Lypd6 (LY6/PLAUR domain containing 6)

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Gene: Lypd6 (LY6/PLAUR domain containing 6) Rattus norvegicus

Analyze

Symbol:

Lypd6

Name:

LY6/PLAUR domain containing 6

RGD ID:

1587119

Description:

Enables acetylcholine receptor inhibitor activity. Predicted to be involved in positive regulation of canonical Wnt signaling pathway. Located in membrane and neuron projection. Orthologous to human LYPD6 (LY6/PLAUR domain containing 6); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acrylamide.

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

hypothetical protein LOC679564; LOC679564; LY6/PLAUR domain containing 6B-like; ly6/PLAUR domain-containing protein 6; uncharacterized protein LOC679564

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	LYPD6 (LY6/PLAUR domain containing 6)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Lypd6 (LY6/PLAUR domain containing 6)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Lypd6 (LY6/PLAUR domain containing 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LYPD6 (LY6/PLAUR domain containing 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LYPD6 (LY6/PLAUR domain containing 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Lypd6 (LY6/PLAUR domain containing 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LYPD6 (LY6/PLAUR domain containing 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LYPD6 (LY6/PLAUR domain containing 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Lypd6 (LY6/PLAUR domain containing 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	LYPD6 (LY6/PLAUR domain containing 6)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Mus musculus (house mouse):	Lypd6 (LY6/PLAUR domain containing 6)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Danio rerio (zebrafish):	lypd6 (LY6/PLAUR domain containing 6)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)

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	3	34,487,222 - 34,632,887 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	3	34,496,485 - 34,630,308 (+)	Ensembl
Rnor_6.0	3	35,566,956 - 35,707,416 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	35,679,750 - 35,707,410 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	40,681,330 - 40,821,870 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	31,121,163 - 31,145,542 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	3	32,671,498 - 32,812,614 (+)	NCBI		Celera
Cytogenetic Map	3	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,2-dichloroethane (ISO)

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

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

acrylamide (EXP)

all-trans-retinoic acid (ISO)

aristolochic acid (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

butanal (ISO)

carbon nanotube (ISO)

chromium(6+) (ISO)

cobalt dichloride (ISO)

coumestrol (ISO)

dibutyl phthalate (ISO)

dorsomorphin (ISO)

ethanol (ISO)

fulvestrant (ISO)

methapyrilene (ISO)

nickel atom (ISO)

nickel sulfate (ISO)

phenylmercury acetate (ISO)

potassium chromate (ISO)

resveratrol (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

silver atom (ISO)

silver(0) (ISO)

sodium arsenite (ISO)

sulforaphane (ISO)

sunitinib (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

negative regulation of signaling receptor activity (IEA)

positive regulation of canonical Wnt signaling pathway (IBA)

Cellular Component

anchored component of membrane (IEA)

cytoplasm (IEA)

extracellular region (IEA)

membrane (IDA)

membrane raft (IEA)

neuron projection (IDA)

plasma membrane (IEA)

synapse (IEA)

Molecular Function

acetylcholine receptor inhibitor activity (IBA,IDA,ISO)

acetylcholine receptor regulator activity (IBA,ISO)

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Functional interaction between Lypd6 and nicotinic acetylcholine receptors.	Arvaniti M, etal., J Neurochem. 2016 Sep;138(6):806-20. doi: 10.1111/jnc.13718. Epub 2016 Aug 15.
2.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:19403274

Genomics

Comparative Map Data

Lypd6
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	34,487,222 - 34,632,887 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	3	34,496,485 - 34,630,308 (+)	Ensembl
Rnor_6.0	3	35,566,956 - 35,707,416 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	35,679,750 - 35,707,410 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	40,681,330 - 40,821,870 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	31,121,163 - 31,145,542 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	3	32,671,498 - 32,812,614 (+)	NCBI		Celera
Cytogenetic Map	3	q12	NCBI

LYPD6
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	149,329,985 - 149,486,378 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	2	149,329,985 - 149,474,138 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	150,186,499 - 150,330,652 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	149,895,359 - 150,038,384 (+)	NCBI	NCBI36		hg18	NCBI36
Celera	2	143,801,045 - 143,944,084 (+)	NCBI
Cytogenetic Map	2	q23.2	NCBI
HuRef	2	142,085,359 - 142,229,514 (+)	NCBI		HuRef
CHM1_1	2	150,192,385 - 150,336,592 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	149,780,390 - 149,924,560 (+)	NCBI

Lypd6
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	49,956,413 - 50,083,581 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	2	49,956,441 - 50,083,581 (+)	Ensembl
GRCm38	2	50,066,400 - 50,193,569 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	50,066,429 - 50,193,569 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	49,921,982 - 50,049,084 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	2	49,950,379 - 50,015,573 (+)	NCBI			mm8
Celera	2	51,740,447 - 51,866,771 (+)	NCBI		Celera
Cytogenetic Map	2	C1.1	NCBI

Lypd6
(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_004955440	15,197,259 - 15,249,407 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955440	15,178,436 - 15,248,791 (+)	NCBI	ChiLan1.0	ChiLan1.0

LYPD6
(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	2B	153,685,720 - 153,828,297 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2B	153,792,413 - 153,828,297 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	2B	10,392,962 - 10,536,125 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

LYPD6
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	19	51,007,147 - 51,069,110 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	19	51,041,219 - 51,067,333 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	19	51,068,320 - 51,190,776 (+)	NCBI
ROS_Cfam_1.0	19	52,419,770 - 52,542,903 (+)	NCBI
ROS_Cfam_1.0 Ensembl	19	52,420,605 - 52,542,903 (+)	Ensembl
UMICH_Zoey_3.1	19	51,063,246 - 51,185,137 (+)	NCBI
UNSW_CanFamBas_1.0	19	51,197,422 - 51,319,762 (+)	NCBI
UU_Cfam_GSD_1.0	19	52,597,847 - 52,720,705 (+)	NCBI

Lypd6
(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_024405303	113,625,073 - 113,764,609 (+)	NCBI
SpeTri2.0	NW_004936469	27,853,111 - 27,992,627 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LYPD6
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	15	2,579,622 - 2,696,160 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	15	2,579,619 - 2,696,153 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	15	2,011,800 - 2,127,992 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LYPD6
(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	10	34,762,531 - 34,912,386 (+)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	10	34,875,203 - 34,912,737 (+)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666040	164,626,250 - 164,766,129 (-)	NCBI	Vero_WHO_p1.0

Lypd6
(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_female_1.0 Ensembl	NW_004624866	2,103,765 - 2,253,464 (+)	Ensembl	HetGla_female_1.0		hetGla2
HetGla 1.0	NW_004624866	2,103,744 - 2,253,459 (+)	NCBI	HetGla_female_1.0		hetGla2

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
4889966	Bss95	Bone structure and strength QTL 95	4.4		tibia area (VT:1000281)	tibia-fibula cross-sectional area (CMO:0001718)	3	1	36847613	Rat
2312664	Scl62	Serum cholesterol level QTL 62		0.05	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	3	1	38710544	Rat
631568	Bp92	Blood pressure QTL 92	2.2	0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	1	39874793	Rat
2290452	Scl56	Serum cholesterol level QTL 56	2.26		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	3	1	91609953	Rat
10401810	Kidm53	Kidney mass QTL 53			kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	8227194	47233430	Rat
70191	BpQTLcluster4	Blood pressure QTL cluster 4	3		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	3	10778704	50302886	Rat
70191	BpQTLcluster4	Blood pressure QTL cluster 4	3		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	3	10778704	50302886	Rat
1358905	Hrtrt17	Heart rate QTL 17	5.9	0.000014	heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	3	10861912	89878372	Rat
1358885	Bp251	Blood pressure QTL 251	3.8		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	14489145	121056321	Rat
1358888	Bp264	Blood pressure QTL 264	4.43		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	14489145	121056321	Rat
2298542	Neuinf11	Neuroinflammation QTL 11	3.9		nervous system integrity trait (VT:0010566)	spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)	3	15005422	76927699	Rat
631676	Cm8	Cardiac mass QTL 8	7.03	0.0001	aorta mass (VT:0002845)	aorta weight (CMO:0000076)	3	16954708	61954708	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	heart rate (CMO:0000002)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	body weight (CMO:0000012)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	heart rate (CMO:0000002)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	body weight (CMO:0000012)	3	17374703	35528639	Rat
731172	Bp151	Blood pressure QTL 151		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	18311454	47233430	Rat
12879849	Bw180	Body weight QTL 180		0.037	body mass (VT:0001259)	body weight (CMO:0000012)	3	18311454	47233430	Rat
12879850	Cm91	Cardiac mass QTL 91		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	3	18311454	47233430	Rat
12879851	Cm92	Cardiac mass QTL 92		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	18311454	47233430	Rat
12879852	Cm93	Cardiac mass QTL 93		0.001	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	3	18311454	47233430	Rat
12879853	Am5	Aortic mass QTL 5		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	3	18311454	47233430	Rat
12879854	Kidm63	Kidney mass QTL 63		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	18311454	47233430	Rat
10450804	Scl70	Serum cholesterol level QTL 70	4.7	0.001	blood LDL cholesterol amount (VT:0000181)	blood low density lipoprotein cholesterol level (CMO:0000053)	3	20714090	65714090	Rat
10450794	Scl69	Serum cholesterol level QTL 69	6.3	0.001	blood LDL cholesterol amount (VT:0000181)	blood low density lipoprotein cholesterol level (CMO:0000053)	3	20714090	65714090	Rat
1298073	Cm13	Cardiac mass QTL 13	2.5		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	25013911	38192233	Rat
631832	Sach1	Saccharin preference QTL 1	2.7	0.02	consumption behavior trait (VT:0002069)	calculated saccharin drink intake volume (CMO:0001600)	3	27494621	44188411	Rat
2313049	Bss72	Bone structure and strength QTL 72	2.6	0.0001	tibia area (VT:1000281)	tibia midshaft cross-sectional area (CMO:0001717)	3	27494621	50302886	Rat
2313076	Bss74	Bone structure and strength QTL 74	2	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	3	27494621	50302886	Rat
2313079	Bss73	Bone structure and strength QTL 73	1.5		tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	3	27494621	50302886	Rat
2313093	Bmd77	Bone mineral density QTL 77	2.2	0.0001	tibia mineral mass (VT:1000283)	cortical volumetric bone mineral density (CMO:0001730)	3	27494621	50302886	Rat
2313101	Bmd76	Bone mineral density QTL 76	3.6	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	3	27494621	50302886	Rat
2302055	Pia30	Pristane induced arthritis QTL 30	3.5	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	3	27936919	72936919	Rat
9590286	Uminl1	Urine mineral level QTL 1	3.5	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	3	28249687	73249687	Rat
8694196	Abfw2	Abdominal fat weight QTL 2	16.58	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	3	28249687	73249687	Rat
8694386	Bw159	Body weight QTL 159	4.52	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	3	28249687	73249687	Rat
8552950	Pigfal12	Plasma insulin-like growth factor 1 level QTL 12	7.3		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	3	28249687	73249687	Rat
9590136	Scort3	Serum corticosterone level QTL 3	23.37	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	3	28249687	73249687	Rat
2303593	Gluco46	Glucose level QTL 46	3		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	28468571	73468571	Rat
1354590	Despr11	Despair related QTL 11		0.000031	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	3	28468571	73468571	Rat
737818	Hcar12	Hepatocarcinoma resistance QTL 12	2.6		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	3	29463235	118376539	Rat
61419	Cia11	Collagen induced arthritis QTL 11	5.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	3	30356773	98535386	Rat
61356	Bp37	Blood pressure QTL 37	3		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	3	30684642	75684642	Rat
631647	Bp122	Blood pressure QTL 122	6.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	30684642	75684642	Rat
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	31172320	163586636	Rat
11565451	Bw177	Body weight QTL 177		0.002	body mass (VT:0001259)	body weight (CMO:0000012)	3	31426403	70668733	Rat
11565452	Kidm57	Kidney mass QTL 57		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	31426403	70668733	Rat
12879866	Cm94	Cardiac mass QTL 94		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	31426403	70668733	Rat
12879867	Cm95	Cardiac mass QTL 95		0.047	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	3	31426403	70668733	Rat
12879868	Am6	Aortic mass QTL 6		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	3	31426403	70668733	Rat
2301400	Cm68	Cardiac mass QTL 68		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	3	31426403	70668733	Rat
1300169	Bp177	Blood pressure QTL 177	2.96		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	3	33703347	61017857	Rat
1354589	Bw31	Body weight QTL 31	3.3		body mass (VT:0001259)	body weight (CMO:0000012)	3	33703347	78196190	Rat
1354604	Bw36	Body weight QTL 36	2.9		body mass (VT:0001259)	body weight (CMO:0000012)	3	33703347	104104347	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	105
Count of miRNA genes:	88
Interacting mature miRNAs:	93
Transcripts:	ENSRNOT00000059588
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									39	18	10
Low	3	24	21	6	8	6	1	1	35	17	23	1	1
Below cutoff		10	15	14	11	14	6	7			7	10	6

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_001053512	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_003753721	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006224410	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006234160	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008775373	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039106250	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473983	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000115	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000059588 ⟹ ENSRNOP00000056346

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	3	35,679,750 - 35,707,410 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000095416 ⟹ ENSRNOP00000096059

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	3	34,496,485 - 34,630,308 (+)	Ensembl

RefSeq Acc Id:

XM_006234160 ⟹ XP_006234222

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	34,487,222 - 34,632,887 (+)	NCBI
Rnor_6.0	3	35,566,956 - 35,707,416 (+)	NCBI
Rnor_5.0	3	40,681,330 - 40,821,870 (+)	NCBI

Sequence:

show sequence

GCAGGCGGCGCTCCGCATTGCACACGCGGGGGTCGCCGCAGTGTTCGTGGGATGGGGCAGCGGG
CTGCCTCTGGTGGCAGGGACGCGTGCAGCCCGGGTGCCAATCCTCTACCACGGTCTCAAGTGCC
CCCTCTGAGGCCCTCTGTATGAGTGACACGCCAGTCGGCCATGGAACCCAGCCCTGCCCTGGCC
TGGCTCCTGCTGCTGAGCCTGGTGGCCGACTGTCTGAAAGCTGCCCAGTCCCGAGACTTCACAG
TGAAAGACATCATCTACCTCCATCCTTCAACCACTCCATATCCTGGTGGATTTAAATGTTTCAC
CTGTGAAAAAGCAGCAGACAATTATGAATGCAACCGATGGGCTCCTGACATCTACTGTCCTCGA
GACACCAGATACTGCTACACTCAGCACACGATGGAAGTCACAGGGAATAGCATCTCTGTTACCA
AACGCTGTGTCCCACTGGAGGAGTGCTTATCCACAGGCTGCCGAGACTCGGAGCATGAAGGCTA
CAAGATCTGCACCTCCTGCTGTGAAGGAAATATCTGTAATCTACCGCTCCCTCGAAATGACACT
GATGCCACATTTGCCACCACGTCCCCTATAAACCAGACAAACGGGCACCCACACTGTGTGTCAG
TGATTGTGTCCTGCTTGTGGGTGTGGCTGGGACTCACCTTATAGTAACCCTCCCTACCCAATGT
AGGTGAGCTCTGTGGTTTCACCGTGGCCATAGTCATGCATGAGTCATCAGCTTGGCAGCAGCGA
CACAATGCAACCACAGCACCCCGAGACGTCATCACAGCCAGCCATTACCATTCCTATGAAGAGC
AAGCATTGCTCCCTCCCGTGCTGTCATTTCCAGCCTAACCACAACCCCGCCTGAGTCAGCCTGT
CCCCGATACGGACCCTGATTCTTACACCACGAACCTGTTATTTCGCTCCAAGAAAGACCTCTGC
TTTTATTGATGTCTGGGGTTCCTGCTTCAGCATCCATGCCTGAGCTGCAGGAGGTCCTGGGCCC
TCTGAAGAATAAGCTATGGATACAGGAGATATTCATTCTCCTCAGGAAAAGAGTAAAGAACCAT
TGGTTTCATTGCAACCACACCTGCACCTAGAGCTTTAGAAGTTTAAAACTAAATCCAAAATAAA
TGGAATCGTTTCTTTGAGATTCTGATGGAGTCCCCGAAAGAGCAGAAAGAGCTTTGCTCGATTT
AATTTCCCCAGCCTTCTTATCTTAACATTGGGAAACATGTTCCTTCTGCTCTTTGTAGAAGATT
AAAAAAAAAAGCAATTATAAAAGTTTGCCGTATTTGTAGGAGTGAAAAGAGAACAATTTCCTTC
AACTTGATGAAATTAGCATCCTCAAGATGACGTTATCCCTTCTTGTAACTGAACAGATTGGCCT
TGACTCGGGAACTAATTATGCTTCCCGAGTTCCCGGATTCCAGGTGGACCAGTAGCATCTAAAA
AGTTACTAAATGAATGGGATGATTTTCTCCAGGTGTTGCATTCCATTCAGATATAGCTGATCTC
GTCAGAGAGAGGACTTCAGAATAAAAGGAAGCTCTGTGGAGGTTAGTCCTAGTTCATTTTGAAG
GCTCAGAAATGGCTAAGCAAAAGTCTTTCTCTTTCCATAGTATTTACTGCCAAAGAGCTGTCTC
CTTCCACAATCACAGTGACTTGAAAGAGAAAGTTCTGAGCTAAATTCTCATTAGATCAATAAGA
TAAGAGCACACCTGTGCTAGAATAAGAAAAAGATGGATCGTAAGTAGTACGGTGGCCTAAGATT
TGTTTCTCTCAGTTACCGTTTTTGAAGTAGAAGGAAAGGCTTTTATTGTCCGTGTATTTTTTTT
AACCTATGAAGTTGCATAGTTGTTTTCTTCTCCCATGTAAATTCTTTAAATGACATTTATTTTT
GTATGGTATAAACTGAAAACTATATTTCAAAAAAAATTCTTTTCTTTTTCTCCACAAAGTATCA
GTTAGAATGCTCGCTTTCAACAGCGGGAGGAATTGTCATCACTCCTGATCATGGGAAGTTATCT
GTGATCCTAGGACTGATGCTGAAAAAAATTATTGCTATGAACAAGAGTTGTGCATTTGCCTCAA
GGGTTTGCCTCATTGTCTCCTCAGAAAGGTTGCCCGAGAAATATTAGGGTGAAGGCCATCACTG
GTGTGACCGTCTTTGCAGGGCTGTGGGGTGTGTCCACAGGGAACTGGGCGGAGCTATGTCTCCA
AGAGGTCAATGATGTTAAAATATATCTGCCCTGCACAGAGAACTTTAGCTTAAATGAGACTCCC
CCACCCCCTCAGGGACCAAATCTGAACTGAGGGCAGAAACTCTGATGCAAATCATTGACGTTGC
ATCACACAGCCTTAATGAAGAGTTTGACAGGCGTATCAATTTCTTGCTTATGACTGCAGATGGG
AGAGCAGGAGAGAACGACCTGTAGTAAGCACCTCTTATGTGCCCGGCACTTTGCTAAGCACTTT
ACATAGTTAGGCCATATAACCCTACATCAATTCTGTAAGGACAGAACCTATTGATGTGTACACA
TGAAGGTCCCAAGGCTCAAGGAAGTTTGATAAATGAAGCCTTTTCCTTCAGATTTAGTTTATGT
GGGATGCGACATGTTTGGGAGAAAAAAAAACGGGGGAGGGGGGATGGAATTTCTCAGCTAGGAA
AAACTCTAGGCCTGACTTCATGGGAATTTCCCCCATCCTATCATATAGAACGTATCCTGCTTCT
CAGGATGACATTTGCATGTGTCCCCAGTTGTCACTTTTCCTTTGGGGAGTAAAGTTATAGCTTC
CTTATTTATCCTCTCGTACAGAGAGGAGGTAGTTGACCTTGCATCTAAAGATGCTCTAAGACAA
TGAGAATTTGATGTCGTACATGTCTGCAAGTACTGTTTTTGTGCATGGCCACATTCCACTGACA
TTTGCCAAGTCTGCATGCAATCAGAACAAGAGACAAGGGACTGACCATACGAGAGCCTCCCTGC
CTGGTTTTCAGGGATTGGATCTCAAGGGTACAGACTGTCCTCACCTGGGGAGTAATGGCAGCCA
TTGTACACGTGTGCTGCATACGTCCATAATGCCTTTCAAAGTGTCTTTTTCATTCTCTTGAAAG
AGCGTGGATTTGCTCACCACCCCCAGCACCAAGAAACCAAGGTGGGACCATTCATGTTGAAGGT
CCAGGACTAGTTACCCATGTGACTGTAGTCACTTTAAACTTTCCATTAAACCTCACCATTGGTG
ATGGCTTACAGTGCAAAGAGCCATGATGTGTATATTAACCTATGCTCTACATATTTATTTTTAG
ACTTTCTTCAGCATCCATGTTAGTATGGGATCGATGCCTATATGTAAATATTGTACACTTTGTA
AATCAATGAATAAAGATTTTAAGTGTCTTTCATTAGGCTTCTTCCTGCAAGTGTGTATGTCAAT
GATTAATATATCAGGTATGGGCTTAGCACCACAGTGGGTTTCTTTCCATCACCTACTTTCCAGA
TATGTCAAGAAATACACACATTAAAGAGACTCATCCCAAATGGTTCATACAGGTGATGAGTGCT
CCAAAAATAAAAGAAGAGGTTGTCAGACTGTT

hide sequence

RefSeq Acc Id:

XM_039106250 ⟹ XP_038962178

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	34,549,038 - 34,632,887 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_006234222	(Get FASTA)	NCBI Sequence Viewer
	XP_038962178	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	D3ZTT2	(Get FASTA)	NCBI Sequence Viewer
	EDM00460	(Get FASTA)	NCBI Sequence Viewer
	EDM00461	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	XP_006234222 ⟸ XM_006234160
- UniProtKB:	D3ZTT2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MEPSPALAWLLLLSLVADCLKAAQSRDFTVKDIIYLHPSTTPYPGGFKCFTCEKAADNYECNRW APDIYCPRDTRYCYTQHTMEVTGNSISVTKRCVPLEECLSTGCRDSEHEGYKICTSCCEGNICN LPLPRNDTDATFATTSPINQTNGHPHCVSVIVSCLWVWLGLTL hide sequence

RefSeq Acc Id:

ENSRNOP00000056346 ⟸ ENSRNOT00000059588

RefSeq Acc Id:

XP_038962178 ⟸ XM_039106250

RefSeq Acc Id:

ENSRNOP00000096059 ⟸ ENSRNOT00000095416

Protein Domains

UPAR/Ly6

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZTT2-F1-model_v2	AlphaFold	D3ZTT2	1-171	view protein structure

Transcriptome

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

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1587119	AgrOrtholog
BioCyc Gene	G2FUF-49756	BioCyc
Ensembl Genes	ENSRNOG00000038980	Ensembl
	ENSRNOG00000068044	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000096059	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000095416	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	2.10.60.10	UniProtKB/Swiss-Prot
InterPro	LYPD6	UniProtKB/Swiss-Prot
	LYPD6-like	UniProtKB/Swiss-Prot
	Snake_toxin-like_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:679564	UniProtKB/Swiss-Prot
NCBI Gene	679564	ENTREZGENE
PANTHER	PTHR31171	UniProtKB/Swiss-Prot
	PTHR31171:SF0	UniProtKB/Swiss-Prot
PhenoGen	Lypd6	PhenoGen
Superfamily-SCOP	SSF57302	UniProtKB/Swiss-Prot
UniProt	D3ZTT2	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2022-06-02	Lypd6	LY6/PLAUR domain containing 6	Lypd6	LY6/PLAUR domain containing 6	Data Merged	737654	PROVISIONAL
2021-08-09	Lypd6	LY6/PLAUR domain containing 6			Symbol and Name status set to provisional	45752	PROVISIONAL
2013-05-24	Lypd6	LY6/PLAUR domain containing 6	LOC100365115	LY6/PLAUR domain containing 6B-like	Data Merged	1643240	APPROVED
2010-05-05	LOC100365115	LY6/PLAUR domain containing 6B-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-03-05	Lypd6	LY6/PLAUR domain containing 6	LOC679564	hypothetical protein LOC679564	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-01-09	LOC679564	hypothetical protein LOC679564	LOC682476	hypothetical protein LOC682476	Data Merged	1643240	APPROVED
2006-11-19	LOC679564	hypothetical protein LOC679564			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-19	LOC682476	hypothetical protein LOC682476			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)

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