse (IDA)

Molecular Function

cell adhesion molecule binding (ISO)

identical protein binding (ISO)

protein binding (ISO)

protein homodimerization activity (ISO)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	MGD data from the GO Consortium
3.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	RGD automated import pipeline for gene-chemical interactions
5.	Togashi H, etal., J Cell Biol. 2006 Jul 3;174(1):141-51. Epub 2006 Jun 26.

Additional References at PubMed

PMID:10744716	PMID:11827984	PMID:12438620	PMID:12515806	PMID:12740392	PMID:12759359	PMID:12826663	PMID:15328010	PMID:15660130	PMID:15728677	PMID:16249236	PMID:22512338
PMID:22902367	PMID:23073828	PMID:23533177	PMID:23990464	PMID:25232752	PMID:27044745	PMID:27217376	PMID:28176461

Genomics

Comparative Map Data

Nectin3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	11	54,362,712 - 54,461,316 (+)	NCBI
Rnor_6.0 Ensembl	11	57,897,879 - 57,993,548 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	57,897,879 - 57,995,193 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	62,049,050 - 62,146,379 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	55,843,801 - 55,940,634 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	11	55,901,379 - 55,946,114 (+)	NCBI
Celera	11	53,897,883 - 53,994,695 (+)	NCBI		Celera
Cytogenetic Map	11	q21	NCBI

NECTIN3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	3	111,070,071 - 111,275,563 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	3	111,071,764 - 111,201,444 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	3	110,790,663 - 110,913,017 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	3	110,790,606 - 110,913,017 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	112,273,555 - 112,335,752 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	3	112,273,554 - 112,335,752	NCBI
Celera	3	109,190,329 - 109,252,381 (+)	NCBI
Cytogenetic Map	3	q13.13	NCBI
HuRef	3	108,164,840 - 108,287,207 (+)	NCBI		HuRef
CHM1_1	3	110,754,866 - 110,877,275 (+)	NCBI		CHM1_1

Nectin3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	46,208,028 - 46,318,898 (-)	NCBI	GRCm39		mm39
GRCm38	16	46,387,665 - 46,498,535 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	46,387,706 - 46,498,525 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	46,395,118 - 46,497,080 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	16	46,314,342 - 46,416,301 (-)	NCBI			mm8
Celera	16	46,777,549 - 46,846,805 (-)	NCBI		Celera
Cytogenetic Map	16	B5	NCBI

Nectin3
(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_004955427	11,606,909 - 11,724,004 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955427	11,639,942 - 11,731,910 (+)	NCBI	ChiLan1.0	ChiLan1.0

NECTIN3
(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	3	115,148,481 - 115,278,563 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	115,148,481 - 115,270,507 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	108,223,380 - 108,354,079 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

NECTIN3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	33	15,911,411 - 15,933,307 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	33	15,868,813 - 16,173,158 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Nectin3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936834	86,195 - 110,686 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NECTIN3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	148,452,278 - 148,579,160 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	148,448,581 - 148,578,920 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	158,456,487 - 158,604,357 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NECTIN3
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	22	69,597,729 - 69,719,397 (-)	NCBI
ChlSab1.1 Ensembl	22	69,598,895 - 69,719,343 (-)	Ensembl

Nectin3
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624731	37,425,966 - 37,567,938 (-)	NCBI

Position Markers

BF386882

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	57,937,717 - 57,937,867	NCBI	Rnor6.0
Rnor_5.0	11	62,088,888 - 62,089,038	UniSTS	Rnor5.0
RGSC_v3.4	11	55,899,485 - 55,899,635	UniSTS	RGSC3.4
Celera	11	53,953,547 - 53,953,697	UniSTS
RH 3.4 Map	4	581.7	UniSTS
Cytogenetic Map	11	q21	UniSTS

RH12011

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	57,949,873 - 57,949,997	NCBI	Rnor6.0
Rnor_5.0	11	62,101,044 - 62,101,168	UniSTS	Rnor5.0
RGSC_v3.4	11	55,887,352 - 55,887,476	UniSTS	RGSC3.4
Celera	11	53,941,436 - 53,941,560	UniSTS
Cytogenetic Map	11	q21	UniSTS

RH133661

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	57,946,965 - 57,947,122	NCBI	Rnor6.0
Rnor_5.0	11	62,098,136 - 62,098,293	UniSTS	Rnor5.0
RGSC_v3.4	11	55,890,227 - 55,890,384	UniSTS	RGSC3.4
Celera	11	53,944,311 - 53,944,468	UniSTS
RH 3.4 Map	4	621.62	UniSTS
Cytogenetic Map	11	q21	UniSTS

BE111876

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	57,943,025 - 57,943,196	NCBI	Rnor6.0
Rnor_5.0	11	62,094,196 - 62,094,367	UniSTS	Rnor5.0
RGSC_v3.4	11	55,894,153 - 55,894,324	UniSTS	RGSC3.4
Celera	11	53,948,237 - 53,948,408	UniSTS
RH 3.4 Map	4	581.3	UniSTS
Cytogenetic Map	11	q21	UniSTS

RH137470

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	57,948,440 - 57,948,646	NCBI	Rnor6.0
Rnor_5.0	11	62,099,611 - 62,099,817	UniSTS	Rnor5.0
RGSC_v3.4	11	55,888,703 - 55,888,909	UniSTS	RGSC3.4
Celera	11	53,942,787 - 53,942,993	UniSTS
Cytogenetic Map	11	q21	UniSTS

PVRL3__5617

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	57,949,496 - 57,950,075	NCBI	Rnor6.0
Rnor_5.0	11	62,100,667 - 62,101,246	UniSTS	Rnor5.0
RGSC_v3.4	11	55,887,274 - 55,887,853	UniSTS	RGSC3.4
Celera	11	53,941,358 - 53,941,937	UniSTS
Cytogenetic Map	11	q21	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
1300147	Bp187	Blood pressure QTL 187	3.67		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	11	1	72720192	Rat
1558659	Tescar1	Testicular tumor resistance QTL 1	3.9		testis integrity trait (VT:0010572)	percentage of study population developing testis tumors during a period of time (CMO:0001261)	11	325031	69342559	Rat
724554	Iddm17	Insulin dependent diabetes mellitus QTL 17		0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	19016272	90463843	Rat
10755497	Bp388	Blood pressure QTL 388	2.76		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	19475179	79734728	Rat
1598811	Bp291	Blood pressure QTL 291	1.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	21944229	66944229	Rat
1598841	Memor7	Memory QTL 7			exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	11	21944229	66944229	Rat
10058952	Gmadr6	Adrenal mass QTL 6	2.29	0.0072	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	25401129	70401129	Rat
9590313	Scort20	Serum corticosterone level QTL 20	6.51	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	11	25720038	70720038	Rat
9589032	Epfw10	Epididymal fat weight QTL 10	9.29	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	11	25720038	70720038	Rat
8694376	Bw156	Body weight QTL 156	2.25	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	25720038	70720038	Rat
8694424	Bw162	Body weight QTL 162	3.8	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	25720038	70720038	Rat
724563	Uae10	Urinary albumin excretion QTL 10	6		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	11	28314665	86994795	Rat
1300130	Rf20	Renal function QTL 20	4.44		kidney glomerulus integrity trait (VT:0010546)	kidney glomerulus diameter (CMO:0001166)	11	30435339	63186373	Rat
1300110	Stl7	Serum triglyceride level QTL 7	4.64		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	11	30435339	86714631	Rat
2298551	Neuinf10	Neuroinflammation QTL 10	3.7		nervous system integrity trait (VT:0010566)	spinal cord beta-2 microglobulin mRNA level (CMO:0002125)	11	32155520	82443118	Rat
70180	BpQTLcluster10	Blood pressure QTL cluster 10	3.19		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	11	35900634	80900634	Rat
1300135	Rf19	Renal function QTL 19	3.38		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	11	43090338	86714631	Rat
634339	Niddm50	Non-insulin dependent diabetes mellitus QTL 50	3.32		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	11	44444347	69649708	Rat
2312566	Glom20	Glomerulus QTL 20	3.6	0.001	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	11	46583209	86714631	Rat
1581565	Pur10	Proteinuria QTL 10		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	47264023	86994547	Rat
1581572	Uae35	Urinary albumin excretion QTL 35		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	47264023	86994547	Rat
4889859	Pur28	Proteinuria QTL 28	19.5	0.001	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	11	47901049	78471527	Rat
724561	Plsm4	Polydactyly-luxate syndrome (PLS) morphotypes QTL 4		0.0003	forelimb integrity trait (VT:0010562)	front foot phalanges count (CMO:0001947)	11	57858810	90463843	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	56
Count of miRNA genes:	48
Interacting mature miRNAs:	50
Transcripts:	ENSRNOT00000002957
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

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

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

Expression

RNA-SEQ Expression

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

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	29	34	29		29	2	2	74	34	41	11	2
Low		14	23	12	19	12	6	8		1			6
Below cutoff								1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001105883	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006248335	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039088189	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473967	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ221474	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000222	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000002957 ⟹ ENSRNOP00000002957

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	11	57,897,879 - 57,993,548 (-)	Ensembl

RefSeq Acc Id:

NM_001105883 ⟹ NP_001099353

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	54,364,487 - 54,461,316 (+)	NCBI
Rnor_6.0	11	57,897,879 - 57,993,548 (-)	NCBI
Rnor_5.0	11	62,049,050 - 62,146,379 (-)	NCBI
RGSC_v3.4	11	55,843,801 - 55,940,634 (+)	RGD
Celera	11	53,897,883 - 53,994,695 (+)	RGD

Sequence:

show sequence

GCAAGGCGGGCATGGCGCGGACCCCGGGCCCGGCCCTGTTGTGTCCTGGAGGCGGCAAAGCACA
ACTTTCCTCGGCGTCTCCTCCCGCGGCCGGACTCCTGCTGCCGGCCCCGACGCCGCCGCCGCTG
CTGCTGCTGCTCATTCCCCTGCTTCTCTTCTCCCGGCTCTGTGGTGCCTTAGCTGGATCAATTA
TTGTGGAGCCGCATGTCACAGCAGTGTGGGGAAAGAATGTGTCCTTGAAGTGTTTAATTGAAGT
GAATGAGACTATCACACAGATCTCATGGGAGAAGATACACGGCAAGAGCACACAGACCGTTGCG
GTGCATCATCCTCAGTATGGATTCTCTGTTCAGGGAGAGTATCAGGGAAGAATCTTGTTTAAAA
ACTATTCACTTAATGATGCAACAATTACTCTGCATAACATAGGCTTCTCAGATTCTGGAAAATA
CATATGCAAAGCTGTCACATTCCCACTTGGAAATGCCCAGTCCTCTACAACTGTGACTGTGCTA
GTTGAACCCACCGTGAGCCTGATGAAAGGGCCAGACTCTTTAATTGATGGAGGAAATGAGACCG
TAGCAGCCGTTTGTATAGCGGCCACTGGAAAACCAGTTGCACGTATTGACTGGGAAGGGGATCT
CGGCGAAATGGAATCTACTATAACTTCTTTTCCCAATGAAACAGCAACGATTATCAGCCAATAC
AAGCTGTTTCCCACAAGATTTGCTAGAGGAAGGCGAATTACTTGTGTTGTAAAACATCCAGCCT
TAGAAAAGGACATTCGATACTCTTTCATACTCGACATCCAGTATGCTCCTGAAGTCTCAGTGAC
AGGATATGATGGAAATTGGTTTGTGGGAAGAAAAGGTGTTAACCTCAAGTGTAATGCTGACGCA
AATCCTCCACCCTTCAAGTCTGTGTGGAGCAGGTTGGATGGAGAATGGCCTGATGGTTTATTGG
CGTCAGACAATACTCTTCATTTTGTTCATCCACTGACTTTCAATTATTCTGGTGTTTATGTCTG
TAAAGTGACAAATTCCCTTGGTCAAAGAAGTGATCAAAAGGTCATCTACATTTCAGACATCCCG
CTTAAGCAGACCTCATCCATAGCAGTGGCTGGAGCTGTGATTGGAGCTGTCCTGGCCCTCTTCA
TCATCGCTGTCTTTGTGACTGTGTTGCTGACACCTCGGAAAAAGAGACCATCCTATCTTGACAA
AGTAATCGACCTTCCACCTACACATAAGCCACCCCCTGTATATGAAGAACGAATTCCTTCTCTC
CCTCAGAAAAACCGTCTGTTCCAGACTGAACGCTTGCCTTTGCAGACTCAGTTCAAAGAGAAAG
GAGCTGGTGGTCTTCAGCCCCCTAATGGACCAATTAGGAGACTTGACTATGAGGATGAGAACAC
AGTGCAAGAAGATGGGACTCAGCAGATGTGCCCCCTTTATAACCAGATGTGCCACCAAGACCGA
AGCCCTCACCAACATCGCCCACGCAACCCCGAGAGACTCTACATCAACCCAAGAGAACATTATG
TGTGATTTTCCTCATTATAAAGGGTGTTCTAACCAATGCCTATTAGACCTGAGAGAGAAACTGA
GGCATCTAAACGATTTTAGTCTTAAGGGTG

hide sequence

RefSeq Acc Id:

XM_006248335 ⟹ XP_006248397

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	54,364,278 - 54,413,560 (+)	NCBI
Rnor_6.0	11	57,948,112 - 57,993,586 (-)	NCBI
Rnor_5.0	11	62,049,050 - 62,146,379 (-)	NCBI

Sequence:

show sequence

CATGATGTCCTGGGGCGCGGGCGAGCGGATGGACCGGGGCAAGGCGGGCATGGCGCGGACCCCG
GGCCCGGCCCTGTTGTGTCCTGGAGGCGGCAAAGCACAACTTTCCTCGGCGTCTCCTCCCGCGG
CCGGACTCCTGCTGCCGGCCCCGACGCCGCCGCCGCTGCTGCTGCTGCTCATTCCCCTGCTTCT
CTTCTCCCGGCTCTGTGGTGCCTTAGCTGGATCAATTATTGTGGAGCCGCATGTCACAGCAGTG
TGGGGAAAGAATGTGTCCTTGAAGTGTTTAATTGAAGTGAATGAGACTATCACACAGATCTCAT
GGGAGAAGATACACGGCAAGAGCACACAGACCGTTGCGGTGCATCATCCTCAGTATGGATTCTC
TGTTCAGGGAGAGTATCAGGGAAGAATCTTGTTTAAAAACTATTCACTTAATGATGCAACAATT
ACTCTGCATAACATAGGCTTCTCAGATTCTGGAAAATACATATGCAAAGCTGTCACATTCCCAC
TTGGAAATGCCCAGTCCTCTACAACTGTGACTGTGCTAGTTGAACCCACCGTGAGCCTGATGAA
AGGGCCAGACTCTTTAATTGATGGAGGAAATGAGACCGTAGCAGCCGTTTGTATAGCGGCCACT
GGAAAACCAGTTGCACGTATTGACTGGGAAGGGGATCTCGGCGAAATGGAATCTACTATAACTT
CTTTTCCCAATGAAACAGCAACGATTATCAGCCAATACAAGCTGTTTCCCACAAGATTTGCTAG
AGGAAGGCGAATTACTTGTGTTGTAAAACATCCAGCCTTAGAAAAGGACATTCGATACTCTTTC
ATACTCGACATCCAGTATGCTCCTGAAGTCTCAGTGACAGGATATGATGGAAATTGGTTTGTGG
GAAGAAAAGGTGTTAACCTCAAGTGTAATGCTGACGCAAATCCTCCACCCTTCAAGTCTGTGTG
GAGCAGGTTGGATGGAGAATGGCCTGATGGTTTATTGGCGTCAGACAATACTCTTCATTTTGTT
CATCCACTGACTTTCAATTATTCTGGTGTTTATGTCTGTAAAGTGACAAATTCCCTTGGTCAAA
GAAGTGATCAAAAGGTCATCTACATTTCAGATCCTCCCACTACCACCACCCTTCAGCCTACAGT
TCAGTGGCGTTCCTCAACTGCTGACGTCCAGGATCTAGCAACAGAACATAAAAAGTTGCCCTTC
CCATTGTCAACTTTGGCAACACTTAAGGATGACACAATTGGCACCATCATTGCTAGCGTAGTGG
GTGGGGCTCTCTTCGTAGTGCTTGTGAGCATTTTGGCTGGAGTATTCTGCTATAGGAGACGACG
GACGTTTCGTGGAGACTACTTTGCCAAAAACTACATTCCACCATCAGACATGCAAAAAGAGTCG
CAGATCGATGTTCTTCAACACGATGAGCATGATTCTTACCCAGACAGTGTGAAAAAGGAAAACA
AAGCCCCAGTGAACAACCTAATACGTAAAGACTACTTAGAAGAGCCCGAGAAAACTCAGTGGAA
TAATGTAGAGAATCTCACTAGGTTTGAAAGACCGATGGATTATTACGAAGATCTAAAAATGGGA
ATGAAGTTCGTCAGTGATGAACGGTATAATGAAAATGAAGATGATTTAGTTTCCCATGTAGATG
GTTCCGTAATTTCCAGGAGGGAGTGGTATGTTTAACAGCCACTGATGTGACTTCACTATGTACA
GTGTTTCATTCATACTAGTTGATCATTTTCAGATTGTTCATACTTTTTCTTGAGGAAGAATAAG
CTTTTTCAAGTTGATTTCGAGCTTACTTTTTATATTCTGATCTGACAAATGAAAATGTAAAACC
TGGGTTCAATGTATCTGAGCTGCTTTACAGTTTTTCACTGCTATACTACTGTCTCCAGATTTAA
ATTCTAATGCAGAGTACTTTTATTGGTCTGAGGCACACAGGTAAGAAAGATGTCAACGTTAAAT
GTATGACGTTTTTGGTATAAAAATTAAAAACAGAAAAAAATGAAACTACCTTGGCATTGCGTAT
TAAATATTTACCTAAGACTATAATCTCAAGTATAATGATTGTGTAACATATACCTCTCAAAACT
TATCACCACTAAGTATACTCCATCAAAATTGACAGTAAAACTCATTCAAGAAATGCTTCTATAT
TTTTAGTATACTGAAATCATTCATCCTGATGGAGTATCTTTTCCTCTGCAAACATTATTTTCTA
AGTCTTGTGTAGTTAGGATCTTCACCTCTGCATTTAAGTGAGCCTTGCCGTAATTACTGTAGAG
TGGCTTCTCAGTGAGATTCTGTTGCACTAAAACTGTGGCCATAAACTCAGTGAGTGTGATGTGT
GCAAGAGCAGAAGTGGCTCTTCACTATTTTTGTCCAAAATACATGCAAGAGTAATAAAATATAT
GCCTCCTGACACAATAATTAATAATTTTTTCATCTCTGGAAGAAAATTCTTTAGTTGTTTGTGA
ACATGGTTTTGGTACAGGAAGCATTAACCTTATTTTAATGCTTTATTTGCTAAGCGTGTGAACA
ATGATGAAAACGCGGTACAGGACAGAGAGGGTACTTGAGTCTGTTTGTGTGCCAGGGTTAGACG
TGAGTCGTTCCATCCAAGAACCTATACAAAGGGTTTTCTAGATCTTCTTGTTTTAGTTATTTAA
TGTTGGTATTGTTCAAACGGGTACATGTACAAAAACAATATTAAACTAAACTTTGAAGCTTGAG
GTTTCGTTAAGAGAAAGGTGAAGTACATAACTAGTCATTGATAACACTTGCTGATGGATACTGG
TGCTCCCTCCCTTTTTCCTTCATTTTCTCCTAATTGGATGTATATGTTTCAAATTTTTCCCTTT
GTTTGTTTGTTTGGATTTTTTTTTTCAAATTAAAACTGGAAACATGAGATTTTTGGGGGTTTAT
TTTGTTCATTTGTTTCATATAGCTCATTAACTACATTCTTTCCAGTATCATGTAACTTCTGAGA
TGTTATATAAATCTTCAAATGTTAATATTCTTTGTATGGTAAATTACTTCTGCAGTAGAGTTCT
TAAAATTGTGATAATGGAAACTGCTTTAAGGCCCGAAGAATGTTTTTCTATGGATTGATTGTGG
GAAAGGATTGTG

hide sequence

RefSeq Acc Id:

XM_006248338 ⟹ XP_006248400

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	11	57,937,549 - 57,993,586 (-)	NCBI
Rnor_5.0	11	62,049,050 - 62,146,379 (-)	NCBI

Sequence:

show sequence

CATGATGTCCTGGGGCGCGGGCGAGCGGATGGACCGGGGCAAGGCGGGCATGGCGCGGACCCCG
GGCCCGGCCCTGTTGTGTCCTGGAGGCGGCAAAGCACAACTTTCCTCGGCGTCTCCTCCCGCGG
CCGGACTCCTGCTGCCGGCCCCGACGCCGCCGCCGCTGCTGCTGCTGCTCATTCCCCTGCTTCT
CTTCTCCCGGCTCTGTGGTGCCTTAGCTGGATCAATTATTGTGGAGCCGCATGTCACAGCAGTG
TGGGGAAAGAATGTGTCCTTGAAGTGTTTAATTGAAGTGAATGAGACTATCACACAGATCTCAT
GGGAGAAGATACACGGCAAGAGCACACAGACCGTTGCGGTGCATCATCCTCAGTATGGATTCTC
TGTTCAGGGAGAGTATCAGGGAAGAATCTTGTTTAAAAACTATTCACTTAATGATGCAACAATT
ACTCTGCATAACATAGGCTTCTCAGATTCTGGAAAATACATATGCAAAGCTGTCACATTCCCAC
TTGGAAATGCCCAGTCCTCTACAACTGTGACTGTGCTAGTTGAACCCACCGTGAGCCTGATGAA
AGGGCCAGACTCTTTAATTGATGGAGGAAATGAGACCGTAGCAGCCGTTTGTATAGCGGCCACT
GGAAAACCAGTTGCACGTATTGACTGGGAAGGGGATCTCGGCGAAATGGAATCTACTATAACTT
CTTTTCCCAATGAAACAGCAACGATTATCAGCCAATACAAGCTGTTTCCCACAAGATTTGCTAG
AGGAAGGCGAATTACTTGTGTTGTAAAACATCCAGCCTTAGAAAAGGACATTCGATACTCTTTC
ATACTCGACATCCAGTATGCTCCTGAAGTCTCAGTGACAGGATATGATGGAAATTGGTTTGTGG
GAAGAAAAGGTGTTAACCTCAAGTGTAATGCTGACGCAAATCCTCCACCCTTCAAGTCTGTGTG
GAGCAGGTTGGATGGAGAATGGCCTGATGGTTTATTGGCGTCAGACAATACTCTTCATTTTGTT
CATCCACTGACTTTCAATTATTCTGGTGTTTATGTCTGTAAAGTGACAAATTCCCTTGGTCAAA
GAAGTGATCAAAAGGTCATCTACATTTCAGACATCCCGCTTAAGCAGACCTCATCCATAGCAGT
GGCTGGAGCTGTGATTGGAGCTGTCCTGGCCCTCTTCATCATCGCTGTCTTTGTGACTGTGTTG
CTGACACCTCGGAAAAAGAGACCATCCTATCTTGACAAAGTGTATGTGTTCCTGAAGACACTTA
AATCACCTGAACTAGCTTCTAAACGTCTGCCCAGCTGTGGCGGCGCACATCTACCTGAGAGGCT
GGAGCAGGACCAGAAGCTTAAAGTCGGCCTTGGCTACACAGTGAGTTCGAGGCCTGCCTGGGCT
ACTGGAAACCCCACTGCAAAATTTGAAGTGAATAAATTTTTTAAAAATCCTATGCCATTTGTAT
TAATTTTTCAAAGCTTTGTCATCATTTGCAACAACCTAAGATTCTTAACATGTTCAAGTGTTCC
TCTGAAATAAGGGATCCATCAGCCT

hide sequence

RefSeq Acc Id:

XM_039088189 ⟹ XP_038944117

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	54,362,712 - 54,413,560 (+)	NCBI

RefSeq Acc Id:

XR_001840409

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	11	57,937,650 - 57,995,193 (-)	NCBI

Sequence:

show sequence

AGGATAGGTGGGAAGGCGATAGAAAGCAGTGACTGCAGGAAGACTGGGGCAGGCAGATGGAGGG
AGAAAGAAGGAAGGGAGTGGAGGTAAGGAATAGAAGTAGCCCCAGTGCTGGGAGCAAGATAAAG
AGAGCCTGGATAGAATGCTACGGAGGTGCCTTAGCTGGATCAATTATTGTGGAGCCGCATGTCA
CAGCAGTGTGGGGAAAGAATGTGTCCTTGAAGTGTTTAATTGAAGTGAATGAGACTATCACACA
GATCTCATGGGAGAAGATACACGGCAAGAGCACACAGACCGTTGCGGTGCATCATCCTCAGTAT
GGATTCTCTGTTCAGGGAGAGTATCAGGGAAGAATCTTGTTTAAAAACTATTCACTTAATGATG
CAACAATTACTCTGCATAACATAGGCTTCTCAGATTCTGGAAAATACATATGCAAAGCTGTCAC
ATTCCCACTTGGAAATGCCCAGTCCTCTACAACTGTGACTGTGCTAGTTGAACCCACCGTGAGC
CTGATGAAAGGGCCAGACTCTTTAATTGATGGAGGAAATGAGACCGTAGCAGCCGTTTGTATAG
CGGCCACTGGAAAACCAGTTGCACGTATTGACTGGGAAGGGGATCTCGGCGAAATGGAATCTAC
TATAACTTCTTTTCCCAATGAAACAGCAACGATTATCAGCCAATACAAGCTGTTTCCCACAAGA
TTTGCTAGAGGAAGGCGAATTACTTGTGTTGTAAAACATCCAGCCTTAGAAAAGGACATTCGAT
ACTCTTTCATACTCGACATCCAGTATGCTCCTGAAGTCTCAGTGACAGGATATGATGGAAATTG
GTTTGTGGGAAGAAAAGGTGTTAACCTCAAGTGTAATGCTGACGCAAATCCTCCACCCTTCAAG
TCTGTGTGGAGCAGGTTGGATGGAGAATGGCCTGATGGTTTATTGGCGTCAGACAATACTCTTC
ATTTTGTTCATCCACTGACTTTCAATTATTCTGGTGTTTATGTCTGTAAAGTGACAAATTCCCT
TGGTCAAAGAAGTGATCAAAAGGTCATCTACATTTCAGATCCTCCCACTACCACCACCCTTCAG
CCTACAGTTCAGTGGCGTTCCTCAACTGCTGACGTCCAGGATCTAGCAACAGAACATAAAAAGT
TGCCCTTCCCATTGTCAACTTTGGCAACACTTAAGGATGACACAATTGGCACCATCATTGCTAG
CGTAGTGGGTGGGGCTCTCTTCGTAGTGCTTGTGAGCATTTTGGCTGGAGTATTCTGCTATAGG
AGACGACGGACGTTTCGTGGAGACTACTTTGCCAAAAACTACATTCCACCATCAGACATGCAAA
AAGAGTCGCAGATCGATGTTCTTCAACACGATGAGCATGATTCTTACCCAGACAGTGTGAAAAA
GGAAAACAAAGCCCCAGTGAACAACCTAATACGTAAAGACTACTTAGAAGAGCCCGAGAAAACT
CAGTGGAATAATGTAGAGAATCTCACTAGGTTTGAAAGACCGATGGATTATTACGAAGATCTAA
AAATGGGAATGAAGTTCGTCAGTGATGAACGGTATAATGAAAATGAAGATGATTTAGTTTCCCA
TGTAGATGGTTCCGTAATTTCCAGGAGGGAGTGGTATGTTTAACAGCCACTGATGTGACTTCAC
TATGTACAGTGTTTCATTCATACTAGTTGATCATTTTCAGATTGTTCATACTTTTTCTTGAGGA
AGAATAAGCTTTTTCAAGTTGATTTCGAGCTTACTTTTTATATTCTGATCTGACAAATGAAAAT
GTAAAACCTGGGTTCAATGTATCTGAGCTGCTTTACAGTTTTTCACTGCTATACTACTGTCTCC
AGATTTAAATTCTAATGCAGAGTACTTTTATTGGTCTGAGGCACACAGACATCCCGCTTAAGCA
GACCTCATCCATAGCAGTGGCTGGAGCTGTGATTGGAGCTGTCCTGGCCCTCTTCATCATCGCT
GTCTTTGTGACTGTGTTGCTGACACCTCGGAAAAAGAGACCATCCTATCTTGACAAAGTAATCG
ACCTTCCACCTACACATAAGCCACCCCCTGTATATGAAGAACGAATTCCTTCTCTCCCTCAGAA
AAACCGTCTGTTCCAGGTATGTGTTCCTGAAGACACTTAAATCACCTGAACTAGCTTCTAAACG
TCTGCCCAGCTGTGGCGGCGCACATCTACCTGAGAGGCTGGAGCAGGACCAGAAGCTTAAAGTC
GGCCTTGGCTACACAGTGAGTTCGAGGCCTGCCTGGGCTACTGGAAACCCCACTGCAAAATTTG
AAGTGAATAAATTTTTTAAAAATCCTA

hide sequence

RefSeq Acc Id:

XR_001840410

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	11	57,937,650 - 57,973,371 (-)	NCBI

Sequence:

show sequence

CCTTGCCCCCCTCTTACTCTCAGGCACACGGTGCAGTCTAGTTACTCTTTTATCCCTTTCCATC
CTGTCAAACCCAGGGTAGTCTCTTTCCAAGCTTCATGTCTTTTTGTTTTGTTAACCACTGAGTT
TAACTAGGGCCACGTGTGTGATCATGGGCTGCTCATGCTTGGCTCTTCCCTGGCCAAGTGTGGG
GAGGCCCAGACGAGATAGTCCATGTTGCTGTTGAGTTCATGACGACAGTGGCTGTGCCATGCCG
TCGAGATGATGTTTTTCAGCCCTTTTCACTCCCTTTGACTCTTGCATTTTTTGCAGCTCTCTTC
AGCAGTGCTGCTTAAACATTCAAGAGAAGAATACATGTTTCCTGGTTAGGGCCGAGTACTCACT
CAGCTGCCGCTTCCTCTCAGCCCTTCAGGGGCCCATGAGCTGAGCATCACTGTTGTTCACTGGA
GAGAGGCTGTCTGATTAACTGCCCATAGCAATTGATATGTGTCTAAACATAAGACAGTTTAATG
CTATGCCAGCATAGCTAATACAATAGCAGAAAGCGCCCCCACCCACCACGGAATGTGATATTCC
AGACATGAGTCTTTGAGCAGCTTATCGTGCTGTCTGTTGATTTCCATGAGGAGCAGATGTTGAC
TGGACTCAGTTATAGGATCTTCCCAGCCATGCCTCTGATGCATAAGTAGGCTCATCTAATCTGG
ATAGGCAGGATTACATTCTTAGGATTCATAAGCACATATGACCATTGGTGCCTCTTCTCTACCA
TCAGCCTGTATAACATCTTGCAACATTATGAAAGCCGGCCAGGAAGGAAGAAGTACTGAATGCT
GATCTTTAGTTTCTCTGTATCTTACATCCAAGGTGCCTTAGCTGGATCAATTATTGTGGAGCCG
CATGTCACAGCAGTGTGGGGAAAGAATGTGTCCTTGAAGTGTTTAATTGAAGTGAATGAGACTA
TCACACAGATCTCATGGGAGAAGATACACGGCAAGAGCACACAGACCGTTGCGGTGCATCATCC
TCAGTATGGATTCTCTGTTCAGGGAGAGTATCAGGGAAGAATCTTGTTTAAAAACTATTCACTT
AATGATGCAACAATTACTCTGCATAACATAGGCTTCTCAGATTCTGGAAAATACATATGCAAAG
CTGTCACATTCCCACTTGGAAATGCCCAGTCCTCTACAACTGTGACTGTGCTAGTTGAACCCAC
CGTGAGCCTGATGAAAGGGCCAGACTCTTTAATTGATGGAGGAAATGAGACCGTAGCAGCCGTT
TGTATAGCGGCCACTGGAAAACCAGTTGCACGTATTGACTGGGAAGGGGATCTCGGCGAAATGG
AATCTACTATAACTTCTTTTCCCAATGAAACAGCAACGATTATCAGCCAATACAAGCTGTTTCC
CACAAGATTTGCTAGAGGAAGGCGAATTACTTGTGTTGTAAAACATCCAGCCTTAGAAAAGGAC
ATTCGATACTCTTTCATACTCGACATCCAGTATGCTCCTGAAGTCTCAGTGACAGGATATGATG
GAAATTGGTTTGTGGGAAGAAAAGGTGTTAACCTCAAGTGTAATGCTGACGCAAATCCTCCACC
CTTCAAGTCTGTGTGGAGCAGGTTGGATGGAGAATGGCCTGATGGTTTATTGGCGTCAGACAAT
ACTCTTCATTTTGTTCATCCACTGACTTTCAATTATTCTGGTGTTTATGTCTGTAAAGTGACAA
ATTCCCTTGGTCAAAGAAGTGATCAAAAGGTCATCTACATTTCAGATCCTCCCACTACCACCAC
CCTTCAGCCTACAGTTCAGTGGCGTTCCTCAACTGCTGACGTCCAGGATCTAGCAACAGAACAT
AAAAAGTTGCCCTTCCCATTGTCAACTTTGGCAACACTTAAGGATGACACAATTGGCACCATCA
TTGCTAGCGTAGTGGGTGGGGCTCTCTTCGTAGTGCTTGTGAGCATTTTGGCTGGAGTATTCTG
CTATAGGAGACGACGGACGTTTCGTGGAGACTACTTTGCCAAAAACTACATTCCACCATCAGAC
ATGCAAAAAGAGTCGCAGATCGATGTTCTTCAACACGATGAGCATGATTCTTACCCAGACAGTG
TGAAAAAGGAAAACAAAGCCCCAGTGAACAACCTAATACGTAAAGACTACTTAGAAGAGCCCGA
GAAAACTCAGTGGAATAATGTAGAGAATCTCACTAGGTTTGAAAGACCGATGGATTATTACGAA
GATCTAAAAATGGGAATGAAGTTCGTCAGTGATGAACGGTATAATGAAAATGAAGATGATTTAG
TTTCCCATGTAGATGGTTCCGTAATTTCCAGGAGGGAGTGGTATGTTTAACAGCCACTGATGTG
ACTTCACTATGTACAGTGTTTCATTCATACTAGTTGATCATTTTCAGATTGTTCATACTTTTTC
TTGAGGAAGAATAAGCTTTTTCAAGTTGATTTCGAGCTTACTTTTTATATTCTGATCTGACAAA
TGAAAATGTAAAACCTGGGTTCAATGTATCTGAGCTGCTTTACAGTTTTTCACTGCTATACTAC
TGTCTCCAGATTTAAATTCTAATGCAGAGTACTTTTATTGGTCTGAGGCACACAGACATCCCGC
TTAAGCAGACCTCATCCATAGCAGTGGCTGGAGCTGTGATTGGAGCTGTCCTGGCCCTCTTCAT
CATCGCTGTCTTTGTGACTGTGTTGCTGACACCTCGGAAAAAGAGACCATCCTATCTTGACAAA
GTAATCGACCTTCCACCTACACATAAGCCACCCCCTGTATATGAAGAACGAATTCCTTCTCTCC
CTCAGAAAAACCGTCTGTTCCAGGTATGTGTTCCTGAAGACACTTAAATCACCTGAACTAGCTT
CTAAACGTCTGCCCAGCTGTGGCGGCGCACATCTACCTGAGAGGCTGGAGCAGGACCAGAAGCT
TAAAGTCGGCCTTGGCTACACAGTGAGTTCGAGGCCTGCCTGGGCTACTGGAAACCCCACTGCA
AAATTTGAAGTGAATAAATTTTTTAAAAATCCTA

hide sequence

RefSeq Acc Id:

XR_358269

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	11	57,937,650 - 57,993,586 (-)	NCBI
Rnor_5.0	11	62,049,050 - 62,146,379 (-)	NCBI

Sequence:

show sequence

CATGATGTCCTGGGGCGCGGGCGAGCGGATGGACCGGGGCAAGGCGGGCATGGCGCGGACCCCG
GGCCCGGCCCTGTTGTGTCCTGGAGGCGGCAAAGCACAACTTTCCTCGGCGTCTCCTCCCGCGG
CCGGACTCCTGCTGCCGGCCCCGACGCCGCCGCCGCTGCTGCTGCTGCTCATTCCCCTGCTTCT
CTTCTCCCGGCTCTGTGGTGCCTTAGCTGGATCAATTATTGTGGAGCCGCATGTCACAGCAGTG
TGGGGAAAGAATGTGTCCTTGAAGTGTTTAATTGAAGTGAATGAGACTATCACACAGATCTCAT
GGGAGAAGATACACGGCAAGAGCACACAGACCGTTGCGGTGCATCATCCTCAGTATGGATTCTC
TGTTCAGGGAGAGTATCAGGGAAGAATCTTGTTTAAAAACTATTCACTTAATGATGCAACAATT
ACTCTGCATAACATAGGCTTCTCAGATTCTGGAAAATACATATGCAAAGCTGTCACATTCCCAC
TTGGAAATGCCCAGTCCTCTACAACTGTGACTGTGCTAGTTGAACCCACCGTGAGCCTGATGAA
AGGGCCAGACTCTTTAATTGATGGAGGAAATGAGACCGTAGCAGCCGTTTGTATAGCGGCCACT
GGAAAACCAGTTGCACGTATTGACTGGGAAGGGGATCTCGGCGAAATGGAATCTACTATAACTT
CTTTTCCCAATGAAACAGCAACGATTATCAGCCAATACAAGCTGTTTCCCACAAGATTTGCTAG
AGGAAGGCGAATTACTTGTGTTGTAAAACATCCAGCCTTAGAAAAGGACATTCGATACTCTTTC
ATACTCGACATCCAGTATGCTCCTGAAGTCTCAGTGACAGGATATGATGGAAATTGGTTTGTGG
GAAGAAAAGGTGTTAACCTCAAGTGTAATGCTGACGCAAATCCTCCACCCTTCAAGTCTGTGTG
GAGCAGGTTGGATGGAGAATGGCCTGATGGTTTATTGGCGTCAGACAATACTCTTCATTTTGTT
CATCCACTGACTTTCAATTATTCTGGTGTTTATGTCTGTAAAGTGACAAATTCCCTTGGTCAAA
GAAGTGATCAAAAGGTCATCTACATTTCAGATCCTCCCACTACCACCACCCTTCAGCCTACAGT
TCAGTGGCGTTCCTCAACTGCTGACGTCCAGGATCTAGCAACAGAACATAAAAAGTTGCCCTTC
CCATTGTCAACTTTGGCAACACTTAAGGATGACACAATTGGCACCATCATTGCTAGCGTAGTGG
GTGGGGCTCTCTTCGTAGTGCTTGTGAGCATTTTGGCTGGAGTATTCTGCTATAGGAGACGACG
GACGTTTCGTGGAGACTACTTTGCCAAAAACTACATTCCACCATCAGACATGCAAAAAGAGTCG
CAGATCGATGTTCTTCAACACGATGAGCATGATTCTTACCCAGACAGTGTGAAAAAGGAAAACA
AAGCCCCAGTGAACAACCTAATACGTAAAGACTACTTAGAAGAGCCCGAGAAAACTCAGTGGAA
TAATGTAGAGAATCTCACTAGGTTTGAAAGACCGATGGATTATTACGAAGATCTAAAAATGGGA
ATGAAGTTCGTCAGTGATGAACGGTATAATGAAAATGAAGATGATTTAGTTTCCCATGTAGATG
GTTCCGTAATTTCCAGGAGGGAGTGGTATGTTTAACAGCCACTGATGTGACTTCACTATGTACA
GTGTTTCATTCATACTAGTTGATCATTTTCAGATTGTTCATACTTTTTCTTGAGGAAGAATAAG
CTTTTTCAAGTTGATTTCGAGCTTACTTTTTATATTCTGATCTGACAAATGAAAATGTAAAACC
TGGGTTCAATGTATCTGAGCTGCTTTACAGTTTTTCACTGCTATACTACTGTCTCCAGATTTAA
ATTCTAATGCAGAGTACTTTTATTGGTCTGAGGCACACAGACATCCCGCTTAAGCAGACCTCAT
CCATAGCAGTGGCTGGAGCTGTGATTGGAGCTGTCCTGGCCCTCTTCATCATCGCTGTCTTTGT
GACTGTGTTGCTGACACCTCGGAAAAAGAGACCATCCTATCTTGACAAAGTAATCGACCTTCCA
CCTACACATAAGCCACCCCCTGTATATGAAGAACGAATTCCTTCTCTCCCTCAGAAAAACCGTC
TGTTCCAGGTATGTGTTCCTGAAGACACTTAAATCACCTGAACTAGCTTCTAAACGTCTGCCCA
GCTGTGGCGGCGCACATCTACCTGAGAGGCTGGAGCAGGACCAGAAGCTTAAAGTCGGCCTTGG
CTACACAGTGAGTTCGAGGCCTGCCTGGGCTACTGGAAACCCCACTGCAAAATTTGAAGTGAAT
AAATTTTTTAAAAATCCTA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001099353	(Get FASTA)	NCBI Sequence Viewer
	XP_006248397	(Get FASTA)	NCBI Sequence Viewer
	XP_038944117	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM11119	(Get FASTA)	NCBI Sequence Viewer
	EDM11121	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001099353 ⟸ NM_001105883

- UniProtKB:

D4A5C0 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MARTPGPALLCPGGGKAQLSSASPPAAGLLLPAPTPPPLLLLLIPLLLFSRLCGALAGSIIVEP
HVTAVWGKNVSLKCLIEVNETITQISWEKIHGKSTQTVAVHHPQYGFSVQGEYQGRILFKNYSL
NDATITLHNIGFSDSGKYICKAVTFPLGNAQSSTTVTVLVEPTVSLMKGPDSLIDGGNETVAAV
CIAATGKPVARIDWEGDLGEMESTITSFPNETATIISQYKLFPTRFARGRRITCVVKHPALEKD
IRYSFILDIQYAPEVSVTGYDGNWFVGRKGVNLKCNADANPPPFKSVWSRLDGEWPDGLLASDN
TLHFVHPLTFNYSGVYVCKVTNSLGQRSDQKVIYISDIPLKQTSSIAVAGAVIGAVLALFIIAV
FVTVLLTPRKKRPSYLDKVIDLPPTHKPPPVYEERIPSLPQKNRLFQTERLPLQTQFKEKGAGG
LQPPNGPIRRLDYEDENTVQEDGTQQMCPLYNQMCHQDRSPHQHRPRNPERLYINPREHYV

hide sequence

RefSeq Acc Id:

XP_006248400 ⟸ XM_006248338

- Peptide Label:

isoform X2

- Sequence:

show sequence

MMSWGAGERMDRGKAGMARTPGPALLCPGGGKAQLSSASPPAAGLLLPAPTPPPLLLLLIPLLL
FSRLCGALAGSIIVEPHVTAVWGKNVSLKCLIEVNETITQISWEKIHGKSTQTVAVHHPQYGFS
VQGEYQGRILFKNYSLNDATITLHNIGFSDSGKYICKAVTFPLGNAQSSTTVTVLVEPTVSLMK
GPDSLIDGGNETVAAVCIAATGKPVARIDWEGDLGEMESTITSFPNETATIISQYKLFPTRFAR
GRRITCVVKHPALEKDIRYSFILDIQYAPEVSVTGYDGNWFVGRKGVNLKCNADANPPPFKSVW
SRLDGEWPDGLLASDNTLHFVHPLTFNYSGVYVCKVTNSLGQRSDQKVIYISDIPLKQTSSIAV
AGAVIGAVLALFIIAVFVTVLLTPRKKRPSYLDKVYVFLKTLKSPELASKRLPSCGGAHLPERL
EQDQKLKVGLGYTVSSRPAWATGNPTAKFEVNKFFKNPMPFVLIFQSFVIICNNLRFLTCSSVP
LK

hide sequence

RefSeq Acc Id:

XP_006248397 ⟸ XM_006248335

- Peptide Label:

isoform X2

- Sequence:

show sequence

MMSWGAGERMDRGKAGMARTPGPALLCPGGGKAQLSSASPPAAGLLLPAPTPPPLLLLLIPLLL
FSRLCGALAGSIIVEPHVTAVWGKNVSLKCLIEVNETITQISWEKIHGKSTQTVAVHHPQYGFS
VQGEYQGRILFKNYSLNDATITLHNIGFSDSGKYICKAVTFPLGNAQSSTTVTVLVEPTVSLMK
GPDSLIDGGNETVAAVCIAATGKPVARIDWEGDLGEMESTITSFPNETATIISQYKLFPTRFAR
GRRITCVVKHPALEKDIRYSFILDIQYAPEVSVTGYDGNWFVGRKGVNLKCNADANPPPFKSVW
SRLDGEWPDGLLASDNTLHFVHPLTFNYSGVYVCKVTNSLGQRSDQKVIYISDPPTTTTLQPTV
QWRSSTADVQDLATEHKKLPFPLSTLATLKDDTIGTIIASVVGGALFVVLVSILAGVFCYRRRR
TFRGDYFAKNYIPPSDMQKESQIDVLQHDEHDSYPDSVKKENKAPVNNLIRKDYLEEPEKTQWN
NVENLTRFERPMDYYEDLKMGMKFVSDERYNENEDDLVSHVDGSVISRREWYV

hide sequence

RefSeq Acc Id:

ENSRNOP00000002957 ⟸ ENSRNOT00000002957

RefSeq Acc Id:	XP_038944117 ⟸ XM_039088189
- Peptide Label:	isoform X1

Protein Domains

Ig-like

Transcriptome

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

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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

ACI/EurMcwi (RGD)

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

ACI/N (MCW)

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

BBDP/Wor (RGD)

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

BN/SsN (MCW)

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

Buf/N (MCW)

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

COP/CrCrl (MCW & UW)

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

F344/NCrl (RGD)

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

F344/NRrrc (MCW)

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

FHH/EurMcwi (MCW)

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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)

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

FHL/EurMcwi (MCW)

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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)

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

GH/OmrMcwi (MCW)

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

GK/Ox (RGD)

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

LE/Stm (RGD)

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

LEW/Crl (RGD)

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

LEW/NCrlBR (RGD)

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

LH/MavRrrc (RGD)

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

LL/MavRrrc (RGD)

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

LN/MavRrrc (RGD)

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

M520/N (MCW)

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

MHS/Gib (RGD)

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

MNS/Gib (RGD)

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

MR/N (MCW)

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

SBH/Ygl (MCW)

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

SBH/Ygl (RGD)

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

SBN/Ygl (MCW)

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

SBN/Ygl (RGD)

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

SHR/NHsd (RGD)

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

SHRSP/Gcrc (RGD)

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

SR/JrHsd (MCW)

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

SR/JrHsd (RGD)

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

SS/Jr (RGD)

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

SS/JrHsdMcwi (MCW)

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

SS/JrHsdMcwi (RGD)

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

WAG/Rij (RGD)

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

WKY/Gcrc (RGD)

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

WKY/N (MCW)

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

WKY/NCrl (RGD)

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

WKY/NHsd (RGD)

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

WN/N (MCW)

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

Damaging Variants

Assembly: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
11	62049296	62049297	C	T	snv	SBH/Ygl (KNAW), SBH/Ygl (MCW)
11	62090603	62090604	G	A	snv	M520/N (KNAW), SS/Jr (KNAW)

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
11	57898125	57898126	C	T	snv	SBH/Ygl (MCW), SBH/Ygl (RGD)
11	57939432	57939433	G	A	snv	SS/Jr (RGD)

Assembly: RGSC_v3.4

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
11	55897920	55897921	C	T	snv	SS/JrHsdMcwi (MDC), SS/Jr (ICL), SS/JrHsdMcwi (MCW)
11	55940388	55940389	G	A	snv	SBH/Ygl (ICL)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1309516	AgrOrtholog
Ensembl Genes	ENSRNOG00000002176	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000002957	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000002957	ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH	2.60.40.10	UniProtKB/TrEMBL
InterPro	CD80_C2-set	UniProtKB/TrEMBL
	Ig-like	UniProtKB/TrEMBL
	Ig-like_dom_sf	UniProtKB/TrEMBL
	Ig-like_fold	UniProtKB/TrEMBL
	Ig_sub	UniProtKB/TrEMBL
	Ig_V-set	UniProtKB/TrEMBL
	Nectin-3	UniProtKB/TrEMBL
KEGG Report	rno:288124	UniProtKB/TrEMBL
NCBI Gene	288124	ENTREZGENE
PANTHER	PTHR23277:SF12	UniProtKB/TrEMBL
Pfam	C2-set_2	UniProtKB/TrEMBL
	V-set	UniProtKB/TrEMBL
PhenoGen	Nectin3	PhenoGen
PROSITE	IG_LIKE	UniProtKB/TrEMBL
SMART	SM00409	UniProtKB/TrEMBL
Superfamily-SCOP	SSF48726	UniProtKB/TrEMBL
UniProt	D4A5C0	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-17	Nectin3	nectin cell adhesion molecule 3	Pvrl3	poliovirus receptor-related 3	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Pvrl3	poliovirus receptor-related 3	Pvrl3_predicted	poliovirus receptor-related 3 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Pvrl3_predicted	poliovirus receptor-related 3 (predicted)			Symbol and Name status set to approved	70820	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