Lypd6b (Ly6/Plaur domain containing 6B)

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Gene: Lypd6b (Ly6/Plaur domain containing 6B) Rattus norvegicus

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Symbol:

Lypd6b

Name:

Ly6/Plaur domain containing 6B

RGD ID:

1562767

Description:

Predicted to enable acetylcholine receptor regulator activity. Predicted to be located in plasma membrane. Orthologous to human LYPD6B (LY6/PLAUR domain containing 6B); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC362133; ly6/PLAUR domain-containing protein 6B; RGD1562767; similar to RIKEN cDNA 2310010M24

RGD Orthologs

Alliance Orthologs

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):	LYPD6B (LY6/PLAUR domain containing 6B)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, Treefam
Mus musculus (house mouse):	Lypd6b (LY6/PLAUR domain containing 6B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Lypd6b (LY6/PLAUR domain containing 6B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LYPD6B (LY6/PLAUR domain containing 6B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LYPD6B (LY6/PLAUR domain containing 6B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Lypd6b (LY6/PLAUR domain containing 6B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LYPD6B (LY6/PLAUR domain containing 6B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LYPD6B (LY6/PLAUR domain containing 6B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Lypd6b (LY6/PLAUR domain containing 6B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Lypd6b (LY6/PLAUR domain containing 6B)	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	LYPD6B (LY6/PLAUR domain containing 6B)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	lypd6b (LY6/PLAUR domain containing 6B)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	lypd6b	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|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
GRCr8	3	54,608,320 - 54,769,974 (+)	NCBI		GRCr8
mRatBN7.2	3	34,199,101 - 34,360,770 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	34,199,599 - 34,360,770 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	3	37,569,714 - 37,745,286 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	3	46,154,432 - 46,329,986 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	3	43,966,693 - 44,131,818 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	3	35,271,785 - 35,437,296 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	35,271,786 - 35,437,296 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	40,397,603 - 40,555,551 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	30,849,359 - 30,869,056 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	3	32,384,248 - 32,545,513 (+)	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

17beta-estradiol (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (EXP)

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

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

all-trans-retinoic acid (ISO)

alpha-Zearalanol (EXP)

arsane (ISO)

arsenic atom (ISO)

avobenzone (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

chloroprene (ISO)

copper atom (ISO)

copper(0) (ISO)

Cuprizon (EXP)

decabromodiphenyl ether (EXP)

diallyl trisulfide (ISO)

dorsomorphin (ISO)

fulvestrant (ISO)

furan (EXP)

genistein (ISO)

gentamycin (EXP)

manganese(II) chloride (EXP)

nickel sulfate (ISO)

ozone (ISO)

paracetamol (EXP)

perfluorooctanoic acid (EXP)

phenylmercury acetate (ISO)

potassium chromate (ISO)

SB 431542 (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

titanium dioxide (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

triptonide (ISO)

valproic acid (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Cellular Component

plasma membrane (IEA)

side of membrane (IEA)

Molecular Function

acetylcholine receptor regulator activity (IBA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	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.
2.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:26586467

Genomics

Comparative Map Data

Lypd6b
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	3	54,608,320 - 54,769,974 (+)	NCBI		GRCr8
mRatBN7.2	3	34,199,101 - 34,360,770 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	34,199,599 - 34,360,770 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	3	37,569,714 - 37,745,286 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	3	46,154,432 - 46,329,986 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	3	43,966,693 - 44,131,818 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	3	35,271,785 - 35,437,296 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	35,271,786 - 35,437,296 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	40,397,603 - 40,555,551 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	30,849,359 - 30,869,056 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	3	32,384,248 - 32,545,513 (+)	NCBI		Celera
Cytogenetic Map	3	q12	NCBI

LYPD6B
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	149,038,699 - 149,215,262 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	149,038,107 - 149,215,262 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	149,895,213 - 150,071,776 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	149,603,227 - 149,780,018 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	2	143,508,885 - 143,685,705 (+)	NCBI		Celera
Cytogenetic Map	2	q23.2	NCBI
HuRef	2	141,793,209 - 141,970,636 (+)	NCBI		HuRef
CHM1_1	2	149,900,822 - 150,077,602 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	149,489,053 - 149,665,643 (+)	NCBI		T2T-CHM13v2.0

Lypd6b
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	49,677,380 - 49,838,861 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	2	49,677,700 - 49,838,861 (+)	Ensembl		GRCm39 Ensembl
GRCm38	2	49,787,340 - 49,948,849 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	49,787,688 - 49,948,849 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	49,643,206 - 49,804,366 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	2	49,609,695 - 49,770,855 (+)	NCBI		MGSCv36	mm8
Celera	2	51,460,729 - 51,622,118 (+)	NCBI		Celera
Cytogenetic Map	2	C1.1	NCBI
cM Map	2	28.74	NCBI

Lypd6b
(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	15,014,264 - 15,027,648 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955440	14,865,736 - 15,028,655 (+)	NCBI	ChiLan1.0	ChiLan1.0

LYPD6B
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	13	25,713,273 - 25,890,555 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2B	25,728,237 - 25,905,525 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2B	10,647,871 - 10,825,062 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2B	153,478,374 - 153,575,462 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2B	153,479,334 - 153,576,190 (+)	Ensembl	panpan1.1		panPan2

LYPD6B
(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	50,692,220 - 50,855,061 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	19	50,813,689 - 50,978,961 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	19	52,164,791 - 52,330,414 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	19	52,246,558 - 52,329,581 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	19	50,807,650 - 50,973,190 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	19	50,942,420 - 51,108,413 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	19	52,341,463 - 52,507,252 (+)	NCBI		UU_Cfam_GSD_1.0

Lypd6b
(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	113,372,508 - 113,518,367 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936469	28,100,477 - 28,119,342 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936469	28,098,841 - 28,245,200 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LYPD6B
(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	2,952,546 - 2,972,920 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	15	2,957,051 - 3,179,409 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	15	2,443,118 - 2,477,085 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LYPD6B
(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	34,511,293 - 34,644,953 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	10	34,634,763 - 34,644,939 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666040	164,885,952 - 165,010,527 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lypd6b
(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	1,940,123 - 1,959,344 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624866	1,708,769 - 1,960,396 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Lypd6b
1714 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	169
Count of miRNA genes:	121
Interacting mature miRNAs:	147
Transcripts:	ENSRNOT00000065989
Prediction methods:	Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

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

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

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
1298073	Cm13	Cardiac mass QTL 13	2.5		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	25013911	38192233	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
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
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
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
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
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
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
2313093	Bmd77	Bone mineral density QTL 77	2.2	0.0001	tibia mineral mass (VT:1000283)	compact volumetric bone mineral density (CMO:0001730)	3	27494621	50302886	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
61356	Bp37	Blood pressure QTL 37	3		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	3	30684642	75684642	Rat
1358905	Hrtrt17	Heart rate QTL 17	5.9	0.000014	heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	3	10861912	89878372	Rat
12879849	Bw180	Body weight QTL 180		0.037	body mass (VT:0001259)	body weight (CMO:0000012)	3	18311454	47233430	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
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
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
731172	Bp151	Blood pressure QTL 151		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	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
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
1358885	Bp251	Blood pressure QTL 251	3.8		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	14489145	121056321	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
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
11565451	Bw177	Body weight QTL 177		0.002	body mass (VT:0001259)	body weight (CMO:0000012)	3	31426403	70668733	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
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
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
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	31172320	163586636	Rat
1354589	Bw31	Body weight QTL 31	3.3		body mass (VT:0001259)	body weight (CMO:0000012)	3	33703347	78196190	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
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	body weight (CMO:0000012)	3	17374703	35528639	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
631647	Bp122	Blood pressure QTL 122	6.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	30684642	75684642	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
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
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
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
61419	Cia11	Collagen induced arthritis QTL 11	5.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	3	30356773	98535386	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
631676	Cm8	Cardiac mass QTL 8	7.03	0.0001	aorta mass (VT:0002845)	aorta weight (CMO:0000076)	3	16954708	61954708	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
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
1354604	Bw36	Body weight QTL 36	2.9		body mass (VT:0001259)	body weight (CMO:0000012)	3	33703347	104104347	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
2312664	Scl62	Serum cholesterol level QTL 62		0.05	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	3	1	38710544	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

Markers in Region

D3Rat47

Rat Assembly	Chr	Position (strand)	Source	JBrowse
RGSC_v3.4	3	30,835,250 - 30,835,368	UniSTS	RGSC3.4
RGSC_v3.4	3	30,835,249 - 30,835,368	RGD	RGSC3.4
RGSC_v3.1	3	30,731,621 - 30,731,740	RGD
Celera	3	32,512,845 - 32,512,963	UniSTS
RH 3.4 Map	3	511.02	RGD
RH 3.4 Map	3	511.02	UniSTS
SHRSP x BN Map	3	16.3599	UniSTS
SHRSP x BN Map	3	16.3599	RGD
Cytogenetic Map	3	q12	UniSTS

D3Got206

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	34,197,864 - 34,198,024 (+)	MAPPER	mRatBN7.2
Rnor_6.0	3	35,270,054 - 35,270,211	NCBI	Rnor6.0
Rnor_5.0	3	40,396,403 - 40,396,560	UniSTS	Rnor5.0
RGSC_v3.4	3	30,771,423 - 30,771,580	UniSTS	RGSC3.4
Celera	3	32,382,555 - 32,382,673	UniSTS
Cytogenetic Map	3	q12	UniSTS

RH141888

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	34,307,577 - 34,307,794 (+)	MAPPER	mRatBN7.2
Rnor_6.0	3	35,383,246 - 35,383,462	NCBI	Rnor6.0
Rnor_5.0	3	40,503,785 - 40,504,001	UniSTS	Rnor5.0
Celera	3	32,491,894 - 32,492,110	UniSTS
RH 3.4 Map	3	413.32	UniSTS
Cytogenetic Map	3	q12	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
9	7	26	113	46	45	14	20	14	6	141	66	93	45	58	31

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001395757	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008761763	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008761768	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008761769	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017591885	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017591887	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017591888	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017591889	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017591890	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017591891	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039105382	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039105384	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039105387	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039105390	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063284108	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063284109	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063284110	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473983	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000003	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000065989 ⟹ ENSRNOP00000063299

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	3	34,199,599 - 34,360,770 (+)	Ensembl
Rnor_6.0 Ensembl	3	35,271,786 - 35,437,296 (+)	Ensembl

RefSeq Acc Id:

NM_001395757 ⟹ NP_001382686

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	3	54,608,320 - 54,769,974 (+)	NCBI
mRatBN7.2	3	34,199,105 - 34,360,770 (+)	NCBI

RefSeq Acc Id:

XM_039105382 ⟹ XP_038961310

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	3	54,608,340 - 54,769,970 (+)	NCBI
mRatBN7.2	3	34,199,103 - 34,360,770 (+)	NCBI

RefSeq Acc Id:

XM_039105384 ⟹ XP_038961312

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	3	54,608,343 - 54,769,970 (+)	NCBI
mRatBN7.2	3	34,199,105 - 34,360,770 (+)	NCBI

RefSeq Acc Id:

XM_039105387 ⟹ XP_038961315

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	3	54,608,343 - 54,769,970 (+)	NCBI
mRatBN7.2	3	34,199,105 - 34,360,770 (+)	NCBI

RefSeq Acc Id:

XM_039105390 ⟹ XP_038961318

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	3	54,608,340 - 54,769,970 (+)	NCBI
mRatBN7.2	3	34,199,103 - 34,360,770 (+)	NCBI

RefSeq Acc Id:

XM_063284108 ⟹ XP_063140178

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	3	54,608,340 - 54,769,970 (+)	NCBI

RefSeq Acc Id:

XM_063284109 ⟹ XP_063140179

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	3	54,609,071 - 54,769,970 (+)	NCBI

RefSeq Acc Id:

XM_063284110 ⟹ XP_063140180

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	3	54,609,019 - 54,769,970 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001382686	(Get FASTA)	NCBI Sequence Viewer
	XP_038961310	(Get FASTA)	NCBI Sequence Viewer
	XP_038961312	(Get FASTA)	NCBI Sequence Viewer
	XP_038961315	(Get FASTA)	NCBI Sequence Viewer
	XP_038961318	(Get FASTA)	NCBI Sequence Viewer
	XP_063140178	(Get FASTA)	NCBI Sequence Viewer
	XP_063140179	(Get FASTA)	NCBI Sequence Viewer
	XP_063140180	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM00462	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000063299.1

Ensembl Acc Id:

ENSRNOP00000063299 ⟸ ENSRNOT00000065989

RefSeq Acc Id:	XP_038961310 ⟸ XM_039105382
- Peptide Label:	isoform X1
- UniProtKB:	A6JEZ8 (UniProtKB/TrEMBL), D3ZUF1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038961318 ⟸ XM_039105390
- Peptide Label:	isoform X1
- UniProtKB:	A6JEZ8 (UniProtKB/TrEMBL), D3ZUF1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038961312 ⟸ XM_039105384
- Peptide Label:	isoform X1
- UniProtKB:	A6JEZ8 (UniProtKB/TrEMBL), D3ZUF1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038961315 ⟸ XM_039105387
- Peptide Label:	isoform X1
- UniProtKB:	A6JEZ8 (UniProtKB/TrEMBL), D3ZUF1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	NP_001382686 ⟸ NM_001395757
- Peptide Label:	precursor
- UniProtKB:	A6JEZ8 (UniProtKB/TrEMBL), D3ZUF1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063140178 ⟸ XM_063284108
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_063140180 ⟸ XM_063284110
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_063140179 ⟸ XM_063284109
- Peptide Label:	isoform X1

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZUF1-F1-model_v2	AlphaFold	D3ZUF1	1-205	view protein structure

Transcriptome

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

Promoters

RGD ID:

13692070

Promoter ID:

EPDNEW_R2595

Type:

single initiation site

Name:

Lypd6b_1

Description:

LY6/PLAUR domain containing 6B

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	3	35,271,834 - 35,271,894	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1562767	AgrOrtholog
BioCyc Gene	G2FUF-49758	BioCyc
Ensembl Genes	ENSRNOG00000004614	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000065989.3	UniProtKB/TrEMBL
Gene3D-CATH	2.10.60.10	UniProtKB/TrEMBL
InterPro	LYPD6-like	UniProtKB/TrEMBL
	Snake_toxin-like_sf	UniProtKB/TrEMBL
NCBI Gene	362133	ENTREZGENE
PANTHER	LY6/PLAUR DOMAIN-CONTAINING PROTEIN 6B	UniProtKB/TrEMBL
	PTHR31171	UniProtKB/TrEMBL
Pfam	UPAR_LY6_2	UniProtKB/TrEMBL
PhenoGen	Lypd6b	PhenoGen
RatGTEx	ENSRNOG00000004614	RatGTEx
Superfamily-SCOP	SSF57302	UniProtKB/TrEMBL
UniProt	A6JEZ8	ENTREZGENE, UniProtKB/TrEMBL
	D3ZUF1	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2022-09-15	Lypd6b	Ly6/Plaur domain containing 6B	Lypd6b	LY6/PLAUR domain containing 6B	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-09-09	Lypd6b	LY6/PLAUR domain containing 6B	RGD1562767	similar to RIKEN cDNA 2310010M24	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	RGD1562767	similar to RIKEN cDNA 2310010M24	RGD1562767_predicted	similar to RIKEN cDNA 2310010M24 (predicted)	'predicted' is removed	2292626	APPROVED
2006-03-07	RGD1562767_predicted	similar to RIKEN cDNA 2310010M24 (predicted)	LOC362133	similar to RIKEN cDNA 2310010M24	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	LOC362133	similar to RIKEN cDNA 2310010M24			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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