Lhfpl6 (LHFPL tetraspan subfamily member 6)

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner VCMap Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Lhfpl6 (LHFPL tetraspan subfamily member 6) Rattus norvegicus

Analyze

Symbol:

Lhfpl6

Name:

LHFPL tetraspan subfamily member 6

RGD ID:

1560177

Description:

Predicted to localize to membrane. Orthologous to human LHFPL6 (LHFPL tetraspan subfamily member 6); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

Lhfp; lipoma HMGIC fusion partner; MGC109397; RGD1560177; similar to RIKEN cDNA 2810489O06

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	2	137,126,485 - 137,324,442 (+)	NCBI
Rnor_6.0 Ensembl	2	142,262,236 - 142,461,980 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	2	142,262,236 - 142,461,980 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	2	161,947,947 - 162,146,115 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	141,974,792 - 142,183,203 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	2	131,623,723 - 131,820,297 (+)	NCBI		Celera
Cytogenetic Map	2	q26	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Experimental Liver Cirrhosis (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (EXP,ISO)

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

3-isobutyl-1-methyl-7H-xanthine (ISO)

3-phenylprop-2-enal (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

benzo[e]pyrene (ISO)

Benzo[k]fluoranthene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

butanal (ISO)

C60 fullerene (EXP)

cadmium atom (ISO)

captan (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

casticin (ISO)

choline (ISO)

cisplatin (ISO)

cobalt dichloride (ISO)

copper atom (ISO)

copper(0) (ISO)

cyclosporin A (ISO)

cylindrospermopsin (ISO)

cytarabine (ISO)

decabromodiphenyl ether (EXP)

dexamethasone (ISO)

diarsenic trioxide (ISO)

diuron (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

endosulfan (EXP)

entinostat (ISO)

fenamidone (ISO)

flutamide (EXP)

folic acid (ISO)

folpet (ISO)

fonofos (ISO)

genistein (EXP)

hydrogen peroxide (ISO)

indometacin (ISO)

isotretinoin (ISO)

L-methionine (ISO)

lipopolysaccharide (ISO)

mercury dibromide (ISO)

methapyrilene (ISO)

methylmercury chloride (ISO)

N-methyl-4-phenylpyridinium (ISO)

oxaliplatin (EXP)

panobinostat (ISO)

paracetamol (ISO)

parathion (ISO)

pentanal (ISO)

phenylmercury acetate (ISO)

potassium chromate (ISO)

progesterone (ISO)

propanal (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

Soman (EXP)

sunitinib (ISO)

terbufos (ISO)

tetrachloromethane (ISO)

thapsigargin (ISO)

theophylline (ISO)

titanium dioxide (ISO)

topotecan (EXP)

trichostatin A (ISO)

triphenyl phosphate (EXP)

valproic acid (ISO)

vancomycin (ISO)

vinclozolin (EXP)

vorinostat (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Cellular Component

integral component of membrane (IEA)

membrane (IBA)

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.	RGD automated data pipeline
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

Additional References at PubMed

PMID:12477932

Genomics

Comparative Map Data

Lhfpl6
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	2	137,126,485 - 137,324,442 (+)	NCBI
Rnor_6.0 Ensembl	2	142,262,236 - 142,461,980 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	2	142,262,236 - 142,461,980 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	2	161,947,947 - 162,146,115 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	141,974,792 - 142,183,203 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	2	131,623,723 - 131,820,297 (+)	NCBI		Celera
Cytogenetic Map	2	q26	NCBI

LHFPL6
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	13	39,209,116 - 39,603,528 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	13	39,342,892 - 39,603,193 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	13	39,917,029 - 40,177,330 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	13	38,815,029 - 39,075,356 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	13	38,815,029 - 39,075,201	NCBI
Celera	13	20,971,004 - 21,230,116 (-)	NCBI
Cytogenetic Map	13	q13.3-q14.11	NCBI
HuRef	13	20,717,038 - 20,976,465 (-)	NCBI		HuRef
CHM1_1	13	39,884,864 - 40,144,901 (-)	NCBI		CHM1_1

Lhfp
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	3	52,948,968 - 53,169,100 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	3	52,948,949 - 53,169,100 (+)	Ensembl
GRCm38	3	53,041,547 - 53,261,679 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	53,041,528 - 53,261,679 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	3	52,845,469 - 53,065,601 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	3	53,129,476 - 53,349,608 (+)	NCBI			mm8
Celera	3	52,770,052 - 52,986,552 (+)	NCBI		Celera
Cytogenetic Map	3	C	NCBI

Lhfpl6
(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_004955431	6,745,848 - 6,976,647 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955431	6,745,745 - 6,977,662 (+)	NCBI	ChiLan1.0	ChiLan1.0

LHFPL6
(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	13	39,147,003 - 39,405,533 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	13	39,182,518 - 39,403,746 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	13	20,560,260 - 20,819,037 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

LHFPL6
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	25	1,567,799 - 1,805,030 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	25	1,567,335 - 1,804,535 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	25	1,664,664 - 1,901,788 (+)	NCBI
ROS_Cfam_1.0	25	1,665,939 - 1,903,037 (+)	NCBI
UMICH_Zoey_3.1	25	1,567,933 - 1,804,444 (+)	NCBI
UNSW_CanFamBas_1.0	25	1,560,904 - 1,797,968 (+)	NCBI
UU_Cfam_GSD_1.0	25	1,627,749 - 1,867,664 (+)	NCBI

Lhfpl6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404945	162,629,806 - 162,860,113 (+)	NCBI
SpeTri2.0	NW_004936565	6,113,917 - 6,344,153 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LHFPL6
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	11	14,319,428 - 14,576,108 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	11	14,319,420 - 14,576,130 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	11	14,546,880 - 14,559,891 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LHFPL6
(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	3	17,724,768 - 17,981,405 (-)	NCBI

Lhfpl6
(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_004624748	139,378 - 409,093 (-)	NCBI

Position Markers

D2Rat220

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	142,289,751 - 142,289,896	NCBI	Rnor6.0
Rnor_5.0	2	161,975,462 - 161,975,607	UniSTS	Rnor5.0
RGSC_v3.4	2	142,003,999 - 142,004,145	RGD	RGSC3.4
RGSC_v3.4	2	142,004,000 - 142,004,145	UniSTS	RGSC3.4
RGSC_v3.1	2	141,953,962 - 141,954,108	RGD
Celera	2	131,651,439 - 131,651,584	UniSTS
SHRSP x BN Map	2	57.1798	UniSTS
SHRSP x BN Map	2	57.1798	RGD
Cytogenetic Map	2	q26	UniSTS

D2Chm33

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	142,355,464 - 142,355,672	NCBI	Rnor6.0
Rnor_5.0	2	162,041,036 - 162,041,244	UniSTS	Rnor5.0
RGSC_v3.4	2	142,068,645 - 142,068,853	UniSTS	RGSC3.4
Celera	2	131,717,182 - 131,717,390	UniSTS
Cytogenetic Map	2	q26	UniSTS

RH141719

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	142,290,672 - 142,290,851	NCBI	Rnor6.0
Rnor_5.0	2	161,976,383 - 161,976,562	UniSTS	Rnor5.0
RGSC_v3.4	2	142,004,921 - 142,005,100	UniSTS	RGSC3.4
Celera	2	131,652,360 - 131,652,539	UniSTS
RH 3.4 Map	2	855.6	UniSTS
Cytogenetic Map	2	q26	UniSTS

BI281007

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	142,461,651 - 142,461,809	NCBI	Rnor6.0
Rnor_5.0	2	162,145,786 - 162,145,944	UniSTS	Rnor5.0
RGSC_v3.4	2	142,182,874 - 142,183,032	UniSTS	RGSC3.4
Celera	2	131,819,968 - 131,820,126	UniSTS
RH 3.4 Map	2	850.8	UniSTS
Cytogenetic Map	2	q26	UniSTS

RH143913

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	142,264,036 - 142,264,187	NCBI	Rnor6.0
Rnor_5.0	2	161,949,747 - 161,949,898	UniSTS	Rnor5.0
RGSC_v3.4	2	141,976,592 - 141,976,743	UniSTS	RGSC3.4
Celera	2	131,625,523 - 131,625,674	UniSTS
RH 3.4 Map	2	850.8	UniSTS
Cytogenetic Map	2	q26	UniSTS

AA956142

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	142,461,781 - 142,461,961	NCBI	Rnor6.0
Rnor_5.0	2	162,145,916 - 162,146,096	UniSTS	Rnor5.0
RGSC_v3.4	2	142,183,004 - 142,183,184	UniSTS	RGSC3.4
Celera	2	131,820,098 - 131,820,278	UniSTS
RH 3.4 Map	2	849.2	UniSTS
Cytogenetic Map	2	q26	UniSTS

AU046805

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	142,355,387 - 142,355,684	NCBI	Rnor6.0
Rnor_5.0	2	162,040,959 - 162,041,256	UniSTS	Rnor5.0
RGSC_v3.4	2	142,068,568 - 142,068,865	UniSTS	RGSC3.4
Celera	2	131,717,105 - 131,717,402	UniSTS
Cytogenetic Map	2	q26	UniSTS

BI281007

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	142,461,650 - 142,461,830	NCBI	Rnor6.0
Rnor_5.0	2	162,145,785 - 162,145,965	UniSTS	Rnor5.0
RGSC_v3.4	2	142,182,873 - 142,183,053	UniSTS	RGSC3.4
Celera	2	131,819,967 - 131,820,147	UniSTS
RH 3.4 Map	2	850.8	UniSTS
Cytogenetic Map	2	q26	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
10755499	Bp389	Blood pressure QTL 389	2.61		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	16679272	245624402	Rat
1302794	Stl27	Serum triglyceride level QTL 27	4.4	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	2	23837491	149614623	Rat
1358894	Kidm24	Kidney mass QTL 24	4.03		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	23837491	169852800	Rat
1358899	Kidm23	Kidney mass QTL 23	3.88		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	23837491	169852800	Rat
1358901	Cm38	Cardiac mass QTL 38	2		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	169852800	Rat
1358904	Cm39	Cardiac mass QTL 39	2.26		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	169852800	Rat
1358910	Kidm27	Kidney mass QTL 27	5.77		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	23837491	169852800	Rat
1358911	Kidm28	Kidney mass QTL 28	5.42		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	23837491	169852800	Rat
1358913	Cm41	Cardiac mass QTL 41	2.73		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	218957222	Rat
1358917	Cm42	Cardiac mass QTL 42	2.82		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	218957222	Rat
1358887	Bw50	Body weight QTL 50	2.39		body mass (VT:0001259)	body weight (CMO:0000012)	2	23837719	169852670	Rat
1358908	Bw49	Body weight QTL 49	3.36		body mass (VT:0001259)	body weight (CMO:0000012)	2	23837719	169852670	Rat
12879841	Cm87	Cardiac mass QTL 87		0.026	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	2	27161361	148295267	Rat
12879842	Cm88	Cardiac mass QTL 88		0.042	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	2	27161361	148295267	Rat
12879843	Am3	Aortic mass QTL 3		0.016	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	2	27161361	148295267	Rat
12879844	Kidm62	Kidney mass QTL 62		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	27161361	148295267	Rat
2293835	Kiddil5	Kidney dilation QTL 5	3.8		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	2	42776916	169852800	Rat
2293843	Kiddil6	Kidney dilation QTL 6	3.1		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	2	42776916	195645082	Rat
1298085	Bp165	Blood pressure QTL 165		0.0006	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	42776916	217498710	Rat
1298074	Bp164	Blood pressure QTL 164		0.003	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	42776916	217498710	Rat
61467	Bp14	Blood pressure QTL 14	2.2		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	43133606	217498545	Rat
61467	Bp14	Blood pressure QTL 14	2.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	43133606	217498545	Rat
2293671	Bss44	Bone structure and strength QTL 44	10.97	0.0001	lumbar vertebra morphology trait (VT:0010494)	lumbar vertebra cortical cross-sectional area (CMO:0001690)	2	43141290	154583160	Rat
1354601	Slep1	Serum leptin concentration QTL 1	5.39		blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	2	43149788	198704485	Rat
631266	Bp132	Blood pressure QTL 132		0.0005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	46537589	217498710	Rat
1331760	Bp206	Blood pressure QTL 206	3.62454		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	56244671	217498710	Rat
61438	Cia7	Collagen induced arthritis QTL 7	4.6	0.0001	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	2	60325352	147522851	Rat
1298080	Bp163	Blood pressure QTL 163		0.02	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	66828049	217498710	Rat
1354648	Bp239	Blood pressure QTL 239		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	66828236	243550655	Rat
1358900	Bw48	Body weight QTL 48	4.88		body mass (VT:0001259)	body weight (CMO:0000012)	2	68865414	169852800	Rat
1581578	Cm49	Cardiac mass QTL 49	4.9	0.01	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	2	68866454	149614466	Rat
1354605	Rf48	Renal function QTL 48	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	2	75687495	221880419	Rat
631198	Cm22	Cardiac mass QTL 22	4.3	0.0008	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	2	78321410	158159410	Rat
61374	Edpm2	Estrogen-dependent pituitary mass QTL 2	4.42	0.86	pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	2	78321410	217498710	Rat
2299162	Iddm32	Insulin dependent diabetes mellitus QTL 32	2.36		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	2	80631950	149614623	Rat
8662832	Vetf7	Vascular elastic tissue fragility QTL 7	3.5		aorta elastin amount (VT:0003905)	aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)	2	83754907	237610852	Rat
1354622	Kidm16	Kidney mass QTL 16	3		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	2	83819608	239166203	Rat
1354649	Kidm17	Kidney mass QTL 17	2.9		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	2	83819608	243901375	Rat
1558653	Prcr1	Prostate cancer resistance QTL 1	5		prostate integrity trait (VT:0010571)	area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)	2	93995316	169852800	Rat
9589093	Slep10	Serum leptin concentration QTL 10	3.84	0.001	blood leptin amount (VT:0005667)	plasma leptin level (CMO:0000781)	2	102356980	147356980	Rat
631566	Bp90	Blood pressure QTL 90		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	108880910	153880910	Rat
8662836	Vetf8	Vascular elastic tissue fragility QTL 8	0.66		thoracic aorta molecular composition trait (VT:0010568)	aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)	2	110965721	155965721	Rat
1581552	Pur12	Proteinuria QTL 12	5.19	0.0009	total urine protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	2	115721880	154182196	Rat
631507	Bp105	Blood pressure QTL 105		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	116075644	228737869	Rat
634308	Sach6	Saccharin preference QTL 6	4.9		taste sensitivity trait (VT:0001986)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	2	116075644	228737869	Rat
1359035	Bp276	Blood pressure QTL 276			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	118446646	149614623	Rat
1359035	Bp276	Blood pressure QTL 276			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	118446646	149614623	Rat
1359030	Bp277	Blood pressure QTL 277			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	118446646	200453484	Rat
1359030	Bp277	Blood pressure QTL 277			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	118446646	200453484	Rat
1578648	Bss11	Bone structure and strength QTL 11	4.7		femur morphology trait (VT:0000559)	femoral neck cortical cross-sectional area (CMO:0001702)	2	118446646	227707979	Rat
1554319	Bmd2	Bone mineral density QTL 2	13.4	0.0001	lumbar vertebra area (VT:0010570)	lumbar vertebra cross-sectional area (CMO:0001689)	2	118446793	228582621	Rat
1354594	Despr10	Despair related QTL 10		0.00000249	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	2	119789823	164789823	Rat
5135226	Leukc2	Leukocyte quantity QTL 2			eosinophil quantity (VT:0002602)	blood eosinophil count (CMO:0000033)	2	121750419	155965721	Rat
1582257	Gluco21	Glucose level QTL 21	3.1	0.0035	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	2	121750419	169852800	Rat
738007	Anxrr7	Anxiety related response QTL 7	4.4		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	2	123456539	168456539	Rat
1358360	Sradr2	Stress Responsive Adrenal Weight QTL 2	10.24		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	2	133399373	173020198	Rat
1300165	Rf9	Renal function QTL 9	3.28		kidney glomerulus integrity trait (VT:0010546)	index of glomerular damage (CMO:0001135)	2	138901276	217498710	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	140566078	217498545	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	140566078	217498545	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	140566078	217498545	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	2	140566078	217498545	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	2	140566078	217498545	Rat
1298076	Bp166	Blood pressure QTL 166		0.0009	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	141583337	217498710	Rat
1581502	Esta3	Estrogen-induced thymic atrophy QTL 3			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	2	142053350	204585731	Rat
1359022	Ppulsi1	Prepulse inhibition QTL 1	3.63		prepulse inhibition trait (VT:0003088)	acoustic startle response measurement (CMO:0001519)	2	142053350	228984665	Rat
1549841	Bp256	Blood pressure QTL 256		0.03	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	142355464	148295508	Rat
12879830	Bw178	Body weight QTL 178		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	2	142355464	148295508	Rat
12879831	Cm82	Cardiac mass QTL 82		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	2	142355464	148295508	Rat
12879832	Cm83	Cardiac mass QTL 83		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	2	142355464	148295508	Rat
12879833	Cm84	Cardiac mass QTL 84		0.001	heart right ventricle mass (VT:0007033)	heart weight to body weight ratio (CMO:0000074)	2	142355464	148295508	Rat
12879834	Am1	Aortic mass QTL 1		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	2	142355464	148295508	Rat
12879835	Kidm60	Kidney mass QTL 60		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	142355464	148295508	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	469
Count of miRNA genes:	246
Interacting mature miRNAs:	304
Transcripts:	ENSRNOT00000019057
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	2	41	10	10		10	2	3	74	25	35	11	2
Low	1	2	47	31	19	31	6	8		10	6		6
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001109183	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC091355	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474003	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000069	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000019057 ⟹ ENSRNOP00000019057

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	2	142,262,236 - 142,461,980 (+)	Ensembl

RefSeq Acc Id:

NM_001109183 ⟹ NP_001102653

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	137,126,485 - 137,324,442 (+)	NCBI
Rnor_6.0	2	142,262,236 - 142,461,980 (+)	NCBI
Rnor_5.0	2	161,947,947 - 162,146,115 (+)	NCBI
RGSC_v3.4	2	141,974,792 - 142,183,203 (+)	RGD
Celera	2	131,623,723 - 131,820,297 (+)	RGD

Sequence:

show sequence

GCCGGCATCCACGGTGCTCCCGGGCCGCACCGCCACAGCCGGCGGGCTCTCCAGGCGGGTCCTC
CTGACCCTCCACCCCGGCTCTCAGACTCGCCTTGATCTCCGTCGGGATAGTGTCGAAGGCGAAA
AAGACAGTCTTCGGTGCCGCGTTGTCTCCGCCAGGGAAAGACAGCAAGTTGTGCTGCGCCTGGG
ACCGCGAGGGACCGGGAGGGACCGCGGCCGCCGCCCGACCGGGGGCCGCCATCATTACCATAAA
GCATGAGAAGCTAATCGAGGCAAGACCAAAAGATCTGTTGCAGCCAAGTAGCTACAAAGGCCTT
GAAGAACTGTGGACTCCCCGGGAGTTTCTGGTGACCACACGCCTTCCTTCACACCTTCGGGACG
ATCCCACTGGGTCCTCGTTGCACTGCATGTTGGAAAATGGCATCCAGCCTGACTTGTACTGGAG
TGATCTGGGCTTTGCTTTCTTTCCTTTCCGCTGCCACATCCTGTGTGGGGTTCTTCATGCCTTA
CTGGCTCTGGGGATCTCAGCTAGGCAAGCCCGTGTCCTTTGGCACTTTCCGGAGGTGCTCCTAT
CCCGTACACGATGAGAGTCGGCAGATGATGGTGATGGTGGAGGAGTGTGGGCGCTATGCTTCCT
TCCAGGGCATCCCCAGCACCGAGTGGAGGATCTGTACCATAGTGACAGGCCTGGGCTGTGGCCT
GCTCCTCCTGGTGGCTCTCACTGCCCTTATGGGTTGCTGCGTGTCAGAGCTCATCTCCAGGACA
GTAGGAAGAGTGGCTGGGGGAATCCAGTTCCTGGGGGGCCTGTTGATTGGCGCTGGCTGTGCCC
TCTACCCCTTGGGCTGGGACAGTGAGGAAGTCCGGCAGACTTGTGGCTACATCTCTGACCAGTT
TGACTTGGGCAAGTGTGAAATCGGCTGGGCCTACTACTGCACCGGGGCCGGGGCTGCAGCTGCC
ATGCTGCTGTGCACATGGCTGGCGTGCTTCTCAGGCAAGAAGCAAAAGCACTACCCCTACTGAG
GCCATGAGGAGCAAGCTGAGGAGAGGACAGACACCAGAGACGGAGGGGCCCGAAGCATTCCGCG
ACTTTCACAAGGTGGAATAGTGGTTGTAAATGCAGAACAGTGTTAATGTAATGAGATTTGGTTG
AATCTGGAACATTCTGTAGGAAGGGAGGGTGGTGGGGACATTGTCAAAAGCATGGAGAATAGGG
GACGATGGACCAAAGGCTAAAACATGGCAGGACATTGGTGTTTCTGTTCCACAGAGTAGCGTTA
ATGTATATCACACACAGCAAATCTATATATGCAAACGAGGATCTCATTTTCGTTCTCCTTCAAA
AAGATGAGGACTAGGGGAGTCAAAAGGGCTAGTAGAAACAGTATTATCTTAGGAAGCAGGATGA
GCACCCTGCAGACATTCCCTGTAGATGAGGACTGAGCCTGAAAGCACATGAGCACGTGCACACA
TATGCACACATATGCACACATGTGCACACATATGCACAGGTCATATGCACACATCATATTCACA
CATCACATGCACACACCATATGCACAAGTCATATGCATACATCGAAAGCATACGTCACACACAC
AGGTCACCACGCCACTGCACAGGGGGTCAGCTGTGTACTGTTGCTCCTGTTTCTTTTTTTAAAA
TATACATCAGTACAGCATCATCGCCAAGCATACATTGAGCCTAGTCCATGGACCAATATGCCAC
TGTATCAGTATTTTTGATGTCCTGCATAAACCATGCCCACAGCATATCTTTGGTGTTTATGCAG
ATCCTTAGAGGAAAGCCTTCGCATTTCAAAGACACCCAGTAGTGATCTGAGTAGCTTCTGCTGT
AGTAACCTTTTGAAGAACAGGACAGCTTTTGTCTCCTGTAGGTGAGAATTCAGTTGCAGATTTG
AGAGTGAAGAGAGCTCTTTCTCCATTTATTGGATCTTCTTTTCTTTTCTCCATTATTCTACTGT
GCTATACCACAATTATTTCAATATTCATTTTGTAAAGGGAAAAAAAAGTACTATTTTGTTTGTA
TTTGAAAGCTCTGTGAATAAATTCTCTTTGATCAAT

hide sequence

Protein Sequences


Protein RefSeqs	NP_001102653	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH91355	(Get FASTA)	NCBI Sequence Viewer
	EDM14958	(Get FASTA)	NCBI Sequence Viewer
	EDM14959	(Get FASTA)	NCBI Sequence Viewer
	EDM14960	(Get FASTA)	NCBI Sequence Viewer
	Q5BJS2	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_001102653 ⟸ NM_001109183
- Peptide Label:	precursor
- UniProtKB:	Q5BJS2 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MASSLTCTGVIWALLSFLSAATSCVGFFMPYWLWGSQLGKPVSFGTFRRCSYPVHDESRQMMVM VEECGRYASFQGIPSTEWRICTIVTGLGCGLLLLVALTALMGCCVSELISRTVGRVAGGIQFLG GLLIGAGCALYPLGWDSEEVRQTCGYISDQFDLGKCEIGWAYYCTGAGAAAAMLLCTWLACFSG KKQKHYPY hide sequence

RefSeq Acc Id:

ENSRNOP00000019057 ⟸ ENSRNOT00000019057

Transcriptome

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

Promoters

RGD ID:

13691322

Promoter ID:

EPDNEW_R1847

Type:

initiation region

Name:

Lhfpl6_1

Description:

LHFPL tetraspan subfamily member 6

SO ACC ID:

SO:0000170

Source:

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

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	2	142,262,251 - 142,262,311	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

Visual

CSV

TAB

Printer

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

ACI/EurMcwi (RGD)

Visual

CSV

TAB

Printer

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

ACI/N (MCW)

Visual

CSV

TAB

Printer

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

BBDP/Wor (RGD)

Visual

CSV

TAB

Printer

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

BN/SsN (MCW)

Visual

CSV

TAB

Printer

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

Buf/N (MCW)

Visual

CSV

TAB

Printer

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

COP/CrCrl (MCW & UW)

Visual

CSV

TAB

Printer

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

F344/NCrl (RGD)

Visual

CSV

TAB

Printer

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

F344/NRrrc (MCW)

Visual

CSV

TAB

Printer

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

FHH/EurMcwi (MCW)

Visual

CSV

TAB

Printer

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

FHH/EurMcwi (RGD)

Visual

CSV

TAB

Printer

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

FHL/EurMcwi (MCW)

Visual

CSV

TAB

Printer

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

FHL/EurMcwi (RGD)

Visual

CSV

TAB

Printer

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

GH/OmrMcwi (MCW)

Visual

CSV

TAB

Printer

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

GK/Ox (RGD)

Visual

CSV

TAB

Printer

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

LE/Stm (RGD)

Visual

CSV

TAB

Printer

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

LEW/Crl (RGD)

Visual

CSV

TAB

Printer

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

LEW/NCrlBR (RGD)

Visual

CSV

TAB

Printer

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

LH/MavRrrc (RGD)

Visual

CSV

TAB

Printer

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

LL/MavRrrc (RGD)

Visual

CSV

TAB

Printer

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

LN/MavRrrc (RGD)

Visual

CSV

TAB

Printer

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

M520/N (MCW)

Visual

CSV

TAB

Printer

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

MHS/Gib (RGD)

Visual

CSV

TAB

Printer

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

MNS/Gib (RGD)

Visual

CSV

TAB

Printer

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

MR/N (MCW)

Visual

CSV

TAB

Printer

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

SBH/Ygl (MCW)

Visual

CSV

TAB

Printer

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

SBH/Ygl (RGD)

Visual

CSV

TAB

Printer

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

SBN/Ygl (MCW)

Visual

CSV

TAB

Printer

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

SBN/Ygl (RGD)

Visual

CSV

TAB

Printer

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

SHR/NHsd (RGD)

Visual

CSV

TAB

Printer

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

SHRSP/Gcrc (RGD)

Visual

CSV

TAB

Printer

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

SR/JrHsd (MCW)

Visual

CSV

TAB

Printer

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

SR/JrHsd (RGD)

Visual

CSV

TAB

Printer

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

SS/Jr (RGD)

Visual

CSV

TAB

Printer

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

SS/JrHsdMcwi (MCW)

Visual

CSV

TAB

Printer

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

SS/JrHsdMcwi (RGD)

Visual

CSV

TAB

Printer

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

WAG/Rij (RGD)

Visual

CSV

TAB

Printer

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

WKY/Gcrc (RGD)

Visual

CSV

TAB

Printer

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

WKY/N (MCW)

Visual

CSV

TAB

Printer

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

WKY/NCrl (RGD)

Visual

CSV

TAB

Printer

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

WKY/NHsd (RGD)

Visual

CSV

TAB

Printer

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

WN/N (MCW)

Visual

CSV

TAB

Printer

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1560177	AgrOrtholog
Ensembl Genes	ENSRNOG00000014153	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000019057	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000019057	ENTREZGENE, UniProtKB/Swiss-Prot
InterPro	LHFPL	UniProtKB/Swiss-Prot
KEGG Report	rno:499615	UniProtKB/Swiss-Prot
NCBI Gene	499615	ENTREZGENE
PANTHER	PTHR12489	UniProtKB/Swiss-Prot
Pfam	L_HMGIC_fpl	UniProtKB/Swiss-Prot
PhenoGen	Lhfpl6	PhenoGen
UniProt	LHPL6_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2017-07-05	Lhfpl6	LHFPL tetraspan subfamily member 6	Lhfp	lipoma HMGIC fusion partner	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2007-09-18	Lhfp	lipoma HMGIC fusion partner	RGD1560177_predicted	similar to RIKEN cDNA 2810489O06 (predicted)	Symbol and Name updated to reflect Human and Mouse nomenclature	1299863	APPROVED
2006-03-07	RGD1560177_predicted	similar to RIKEN cDNA 2810489O06 (predicted)	MGC109397	similar to RIKEN cDNA 2810489O06	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	MGC109397	similar to RIKEN cDNA 2810489O06			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)

Send us a Message

Imported Disease Annotations - CTD