Lasp1 (LIM and SH3 protein 1) - Rat Genome Database

Name: Lasp1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Lasp1 (LIM and SH3 protein 1) Rattus norvegicus

Analyze

Symbol:

Lasp1

Name:

LIM and SH3 protein 1

RGD ID:

68408

Description:

Enables ion transmembrane transporter activity. Involved in ion transport. Located in cortical actin cytoskeleton. Orthologous to human LASP1 (LIM and SH3 protein 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrotoluene; 2,4-dibromophenyl 2,4,5-tribromophenyl ether.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

LASP-1; LIM and SH3 domain protein 1

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):	LASP1 (LIM and SH3 protein 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Lasp1 (LIM and SH3 protein 1)	HGNC	Treefam, EggNOG, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Lasp1 (LIM and SH3 protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LASP1 (LIM and SH3 protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LASP1 (LIM and SH3 protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Lasp1 (LIM and SH3 protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LASP1 (LIM and SH3 protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LASP1 (LIM and SH3 protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Lasp1 (LIM and SH3 protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	LASP1 (LIM and SH3 protein 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Lasp1 (LIM and SH3 protein 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	lasp1 (LIM and SH3 protein 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	F42H10.3	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	Lasp	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|TreeFam)

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	10	82,795,177 - 82,835,659 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	10	82,795,137 - 82,943,292 (+)	Ensembl
Rnor_6.0	10	85,744,662 - 85,785,130 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	85,744,568 - 85,785,133 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	85,533,431 - 85,573,899 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	86,552,612 - 86,593,328 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	86,567,067 - 86,605,176 (+)	NCBI
Celera	10	81,549,996 - 81,590,495 (+)	NCBI		Celera
Cytogenetic Map	10	q31	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autistic disorder (ISO)

Endometrial Neoplasms (ISO)

hereditary breast ovarian cancer syndrome (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

2,4,6-trinitrotoluene (EXP)

2,4-dibromophenyl 2,4,5-tribromophenyl ether (EXP)

2,4-dinitrotoluene (EXP)

2-methylcholine (ISO)

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

4-hydroxyphenyl retinamide (ISO)

5-fluorouracil (ISO)

afimoxifene (ISO)

aflatoxin B1 (ISO)

aflatoxin B2 (ISO)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

aristolochic acid (ISO)

Aroclor 1254 (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP)

bisphenol F (ISO)

bleomycin A2 (EXP)

Brodifacoum (EXP)

cadmium atom (ISO)

calcium dichloride (ISO)

calycosin (ISO)

carbon nanotube (ISO)

chlordecone (ISO)

chloropicrin (ISO)

chrysene (ISO)

copper(II) sulfate (ISO)

cumene (ISO)

cyclophosphamide (EXP)

dexamethasone (ISO)

diarsenic trioxide (ISO)

dibutyl phthalate (ISO)

dioxygen (ISO)

doxorubicin (ISO)

ethanol (ISO)

flutamide (EXP)

folic acid (ISO)

fumonisin B1 (ISO)

furan (EXP)

gentamycin (EXP)

hydralazine (ISO)

hydrogen peroxide (ISO)

hydroquinone (ISO)

indometacin (ISO)

ivermectin (ISO)

lovastatin (ISO)

Methylazoxymethanol acetate (EXP)

methylphenidate (ISO)

miconazole (ISO)

microcystin (EXP)

naphthalene (ISO)

O-methyleugenol (ISO)

paracetamol (EXP,ISO)

pentachlorophenol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

perfluorooctanoic acid (ISO)

pirinixic acid (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

propiconazole (ISO)

sarin (EXP)

selenomethionine (ISO)

sunitinib (ISO)

tamibarotene (ISO)

testosterone (ISO)

tetrachloromethane (ISO)

tetraphene (ISO)

titanium dioxide (ISO)

triptonide (ISO)

valproic acid (ISO)

vorinostat (ISO)

warfarin (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

ion transmembrane transport (IEA)

ion transport (IDA)

Cellular Component

cortical actin cytoskeleton (IDA)

cytoplasm (ISO)

focal adhesion (IBA,ISO)

Molecular Function

actin filament binding (IBA,ISO)

ion transmembrane transporter activity (IDA)

metal ion binding (IEA)

protein binding (ISO)

References

References - curated


1.	Chew CS, etal., J Cell Sci. 2000 Jun;113 ( Pt 11):2035-45.
2.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	GOA data from the GO Consortium
4.	MGD data from the GO Consortium
5.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
6.	RGD automated data pipeline
7.	RGD automated import pipeline for gene-chemical interactions
8.	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data

Additional References at PubMed

PMID:12477932	PMID:15372503	PMID:15465019	PMID:19726686	PMID:21423176	PMID:22514729	PMID:23376485	PMID:24625528	PMID:25468996	PMID:25931508	PMID:28235806	PMID:29739492
PMID:32997597

Genomics

Comparative Map Data

Lasp1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	10	82,795,177 - 82,835,659 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	10	82,795,137 - 82,943,292 (+)	Ensembl
Rnor_6.0	10	85,744,662 - 85,785,130 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	85,744,568 - 85,785,133 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	85,533,431 - 85,573,899 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	86,552,612 - 86,593,328 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	86,567,067 - 86,605,176 (+)	NCBI
Celera	10	81,549,996 - 81,590,495 (+)	NCBI		Celera
Cytogenetic Map	10	q31	NCBI

LASP1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	17	38,869,859 - 38,921,770 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	17	38,870,058 - 38,921,770 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	17	37,026,311 - 37,078,023 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	34,279,894 - 34,331,541 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	17	34,279,893 - 34,331,541	NCBI
Celera	17	33,687,074 - 33,739,007 (+)	NCBI
Cytogenetic Map	17	q12	NCBI
HuRef	17	32,821,270 - 32,873,230 (+)	NCBI		HuRef
CHM1_1	17	37,261,377 - 37,313,322 (+)	NCBI		CHM1_1

Lasp1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	97,689,748 - 97,729,591 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	11	97,689,826 - 97,729,590 (+)	Ensembl
GRCm38	11	97,799,005 - 97,838,765 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	97,799,000 - 97,838,764 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	97,660,986 - 97,700,078 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	97,615,762 - 97,654,854 (+)	NCBI			mm8
Celera	11	107,449,132 - 107,487,995 (+)	NCBI		Celera
Cytogenetic Map	11	D	NCBI
cM Map	11	61.1	NCBI

Lasp1
(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_004955451	13,910,889 - 13,932,506 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955451	13,910,891 - 13,932,506 (+)	NCBI	ChiLan1.0	ChiLan1.0

LASP1
(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	17	18,623,071 - 18,674,731 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	17	18,623,071 - 18,674,731 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	17	18,350,002 - 18,401,693 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

LASP1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	9	23,345,226 - 23,397,058 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	9	23,347,881 - 23,396,945 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	9	22,816,905 - 22,868,891 (-)	NCBI
ROS_Cfam_1.0	9	24,139,876 - 24,191,899 (-)	NCBI
UMICH_Zoey_3.1	9	22,911,898 - 22,963,837 (-)	NCBI
UNSW_CanFamBas_1.0	9	23,172,943 - 23,224,901 (-)	NCBI
UU_Cfam_GSD_1.0	9	23,297,911 - 23,350,411 (-)	NCBI

Lasp1
(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_024405602	22,779,042 - 22,807,935 (-)	NCBI
SpeTri2.0	NW_004936490	14,267,185 - 14,296,114 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LASP1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	12	23,222,708 - 23,267,855 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	12	23,222,706 - 23,267,209 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

LASP1
(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	16	67,268,442 - 67,320,473 (-)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	16	67,267,940 - 67,320,373 (-)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666077	38,264,217 - 38,316,231 (-)	NCBI	Vero_WHO_p1.0

Lasp1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624795	3,842,244 - 3,868,208 (-)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

RH133294

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	82,835,291 - 82,835,493 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	85,784,763 - 85,784,964	NCBI	Rnor6.0
Rnor_5.0	10	85,573,532 - 85,573,733	UniSTS	Rnor5.0
RGSC_v3.4	10	86,592,963 - 86,593,164	UniSTS	RGSC3.4
Celera	10	81,590,130 - 81,590,331	UniSTS
RH 3.4 Map	10	878.09	UniSTS
Cytogenetic Map	10	q31	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
61427	Cia16	Collagen induced arthritis QTL 16	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	6357896	96121100	Rat
2303118	Mamtr7	Mammary tumor resistance QTL 7		0.003	mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	10	9658275	104670812	Rat
2301967	Cm73	Cardiac mass QTL 73	4.55		heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	10	14487011	89062041	Rat
631268	Cia21	Collagen induced arthritis QTL 21	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	14487011	104060283	Rat
2316949	Gluco60	Glucose level QTL 60	3.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	14487011	107057807	Rat
1554317	Bmd4	Bone mineral density QTL 4	9.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	10	19816042	99406971	Rat
724556	Pur2	Proteinuria QTL 2	5.5		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	10	22427500	90627625	Rat
61354	Pia10	Pristane induced arthritis QTL 10		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
631267	Cia20	Collagen induced arthritis QTL 20	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
61325	Aia5	Adjuvant induced arthritis QTL 5		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
1298069	Bp168	Blood pressure QTL 168	5.5		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	10	26521957	98003205	Rat
631542	Bp82	Blood pressure QTL 82	6.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	26521957	98952741	Rat
1331791	Cm31	Cardiac mass QTL 31	3.84606		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	29299504	107211142	Rat
1576308	Schws1	Schwannoma susceptibility QTL 1		0.0041	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	10	40035094	102359817	Rat
631269	Cia22	Collagen induced arthritis QTL 22	8.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	40035094	104060283	Rat
631270	Cia23	Collagen induced arthritis QTL 23	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	40035094	104060283	Rat
631552	Vetf2	Vascular elastic tissue fragility QTL 2	4.5	0.0002	aorta elastic tissue integrity trait (VT:0010556)	artery internal elastic lamina non-tumorous lesion count (CMO:0001913)	10	41142633	86142633	Rat
61463	Bp12	Blood pressure QTL 12	6.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	41333258	86333258	Rat
1298078	Stresp5	Stress response QTL 5	2.99	0.00025	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	10	42045676	104670812	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	42323132	87323132	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	42323132	87323132	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	42323132	87323132	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	1	42323132	87323132	Rat
70198	BpQTLcluster9	Blood pressure QTL cluster 9	2.94		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	42323132	87323132	Rat
9589030	Epfw9	Epididymal fat weight QTL 9	19.24	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	10	44441699	89441699	Rat
7411614	Foco18	Food consumption QTL 18		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	10	44441699	89441699	Rat
8694173	Bw149	Body weight QTL 149	4.38	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	10	44441699	89441699	Rat
2300218	Hpcl2	Hepatic cholesterol level QTL 2			liver cholesterol amount (VT:0010498)	liver cholesterol level (CMO:0001597)	10	45029650	95600334	Rat
631547	Bp87	Blood pressure QTL 87	4.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	47369470	92369470	Rat
1549846	Scl47	Serum cholesterol level QTL 47	3.6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	50574707	95574707	Rat
70364	Bp72	Blood pressure QTL 72			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	51121100	96121100	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	51770177	107211142	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	51770177	107211142	Rat
1359017	Hrtrt21	Heart rate QTL 21	2.4		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	10	51772940	96772940	Rat
631530	Tls3	T-lymphoma susceptibility QTL 3	0	0.0001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	10	51774612	95600334	Rat
631535	Cm51	Cardiac mass QTL 51	3		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	10	51786282	91669536	Rat
70171	Cari1	Carrageenan-induced inflammation QTL 1	4.9	0.0005	hypodermis integrity trait (VT:0010550)	inflammatory exudate volume (CMO:0001429)	10	53797385	107211142	Rat
70164	Bw21	Body weight QTL 21	4.36	0.00005	body mass (VT:0001259)	body weight (CMO:0000012)	10	53797494	98952626	Rat
1354608	Cm33	Cardiac mass QTL 33	2.8		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	10	54809292	99809292	Rat
2312662	Slep8	Serum leptin concentration QTL 8		0.05	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	10	57134272	102134272	Rat
2312668	Scl65	Serum cholesterol level QTL 65		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	57134272	102134272	Rat
2312672	Insul15	Insulin level QTL 15		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	10	57134272	102134272	Rat
1549831	Bss6	Bone structure and strength QTL 6	4		lumbar vertebra strength trait (VT:0010574)	vertebra ultimate force (CMO:0001678)	10	57576521	102576521	Rat
2293698	Bss43	Bone structure and strength QTL 43	5.33	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	10	59209888	104209888	Rat
2306970	Anxrr22	Anxiety related response QTL 22	5.95		fear/anxiety-related behavior trait (VT:1000241)	number of periods of voluntary immobility (CMO:0001045)	10	61345276	98211570	Rat
6893336	Cm75	Cardiac mass QTL 75	0.1	0.87	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	10	61345276	99703528	Rat
1558643	Cm44	Cardiac mass QTL 44	4.8	0.0000368	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	61345276	99703528	Rat
2313103	Bss80	Bone structure and strength QTL 80	2	0.0001	tibia strength trait (VT:1000284)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	10	62057807	107057807	Rat
2313105	Bss79	Bone structure and strength QTL 79	1.8	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	10	62057807	107057807	Rat
61449	Ciaa2	CIA Autoantibody QTL 2	7.1		blood autoantibody amount (VT:0003725)	calculated serum anti-type 2 collagen antibody titer (CMO:0001279)	10	63221094	107211142	Rat
1357344	Bp249	Blood pressure QTL 249		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	66743655	98003205	Rat
2317029	Aia19	Adjuvant induced arthritis QTL 19	2.98		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	10	66978955	107211142	Rat
2317039	Aia6	Adjuvant induced arthritis QTL 6	4.31		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	10	66978955	107211142	Rat
10450498	Bp384	Blood pressure QTL 384		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	67750049	107211142	Rat
1642980	Bp300	Blood pressure QTL 300			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	68383129	107211142	Rat
61396	Bp9	Blood pressure QTL 9	4.8	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	68420376	107211142	Rat
2300172	Bmd57	Bone mineral density QTL 57	9.8	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	10	69738412	107211142	Rat
2293646	Bss25	Bone structure and strength QTL 25	10.96	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	10	69738412	107211142	Rat
2293663	Bss33	Bone structure and strength QTL 33	9.34	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	10	69738412	107211142	Rat
6893366	Bw106	Body weight QTL 106	0.3	0.47	body mass (VT:0001259)	body weight (CMO:0000012)	10	70199100	107211142	Rat
70193	Mcs7	Mammary carcinoma susceptibility QTL 7	2.38		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	10	72224939	107211142	Rat
2298548	Neuinf7	Neuroinflammation QTL 7	3.4		nervous system integrity trait (VT:0010566)	spinal cord RT1-B protein level (CMO:0002132)	10	72224939	107211142	Rat
2306793	Ean5	Experimental allergic neuritis QTL 5	4.7		nervous system integrity trait (VT:0010566)	IFNG-secreting splenocyte count (CMO:0002122)	10	72552416	93995749	Rat
12880053	Cm104	Cardiac mass QTL 104		0.009	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	10	73452992	83463334	Rat
1358188	Ept9	Estrogen-induced pituitary tumorigenesis QTL 9	3.9		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	10	73453136	96120911	Rat
2292617	Ept18	Estrogen-induced pituitary tumorigenesis QTL 18	3.9		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	10	73453136	96120911	Rat
12880050	Am10	Aortic mass QTL 10		0.016	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	10	74372084	84007272	Rat
1579919	Bp281	Blood pressure QTL 281		0.01	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	74372084	94965338	Rat
631537	Oia4	Oil induced arthritis QTL 4			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	75631887	87055282	Rat
2325836	Bp346	Blood pressure QTL 346		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	84007272	Rat
10450495	Bp383	Blood pressure QTL 383		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	94965338	Rat
2292438	Bp311	Blood pressure QTL 311			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	107211142	Rat
1302404	Cia27	Collagen induced arthritis QTL 27	2.6	0.0045	joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	10	76452683	107211142	Rat
4889492	Pancm2	Pancreatic morphology QTL 2	3.2		pancreatic beta cell morphology trait (VT:0005217)	ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)	10	76748906	107211142	Rat
724516	Uae17	Urinary albumin excretion QTL 17	3.6		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	10	78210622	85220348	Rat
1300107	Rf18	Renal function QTL 18	3.41		urine output (VT:0003620)	timed urine volume (CMO:0000260)	10	78775516	98279596	Rat
1358915	Stresp7	Stress response QTL 7	3.52		blood norepinephrine amount (VT:0005663)	plasma norepinephrine level (CMO:0001010)	10	78899655	87307728	Rat
634354	Rends3	Renal damage susceptibility QTL 3		0.05	kidney blood vessel morphology trait (VT:0000530)	organ lesion measurement (CMO:0000677)	10	79813789	85160854	Rat
631555	Bp134	Blood pressure QTL 134		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	80515287	91230079	Rat
6893357	Bw102	Body weight QTL 102	0.5	0.36	body mass (VT:0001259)	body weight (CMO:0000012)	10	80515287	101325465	Rat
2303589	Bw87	Body weight QTL 87	2		body mass (VT:0001259)	body weight (CMO:0000012)	10	81285008	107211142	Rat
4889948	Bss91	Bone structure and strength QTL 91	4		tibia area (VT:1000281)	tibia midshaft total cross-sectional area (CMO:0001715)	10	82564856	92369470	Rat
2317754	Glom25	Glomerulus QTL 25	3.5		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	10	82685200	107211142	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	561
Count of miRNA genes:	245
Interacting mature miRNAs:	319
Transcripts:	ENSRNOT00000005522
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

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

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

Expression

RNA-SEQ Expression

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

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	41	57	41	19	41	4	6	74	35	37	11	4
Low		2					4	5			4		4
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_032613	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006247288	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017597169	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC134024	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF242187	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC099791	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473948	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000220	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000005522 ⟹ ENSRNOP00000005522

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	10	82,795,137 - 82,943,292 (+)	Ensembl
Rnor_6.0 Ensembl	10	85,744,568 - 85,785,133 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000102880 ⟹ ENSRNOP00000078535

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	10	82,795,237 - 82,835,564 (+)	Ensembl

RefSeq Acc Id:

NM_032613 ⟹ NP_116002

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	82,795,177 - 82,835,657 (+)	NCBI
Rnor_6.0	10	85,744,662 - 85,785,128 (+)	NCBI
Rnor_5.0	10	85,533,431 - 85,573,899 (+)	NCBI
RGSC_v3.4	10	86,552,612 - 86,593,328 (+)	RGD
Celera	10	81,549,996 - 81,590,495 (+)	RGD

Sequence:

show sequence

GCCGCCGCCTCCTCCTACCAGCTCGCCCAAGGAAAAGGGAACGCGCGCGAGCACGGGCGTTCCC
GCCCCAGTCTTTCCCCGGAACCATGAACCCTAACTGTGCCCGGTGCGGCAAAATCGTGTACCCC
ACGGAGAAGGTGAACTGTCTGGATAAGTTCTGGCATAAAGCATGCTTTCACTGCGAGACCTGCA
AGATGACTTTGAACATGAAGAACTACAAGGGTTACGAGAAGAAGCCTTACTGCAATGCACACTA
CCCCAAGCAGTCCTTCACCATGGTGGCCGACACTCCGGAGAACCTCCGCCTGAAGCAACAGAGC
GAGCTGCAGAGTCAGGTGCGTTACAAGGAGGAGTTTGAGAAGAACAAGGGCAAAGGCTTCAGTG
TGGTGGCAGACACGCCTGAACTGCAGAGAATCAAGAAGACCCAGGACCAGATCAGCAATATCAA
ATACCATGAGGAGTTTGAGAAGAGCCGCATGGGGCCCAGCGGAGGTGAAGGCATAGAGCCAGAG
CGCCGAGAAGCCCAGGACAGCAGCAGCTACCGGAGGCCCACGGAGCAGCAACAGCCACAGCCCC
ACCATATCCCGACCAGTGCCCCAGTTTACCAGCAGCCCCAACAGCAGCAGGTGACCCCGTCCTA
TGGTGGGTACAAGGAGCCAGCAGCCCCTGTCTCCATACAGCGCAGTGCCCCAGGTGGCGGCGGG
AAACGGTACCGTGCAGTGTATGACTACAGCGCTGCCGATGAGGACGAGGTCTCCTTCCAGGATG
GGGACACCATCGTCAATGTGCAGCAGATCGATGATGGCTGGATGTATGGGACCGTAGAGCGCAC
CGGTGACACGGGGATGCTGCCAGCCAACTATGTTGAGGCCATCTGAGCCCCGTGCTGCCCCACC
CTGTCTTCAATGCATTCCATGGCATCACATCTGTCCTGGGGCCTGACCCATCCACCCTTCAGTG
TCTCTGTCTCTTAAGATCTTCAACTGCTTCTTTATCCCCGCCCCTCCTCCAGCTTCCTTTGCCA
ACCTAAGCCTTGTTCTGCTCCTGTCGTGGGCTCCTTCCTCTGGCAGGTTTCCCTTGGACCAATC
AACTGATTGATTTTTCTCTCTGGATGGAACAGGCTGGGCACTCTGAGGAGGGCAGGATTGTTCT
GAGGAGGGTGGGATCACAGGGCTGGGCTGAAACGAGAGACCCATTAAGGAGATCGGTTAGACTG
GGTGTGGTGGCATACACCTTTAATCCCAGCAGAGGATTCATCCCAGCAAAGGGGGGAAGAGGCA
GGCAGATCTGTGACTTTGAAGCCAGTCTGGTCTACATCATGAGTTTCATGAGGGCCAGAGCTAT
GTAGTGAGACCCTGTCTCGAGGGAGGAGGGACTGGTTAGCTCTTAGCTTCACTTCCCACCTTAG
GCCCGTTGGAACCCCTGGCCCAGCTCCTCTGCACCCTTCTGCCTAGAGCTGGGGTGAGCTGCAT
ACTCCTCATCCCGCCAGGTGGGGCTCCACACATTCCCAGGGGGTGGGTGTTAAGGCCTCAGTTA
TGTAAAGAGCAATGTGATGGCCTTCCCCTAGTCCATCTCTCTGCCTCCTCAGGGCATCCAGGGG
AGGGCAGACTTTCTGCTTCAGGCTGAATCCCTGCCCCTCTGTTCCTTCACACACTGGAGTGTGC
CATTCTGCCCACACAAACCTAGGGCGGCCAAAGAGCTCCCCAGAAATCCCAGCTTGGGTCAGAT
TCTTGCCTTAGTTCTAGGGGCAGCAGCAGAAAGGAGGGAACGGGGTGTTCTCCTGGGCCCGATT
GCTTCCCTCCTCCCCCAGCCTCCTGGGACTCATTATCTCCCTGGCTGGGAGCCTGCTGTGAAGG
GTAGAGCAAGGGAAGCCTTTGGGACTTGACTGAGCTGTTTCTTCCTGCTCCGCTGGGGAAAGGT
CTCTGTGTCTCCTATGGCCTTCCTTCCCTGGAACAAGGCTGGACTAGCCTAGAGCTCTGCAGTG
ACAGAAAAATGGCAAGAGTTTTCTGGAGCACAGGAGGCCCTCCCACCTCCGCAGTGAGGTGGGA
GAAGGCTTCTGCGTTAGATGTGTGCTTTCCTGTCTTTGTGTCTGAGGCTACAGAGGGACCAAGT
CACCCACACACTGTGGCACCTCACCTGAGGCTCTTCTGTCCTTGGAGCAAAGGAGGGAGTCCAG
GGCTCCAAGGCTGGCGGCACCATCTCTGGGCTGGTGCTAAACTCAAGTTCCTCCTTTGCATCTG
GGGCCCGGGACAGTACTCACTCGATTTCATTCATCTCGGGCTTTTCTTGTCACTCCTCCTGGGT
CTCCTGACTCATCTTTACCCTGAGTGTGATGTCAGGTCCCTTTACATACTCAGACCCTGCTGCA
GGTGACCTTTGAACCTGAAGACCTTGGCCAGGCTAGCAGTGTGGTGTCATGAGGGCTTGCTAGA
GTAAACCATCTTCCTGCCTGGTCAATCCTTTTACCTCCGACCCTAGCCTGGGTGAAGGCAAGGA
GTGTTCTGGTGGGCAACATGGGGAGAACCTTGTAGGAGCATCTCAGGAGCTACTGGGGAGGTGC
CCCACCCACTCCACTTCTCCTTGATCTCAAAGCACAATGCGGTTCTGGGGACCAGGGTTCAGGG
GCGCTTGCTCTTGGAGGGCCTGTGTTCAGGAGGTGCTACAAGCCTCCTGGTTCCTCTCAGCTGA
GCCTCCCTTCCCAACATGTCAAGTCAGCTGCTCCTTTAGTGCCCTAGAACTGGGGGAGACTTTC
CCACACCTGCAGAGGGAAGAGGAACTACCAAAGGTGCTGAGGGCCCCAAGCCTGCTGGAGTCCA
TACTTTTCCAGAAGCATCCAACCCTAGAAGAGCACAGAATCCCCAAGCCCATGGTCTCTTCCTT
TGTAAAGGTCTTTTCAGCCAATCAAAACCCAGGAAAGAGGGCGCCTTGGCTAGACTGTGAACTT
AACTTTTGTGGACCAATCCTGTAGCGCAAGAAGCCCCGTGGTGAGGAGCATGAGTTCTTCCCAT
GCTGCTTCCTGTCCCCTCCTCATGTCCCTCCAGGGAACATTTCATTTCCTAATAGCTGGACACA
AGACAAAAAGAACCACCCCACAGAGCCTGTATTTAAACAGAAACAGAAGTGACCCTGTGAAGTC
CACCTCTGTCTAACATTTCATCCGTGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTGTG
AAGCCACCACTCATCTTTTATATCGGATTGTCATCTTTCTTTGGTCTGTTTGGTCCCCTCCCTC
CTGGCCTTGTGCTTGGGATCAATTCTTTCTGGCCTGTTATGATTTTTGAACATTGACTTGAACC
ACAAAGTGAATCTTTATCCTGGTGACTCAAATAAAAGTATAATTTTTACCTGCGAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006247288 ⟹ XP_006247350

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	82,795,784 - 82,835,659 (+)	NCBI
Rnor_6.0	10	85,745,258 - 85,785,130 (+)	NCBI
Rnor_5.0	10	85,533,431 - 85,573,899 (+)	NCBI

Sequence:

show sequence

CTACCCGCTCGGCTTGGGCTGCTGGTAGCCTGGCTTCCTGGCTTGGAAGCTGCTTCGGGTCTTT
GGTCTAGCGAGTGTCAATTGAGTTCTGGCATAAAGCATGCTTTCACTGCGAGACCTGCAAGATG
ACTTTGAACATGAAGAACTACAAGGGTTACGAGAAGAAGCCTTACTGCAATGCACACTACCCCA
AGCAGTCCTTCACCATGGTGGCCGACACTCCGGAGAACCTCCGCCTGAAGCAACAGAGCGAGCT
GCAGAGTCAGGTGCGTTACAAGGAGGAGTTTGAGAAGAACAAGGGCAAAGGCTTCAGTGTGGTG
GCAGACACGCCTGAACTGCAGAGAATCAAGAAGACCCAGGACCAGATCAGCAATATCAAATACC
ATGAGGAGTTTGAGAAGAGCCGCATGGGGCCCAGCGGAGGTGAAGGCATAGAGCCAGAGCGCCG
AGAAGCCCAGGACAGCAGCAGCTACCGGAGGCCCACGGAGCAGCAACAGCCACAGCCCCACCAT
ATCCCGACCAGTGCCCCAGTTTACCAGCAGCCCCAACAGCAGCAGGTGACCCCGTCCTATGGTG
GGTACAAGGAGCCAGCAGCCCCTGTCTCCATACAGCGCAGTGCCCCAGGTGGCGGCGGGAAACG
GTACCGTGCAGTGTATGACTACAGCGCTGCCGATGAGGACGAGGTCTCCTTCCAGGATGGGGAC
ACCATCGTCAATGTGCAGCAGATCGATGATGGCTGGATGTATGGGACCGTAGAGCGCACCGGTG
ACACGGGGATGCTGCCAGCCAACTATGTTGAGGCCATCTGAGCCCCGTGCTGCCCCACCCTGTC
TTCAATGCATTCCATGGCATCACATCTGTCCTGGGGCCTGACCCATCCACCCTTCAGTGTCTCT
GTCTCTTAAGATCTTCAACTGCTTCTTTATCCCCGCCCCTCCTCCAGCTTCCTTTGCCAACCTA
AGCCTTGTTCTGCTCCTGTCGTGGGCTCCTTCCTCTGGCAGGTTTCCCTTGGACCAATCAACTG
ATTGATTTTTCTCTCTGGATGGAACAGGCTGGGCACTCTGAGGAGGGCAGGATTGTTCTGAGGA
GGGTGGGATCACAGGGCTGGGCTGAAACGAGAGACCCATTAAGGAGATCGGTTAGACTGGGTGT
GGTGGCATACACCTTTAATCCCAGCAGAGGATTCATCCCAGCAAAGGGGGGAAGAGGCAGGCAG
ATCTGTGACTTTGAAGCCAGTCTGGTCTACATCATGAGTTTCATGACGGCCAGAGCTATGTAGT
GAGACCCTGTCTCGAGGGAGGAGGGACTGGTTAGCTCTTAGCTTCACTTCCCACCTTAGGCCCG
TTGGAACCCCTGGCCCAGCTCCTCTGCACCCTTCTGCCTAGAGCTGGGGTGAGCTGCATACTCC
TCATCCCACCAGGTGGGGCTCCACACATTCCCAGGGGGTGGGTGTTAAGGCCTCAGTTATGTAA
AGAGCAATGTGATGGCCTTCCCCTAGTCCATCTCTCTGCCTCCTCAGGGCATCCAGGGGAGGGC
AGACTTTCTGCTTCAGGCTGAATCCCTGCCCCTCTGTTCCTTCACACACTGGAGTGTGCCATTC
TGCCCACACAAACCTAGGGCGGCCAAAGAGCTCCCCAGAAATCCCAGCTTGGGTCAGATTCTTG
CCTTAGTTCTAGGGGCAGCAGCAGAAAGGAGGGAACGGGGTGTTCTCCTGGGCCCGATTGCTTC
CCTCCTCCCCCAGCCTCCTGGGACTCATTATCTCCCTGGCTGGGAGCCTGCTGTGAAGGGTAGA
GCAAGGGAAGCCTTTGGGACTTGACTGAGCTGTTTCTTCCTGCTCCGCTGGGGAAAGGTCTCTG
TGTCTCCTATGGCCTTCCTTCCCTGGAACAAGGCTGGACTAGCCTAGAGCTCTGCAGTGACAGA
AAAATGGCAAGAGTTTTCTGGAGCACAGGAGGCCCTCCCACCTCCGCAGTGAGGTGGGAGAAGG
CTTCTGCGTTAGATGTGTGCTTTCCTGTCTTTGTGTCTGAGGCTACAGAGGGACCAAGTCACCC
ACACACTGTGGCACCTCACCTGAGGCTCTTCTGTCCTTGGAGCAAAGGAGGGAGTCCAGGGCTC
CAAGGCTGGCGGCACCATCTCTGGGCTGGTGCTAAACTCAAGTTCCTCCTTTGCATCTGGGGCC
CGGGACAGTACTCACTCGATTTCATTCATCTCGGGCTTTTCTTGTCACTCCTCCTGGGTCTCCT
GACTCATCTTTACCCTGAGTGTGATGTCAGGTCCCTTTACATACTCAGACCCTGCTGCAGGTGA
CCTTTGAACCTGAAGACCTTGGCCAGGCTAGCAGTGTGGTGTCATGAGGGCTTGCTAGAGTAAA
CCATCTTCCTGCCTGGTCAATCCTTTTACCTCCGACCCTAGCCTGGGTGAAGGCAAGGAGTGTT
CTGGTGGGCAACATGGGGAGAACCTTGTAGGAGCATCTCAGGAGCTACTGGGGAGGTGCCCCAC
CCACTCCACTTCCCCTTGATCTCAAAGCACAATGCGGTTCTGGGGACCAGGGTTCAGGGGCGCT
TGCTCTTGGAGGGCCTGTGTTCAGGAGGTGCTACAAGCCTCCTGGTTCCTCTCAGCTGAGCCTC
CCTTCCCAACATGTCAAGTCAGCTGCTCCTTTAGTGCCCTAGAACTGGGGGAGACTTTCCCACA
CCTGCAGAGGGAAGAGGAACTACCAAAGGTGCTGAGGGCCCCAAGCCTGCTGGAGTCCATACTT
TTCCAGAAGCATCCAACCCTAGAAGAGCACAGAATCCCCAAGCCCATGGTCTCTTCCTTTGTAA
AGGTCTTTTCAGCCAATCAAAACCCAGGAAAGAGGGCGCCTTGGCTAGACTGTGAACTTAACTT
TTGTGGACCAATCCTGTAGCGCAAGAAGCCCCGTGGTGAGGAGCATGAGTTCTTCCCATGCTGC
TTCCTGTCCCCTCCTCATGTCCCTCCAGGGAACATTTCATTTCCTAATAGCTGGACACAAGACA
AAAAGAACCACCCCACAGAGCCTGTATTTAAACAGAAACAGAAGTGACCCTGTGAAGTCCACCT
CTGTCTAACATTTCATCCGTGTTTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
GTGTGTGCGTGTGAAGCCACCACTCATCTTTTATATCGGATTGTCATCTTTCTTTGGTCTGTTT
GGTCCCCTCCCTCCTGGCCTTGTGCTTGGGATCAATTCTTTCTGGCCTGTTATGATTTTTGAAC
ATTGACTTGAACCACAAAGTGAATCTTTATCCTGGTGACTCAAATAAAAGTATAATTTTTACCT
GCGGA

hide sequence

Protein Sequences


Protein RefSeqs	NP_116002	(Get FASTA)	NCBI Sequence Viewer
	XP_006247350	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH99791	(Get FASTA)	NCBI Sequence Viewer
	AAK28338	(Get FASTA)	NCBI Sequence Viewer
	EDM05885	(Get FASTA)	NCBI Sequence Viewer
	EDM05886	(Get FASTA)	NCBI Sequence Viewer
	EDM05887	(Get FASTA)	NCBI Sequence Viewer
	EDM05888	(Get FASTA)	NCBI Sequence Viewer
	EDM05889	(Get FASTA)	NCBI Sequence Viewer
	EDM05890	(Get FASTA)	NCBI Sequence Viewer
	EDM05891	(Get FASTA)	NCBI Sequence Viewer
	EDM05892	(Get FASTA)	NCBI Sequence Viewer
	Q99MZ8	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_116002 ⟸ NM_032613

- UniProtKB:

Q99MZ8 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MNPNCARCGKIVYPTEKVNCLDKFWHKACFHCETCKMTLNMKNYKGYEKKPYCNAHYPKQSFTM
VADTPENLRLKQQSELQSQVRYKEEFEKNKGKGFSVVADTPELQRIKKTQDQISNIKYHEEFEK
SRMGPSGGEGIEPERREAQDSSSYRRPTEQQQPQPHHIPTSAPVYQQPQQQQVTPSYGGYKEPA
APVSIQRSAPGGGGKRYRAVYDYSAADEDEVSFQDGDTIVNVQQIDDGWMYGTVERTGDTGMLP
ANYVEAI

hide sequence

RefSeq Acc Id:

XP_006247350 ⟸ XM_006247288

- Peptide Label:

isoform X1

- Sequence:

show sequence

MTLNMKNYKGYEKKPYCNAHYPKQSFTMVADTPENLRLKQQSELQSQVRYKEEFEKNKGKGFSV
VADTPELQRIKKTQDQISNIKYHEEFEKSRMGPSGGEGIEPERREAQDSSSYRRPTEQQQPQPH
HIPTSAPVYQQPQQQQVTPSYGGYKEPAAPVSIQRSAPGGGGKRYRAVYDYSAADEDEVSFQDG
DTIVNVQQIDDGWMYGTVERTGDTGMLPANYVEAI

hide sequence

RefSeq Acc Id:

ENSRNOP00000005522 ⟸ ENSRNOT00000005522

RefSeq Acc Id:

ENSRNOP00000078535 ⟸ ENSRNOT00000102880

Protein Domains

LIM zinc-binding SH3

Transcriptome

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

Promoters

RGD ID:

13697651

Promoter ID:

EPDNEW_R8176

Type:

initiation region

Name:

Lasp1_1

Description:

LIM and SH3 protein 1

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	10	85,744,620 - 85,744,680	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (2019)

Visual

CSV

TAB

Printer

Sequenced By:	MCW
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/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)

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

ACI/N (2020)

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Sequenced By:	MCW
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

ACI/N (MCW)

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

BBDP/Wor (RGD)

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

BN-Lx/CubMcwi (2019)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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/SsN (MCW)

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

BUF/N (2020)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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

Buf/N (MCW)

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

COP/CrCrl (MCW & UW)

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

DA/OlaHsd (2019)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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/NCrl (RGD)

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

F344/NRrrc (MCW)

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

F344/Stm (2019)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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

FHH/EurMcwi (MCW)

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

FHH/EurMcwi (RGD)

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

FHL/EurMcwi (MCW)

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

FHL/EurMcwi (RGD)

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

FXLE16/Stm (2020)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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

GH/OmrMcwi (MCW)

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

GK/FarMcwi (2019)

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Sequenced By:	MCW
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

GK/Ox (RGD)

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

HXB10/IpcvMcwi (2019)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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

LE/Stm (RGD)

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

LEW/Crl (2019)

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Sequenced By:	MCW
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

LEW/Crl (RGD)

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

LEW/NCrlBR (RGD)

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

LEXF10A/StmMcwi (2020)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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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Sequenced By:	MCW
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/MavRrrc (RGD)

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

LH/MavRrrcAek (2020)

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Sequenced By:	MCW
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/MavRrrc (RGD)

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

LL/MavRrrcAek (2020)

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Sequenced By:	MCW
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/MavRrrc (RGD)

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

LN/MavRrrcAek (2020)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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/N (MCW)

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

M520/NRrrcMcwi (2019)

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Sequenced By:	MCW
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

MHS/Gib (RGD)

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

MNS/Gib (RGD)

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

MR/N (2020)

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Sequenced By:	MCW
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

MR/N (MCW)

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

MWF/Hsd (2019)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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

SBH/Ygl (MCW)

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

SBH/Ygl (RGD)

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

SBN/Ygl (MCW)

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

SBN/Ygl (RGD)

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

SHR/NHsd (RGD)

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

SHR/OlalpcvMcwi (2019)

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Sequenced By:	MCW
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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Sequenced By:	MCW
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

SHRSP/Gcrc (RGD)

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

SR/JrHsd (2020)

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Sequenced By:	MCW
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

SR/JrHsd (MCW)

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

SR/JrHsd (RGD)

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

SS/Jr (RGD)

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

SS/JrHsdMcwi (2019)

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Sequenced By:	MCW
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

SS/JrHsdMcwi (MCW)

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

SS/JrHsdMcwi (RGD)

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

WAG/Rij (RGD)

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

WAG/RijCrl (2020)

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Sequenced By:	MCW
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/Gcrc (RGD)

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

WKY/N (2020)

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Sequenced By:	MCW
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/N (MCW)

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

WKY/NCrl (2019)

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Sequenced By:	MCW
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/NCrl (RGD)

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

WKY/NHsd (RGD)

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

WN/N (2020)

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Sequenced By:	MCW
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

WN/N (MCW)

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:68408	AgrOrtholog
Ensembl Genes	ENSRNOG00000004132	Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000005522	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000005522	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7934892	IMAGE-MGC_LOAD
InterPro	Lasp1_SH3	UniProtKB/Swiss-Prot
	Nebulin_repeat	UniProtKB/Swiss-Prot
	SH3-like_dom_sf	UniProtKB/Swiss-Prot
	SH3_domain	UniProtKB/Swiss-Prot
	Znf_LIM	UniProtKB/Swiss-Prot
KEGG Report	rno:29278	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:124593	IMAGE-MGC_LOAD
NCBI Gene	29278	ENTREZGENE
Pfam	LIM	UniProtKB/Swiss-Prot
	Nebulin	UniProtKB/Swiss-Prot
	SH3_9	UniProtKB/Swiss-Prot
PhenoGen	Lasp1	PhenoGen
PRINTS	SH3DOMAIN	UniProtKB/Swiss-Prot
PROSITE	LIM_DOMAIN_1	UniProtKB/Swiss-Prot
	LIM_DOMAIN_2	UniProtKB/Swiss-Prot
	NEBULIN	UniProtKB/Swiss-Prot
	SH3	UniProtKB/Swiss-Prot
SMART	LIM	UniProtKB/Swiss-Prot
	NEBU	UniProtKB/Swiss-Prot
	SH3	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF50044	UniProtKB/Swiss-Prot
TIGR	TC216636
UniProt	LASP1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary	Q499R9	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2002-06-10	Lasp1	LIM and SH3 protein 1			Name updated	70584	APPROVED

RGD Curation Notes

Note Type	Note	Reference

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD