Pxylp1 (2-phosphoxylose phosphatase 1)

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Gene: Pxylp1 (2-phosphoxylose phosphatase 1) Rattus norvegicus

Analyze

Symbol:

Pxylp1

Name:

2-phosphoxylose phosphatase 1

RGD ID:

1359617

Description:

Predicted to have phosphatase activity. Predicted to be involved in several processes, including chondroitin sulfate proteoglycan biosynthetic process; glycosaminoglycan biosynthetic process; and positive regulation of heparan sulfate proteoglycan biosynthetic process. Predicted to localize to Golgi apparatus. Orthologous to human PXYLP1 (2-phosphoxylose phosphatase 1); INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

acid phosphatase-like 2; acid phosphatase-like protein 2; Acpl2; MGC94167; similar to RIKEN cDNA C130099A20

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):	PXYLP1 (2-phosphoxylose phosphatase 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Pxylp1 (2-phosphoxylose phosphatase 1)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Pxylp1 (2-phosphoxylose phosphatase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PXYLP1 (2-phosphoxylose phosphatase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PXYLP1 (2-phosphoxylose phosphatase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Pxylp1 (2-phosphoxylose phosphatase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PXYLP1 (2-phosphoxylose phosphatase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	PXYLP1 (2-phosphoxylose phosphatase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Pxylp1 (2-phosphoxylose phosphatase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	PXYLP1 (2-phosphoxylose phosphatase 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Pxylp1 (2-phosphoxylose phosphatase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	pxylp1 (2-phosphoxylose phosphatase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	CG15385	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	ZK792.1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB)
Caenorhabditis elegans (roundworm):	ZK809.9	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|TreeFam)

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	8	97,419,766 - 97,485,163 (-)	NCBI
Rnor_6.0 Ensembl	8	104,724,743 - 104,790,639 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	104,724,728 - 104,790,639 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	104,171,280 - 104,237,228 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	101,917,842 - 101,983,158 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	8	101,937,297 - 102,002,613 (-)	NCBI
Celera	8	96,861,823 - 96,926,746 (-)	NCBI		Celera
Cytogenetic Map	8	q31	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (EXP)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

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

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

3-methylcholanthrene (ISO)

4-amino-2,6-dinitrotoluene (EXP)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

8-Br-cAMP (ISO)

aflatoxin B1 (ISO)

amphetamine (EXP)

antirheumatic drug (ISO)

azathioprine (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

Benzo[k]fluoranthene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

chloroprene (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

diazinon (ISO)

dibutyl phthalate (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

ethyl methanesulfonate (ISO)

formaldehyde (ISO)

glafenine (EXP)

indometacin (ISO)

lead diacetate (ISO)

menadione (ISO)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

nickel sulfate (ISO)

paracetamol (EXP,ISO)

PCB138 (ISO)

phenobarbital (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

quercetin (ISO)

SB 431542 (ISO)

serpentine asbestos (ISO)

sulforaphane (ISO)

sunitinib (ISO)

testosterone (EXP)

tetrachloromethane (EXP,ISO)

titanium dioxide (ISO)

trichostatin A (ISO)

triphenyl phosphate (EXP)

triptonide (ISO)

urethane (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chondroitin sulfate proteoglycan biosynthetic process (IBA,ISO,ISS)

dephosphorylation (IBA)

glycosaminoglycan biosynthetic process (IBA,ISO,ISS)

positive regulation of heparan sulfate proteoglycan biosynthetic process (ISO,ISS)

Cellular Component

Golgi apparatus (IBA,ISO,ISS)

Golgi membrane (IEA)

integral component of membrane (IEA)

Molecular Function

phosphatase activity (IBA,ISO,ISS)

protein binding (ISO)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	JRS Domain-based curation
3.	RGD automated data pipeline
4.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	RGD automated import pipeline for gene-chemical interactions
6.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:24425863

Genomics

Comparative Map Data

Pxylp1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	8	97,419,766 - 97,485,163 (-)	NCBI
Rnor_6.0 Ensembl	8	104,724,743 - 104,790,639 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	104,724,728 - 104,790,639 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	104,171,280 - 104,237,228 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	101,917,842 - 101,983,158 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	8	101,937,297 - 102,002,613 (-)	NCBI
Celera	8	96,861,823 - 96,926,746 (-)	NCBI		Celera
Cytogenetic Map	8	q31	NCBI

PXYLP1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	3	141,228,726 - 141,367,753 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	3	141,231,825 - 141,294,924 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	3	140,950,667 - 141,013,766 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	142,433,372 - 142,496,176 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	3	142,433,400 - 142,496,173	NCBI
Celera	3	139,374,122 - 139,436,924 (+)	NCBI
Cytogenetic Map	3	q23	NCBI
HuRef	3	138,325,840 - 138,388,459 (+)	NCBI		HuRef
CHM1_1	3	140,913,639 - 140,976,549 (+)	NCBI		CHM1_1

Pxylp1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	96,705,396 - 96,774,732 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	9	96,705,389 - 96,774,722 (-)	Ensembl
GRCm38	9	96,823,336 - 96,892,688 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	96,823,336 - 96,892,669 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	96,723,762 - 96,789,841 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	9	96,632,695 - 96,698,774 (-)	NCBI			mm8
Celera	9	96,382,737 - 96,449,124 (-)	NCBI		Celera
Cytogenetic Map	9	E3.3	NCBI

Pxylp1
(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_004955508	4,390,455 - 4,449,782 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955508	4,390,647 - 4,449,782 (-)	NCBI	ChiLan1.0	ChiLan1.0

PXYLP1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	3	145,862,427 - 145,925,073 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	145,864,356 - 145,925,073 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	138,264,529 - 138,327,615 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

PXYLP1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	23	37,145,065 - 37,197,808 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	23	37,145,086 - 37,196,427 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	23	37,118,960 - 37,191,465 (+)	NCBI
ROS_Cfam_1.0	23	37,656,780 - 37,729,280 (+)	NCBI
UMICH_Zoey_3.1	23	37,339,109 - 37,411,612 (+)	NCBI
UNSW_CanFamBas_1.0	23	37,417,071 - 37,489,492 (+)	NCBI
UU_Cfam_GSD_1.0	23	37,659,659 - 37,732,146 (+)	NCBI

Pxylp1
(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	76,335,793 - 76,393,785 (+)	NCBI
SpeTri2.0	NW_004936540	3,075,618 - 3,133,554 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PXYLP1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	81,970,447 - 82,046,032 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	81,951,336 - 82,049,385 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	89,793,696 - 89,886,110 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PXYLP1
(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	15	49,307,124 - 49,369,961 (-)	NCBI
ChlSab1.1 Ensembl	15	49,306,714 - 49,341,565 (-)	Ensembl

Pxylp1
(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_004624730	17,845,818 - 17,928,021 (+)	NCBI

Position Markers

RH135344

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	8	104,762,963 - 104,763,155	NCBI	Rnor6.0
Rnor_5.0	8	104,209,522 - 104,209,714	UniSTS	Rnor5.0
RGSC_v3.4	8	101,956,075 - 101,956,267	UniSTS	RGSC3.4
Celera	8	96,899,656 - 96,899,848	UniSTS
RH 3.4 Map	8	1058.5	UniSTS
Cytogenetic Map	8	q31	UniSTS

RH137269

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	8	104,724,798 - 104,725,017	NCBI	Rnor6.0
Rnor_5.0	8	104,171,350 - 104,171,569	UniSTS	Rnor5.0
RGSC_v3.4	8	101,917,898 - 101,918,117	UniSTS	RGSC3.4
Celera	8	96,861,879 - 96,862,098	UniSTS
RH 3.4 Map	8	1058.5	UniSTS
Cytogenetic Map	8	q31	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
1581557	Eae16	Experimental allergic encephalomyelitis QTL 16	3.8		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	8	9531047	119211942	Rat
631650	Stl6	Serum triglyceride level QTL 6	4	0.0019	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	8	10938911	120496129	Rat
1358892	Kidm26	Kidney mass QTL 26	3.69		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	29867983	106526740	Rat
1358896	Bp262	Blood pressure QTL 262	2.89		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	29867983	106526740	Rat
1358907	Cm40	Cardiac mass QTL 40	1.89		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	29867983	106526740	Rat
8662823	Vetf5	Vascular elastic tissue fragility QTL 5	1.9		artery integrity trait (VT:0010639)	patent ductus arteriosus score (CMO:0002566)	8	30918112	107206309	Rat
1578765	Klgr1	Kidney lesion grade QTL 1	3.3	0.0001	kidney morphology trait (VT:0002135)	organ lesion measurement (CMO:0000677)	8	33558660	109028082	Rat
1578769	Uae31	Urinary albumin excretion QTL 31	3.3	0.001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	8	33558660	109028082	Rat
1578755	Pur5	Proteinuria QTL 5	3.3	0.0001	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	8	33558660	109028082	Rat
2316950	Scl66	Serum cholesterol level QTL 66	4.1		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	8	33558764	113580387	Rat
1331838	Niddm61	Non-insulin dependent diabetes mellitus QTL 61	3.53	0.0004	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	8	39230130	106506973	Rat
1554321	Bmd3	Bone mineral density QTL 3	7.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	44458129	118087517	Rat
12879882	Am8	Aortic mass QTL 8		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	8	47200750	106394378	Rat
12879878	Bw183	Body weight QTL 183		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	8	47200750	106394378	Rat
12879879	Cm99	Cardiac mass QTL 99		0.001	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	47200750	106394378	Rat
12879880	Cm100	Cardiac mass QTL 100		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	8	47200750	106394378	Rat
12879881	Cm101	Cardiac mass QTL 101		0.001	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	8	47200750	106394378	Rat
12879883	Kidm65	Kidney mass QTL 65		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	47200750	106394378	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	50529480	128036471	Rat
1331837	Bw23	Body weight QTL 23	4.19	0.00007	body mass (VT:0001259)	body weight (CMO:0000012)	8	50529563	106506973	Rat
1358912	Bw51	Body weight QTL 51	2.95		body mass (VT:0001259)	body weight (CMO:0000012)	8	55435004	115812386	Rat
2293697	Bmd39	Bone mineral density QTL 39			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	8	58230766	106394378	Rat
631664	Hcar3	Hepatocarcinoma resistance QTL 3	2.9	0.0005	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	8	58425510	106526740	Rat
1300177	Cm2	Cardiac mass QTL 2	3.65		heart mass (VT:0007028)	heart weight (CMO:0000017)	8	59234112	108068306	Rat
2301402	Bp316	Blood pressure QTL 316		0.005	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	61394378	106394378	Rat
10402857	Bp380	Blood pressure QTL 380		0.95	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	61394378	106394378	Rat
2303171	Bp331	Blood pressure QTL 331	5.57	0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	65717449	128033050	Rat
631653	Bp125	Blood pressure QTL 125	3.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	72849686	117849686	Rat
631210	Bw3	Body weight QTL3	5.9		mesenteric fat pad mass (VT:0010427)	mesenteric fat pad weight as a percentage of body weight (CMO:0000654)	8	74917593	121080545	Rat
1300171	Bp184	Blood pressure QTL 184	3.66		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	8	76103982	127182642	Rat
9590292	Uminl3	Urine mineral level QTL 3	3.62	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	8	78805083	123805083	Rat
8694446	Bw170	Body weight QTL 170	12.07	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	8	78805083	123805083	Rat
8694200	Abfw4	Abdominal fat weight QTL 4	9.07	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	8	78805083	123805083	Rat
8694392	Bw161	Body weight QTL 161	8.06	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	8	78805083	123805083	Rat
1549909	Stresp11	Stress response QTL 11	6.83	0.0019	stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	8	80697934	125697934	Rat
2300181	Bmd55	Bone mineral density QTL 55	5.7	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	83894304	128894304	Rat
61437	Cia6	Collagen induced arthritis QTL 6			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	8	89058229	132243842	Rat
8693654	Alc32	Alcohol consumption QTL 32	2	0.755	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	8	95319530	115625029	Rat
2313400	Anxrr25	Anxiety related response QTL 25			aggression-related behavior trait (VT:0015014)	tameness/aggressiveness composite score (CMO:0002136)	8	95963141	122354314	Rat
1358893	Bp263	Blood pressure QTL 263	5.01		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	100873811	133307652	Rat
1358903	Bp252	Blood pressure QTL 252	7	0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	100873811	133307652	Rat
738011	Anxrr9	Anxiety related response QTL 9	6.1		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	8	102051964	133307652	Rat
738014	Anxrr15	Anxiety related response QTL 15	3.6	0.005	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	8	104682575	133307652	Rat
2300182	Bmd56	Bone mineral density QTL 56	5.4		femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	104682575	133307652	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	320
Count of miRNA genes:	204
Interacting mature miRNAs:	251
Transcripts:	ENSRNOT00000017085
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	31	22	14	19	14			73	34	40	10
Low		12	35	27		27	8	11	1	1	1	1	8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001007710	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006243591	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006243592	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017595678	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039081543	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005487842	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC081981	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473954	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218225	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000200	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000017085 ⟹ ENSRNOP00000017085

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	8	104,724,743 - 104,790,639 (-)	Ensembl

RefSeq Acc Id:

NM_001007710 ⟹ NP_001007711

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	97,419,773 - 97,485,075 (-)	NCBI
Rnor_6.0	8	104,724,742 - 104,790,639 (-)	NCBI
Rnor_5.0	8	104,171,280 - 104,237,228 (-)	NCBI
RGSC_v3.4	8	101,917,842 - 101,983,158 (-)	RGD
Celera	8	96,861,823 - 96,926,746 (-)	RGD

Sequence:

show sequence

CGGAGAACCCTACGCAGAGCAACGGAGGCCCGGACCGTAGGCGGACAGGCTCCGGATTAGAGGT
GAAACCATGAAGAGAACGTAGAACACGCAATAATGCTTTACCGCAATCGCTTCTTGGTGCTGCT
GGCCCTGGCTGGGCTGCTGGCTTTCCTGAGCCTCAGCCTGCAGTTCTTTCATCTGATCCCAGTG
TCCACCACAAAGAATGGCGGAAGCAGCAAGAGCCGGAAGAGGATCATGCCTGACCCAGTGACAG
AGCCCCCCACGGTAGACCCGGTCTATGAAGCTCTTCTGTACTGCAACATTCCGAGTGTAGCCGA
GCACAGCATGGAAGGTCATGCCCCGCATCATTATAAGCTGGTCTCCGTTCACGTGTTCATCCGC
CATGGGGACAGGTACCCACTGTATGCCATTCCCAAAACGAAGCGGCCAGAAATCGACTGCACTC
TAGTGGCCAGCAGGAAGCCATATCACCCTAAACTGGAAGCTTTCGTTGGTCACATGCTGAAAGG
TTCCGGAGCCTCTTTTGAAAGCCCCTTAGGTTCCCTGCCTCTCTATCCTAACCATCCTCTGTGT
GAGATGGGGGAGCTCACGCAGACAGGAGTCGTGCAGCATCTGCAGAATGGCCAGCTGCTGAGGG
ACATCTATCTGAGGAAACACAAGCTTCTGCCGAACAACTGGTCCTCAGACCAGCTTTACCTAGA
GACCACGGGGAAGAGCCGCACCCTGCAGAGTGGGCTAGCCTTGCTCTATGGCTTCCTCCCAGAG
TTCGACTGGAAGAAGGTCTACTTCAAGCACCAACCAAGTGCTCTGTTCTGCTCTGGAAGCTGCT
ACTGCCCGCTAAGAAACCAGTATCTGGAGAAGGAACAGCGACGCCAGTACCTGCTCCGTCTGAA
GAACAGCGACCTAGAGAGGACCTACGGGGAGATGGCCAAGATCGTGGACATCCCCACCAAGCAG
CTCCGGGCGGCCAACCCCATCGACTCCATGCTCTGCCACTTCTGCCACAATGTCAGCTTCCCCT
GCAGCAGAAGTGGCTGCCTTGGCATGGAGCACTTTAAGGTGATCAAGACGCACCAGATAGAGGA
TGAGCGAGAGAGGCACGAGAAGCTCCTGTACTTTGGGTACTCCCTCCTCGGGGCCCACCCCATC
CTGAATCAGACGGTTAACCGGATGCAGCGCGCTGCCTTGGGCTGGAGGGACGAGCTGTTCACCC
TCTACTCTGCTCACGACGTCACCCTGTCACCCATCCTCAGTGCCTTGGGTCTTTTGGAAGCCAG
GTTCCCAAGGTTTGCTGCCAGGCTGGTTTTTGAGCTCTGGCAAGACCGTCAAAAGCCCAGCGAG
CATTCCGTCCGGATTCTTTATAATGGGGCTGACGTCACCTTCCACACCTCCTTCTGCCATGACT
TCCACAAGCACTCTCCCAAGCCCATGTGTCCTCTGGAGAACTTGGTCCGCTTTGTCAAAAGGGA
TATGTTTGTAGCCCTGGATGGCAGCAGTACTAACTATTACGATGCATGCCACGGGGAAGGGGCC
TAAGAGGTACTCAGCACAGCCGCGTCTGCTTGCTGGTTCTGTCTGTTGCTAAGATGTCAAGGTA
TGGAGTTCTAACGGTGCAGATTAGGTGGGGTGATCATGCTCATGGGCGAGACAAACGGGAACAC
ATACCGTATACTACTTGGTACAAAATAGCCGGTTCACAGAGGAAGGAAGGCACGTTCTCACAGC
CGTGCGCAGCTTAGAATGCCAGCATTCGGCTCAGCACTCACAGTTGCCAAGCCAACCTTATATA
ACTTTTGGCCTGCCATGAACCAGCAAACCTCTGCCAAAGTCCTCTTAATCTCGGACATTCACCT
TCACCTTGTGTGGAAATTTTCCCAGAGGAACGAGTTCAAAGTGTGCCCGGCAGCCTTTGTCTGG
AGGGACCACAAGATCACTGTCTTAGACTTGGTAGCCCTAAAGGTCACGGAGAATCTCTCCCTGT
CAGATCTTCTCGGCTGTGCGCTGGTTGGCCATATGTAAGTGGGCAGAATAGGCGGCAGCCAGCT
CTGGCCGCTGGCTGTTTGCTGACTCACCTTGAAGAGCAGCCTGTGCCGTTGGACTCCCGCTCCT
TGGGAGCCAGCGGGGCCGCAGTGCGGCAGGTCCTTTGGGAGCGTCTGCTAGAAGCACAGGGTTG
GGTCAATGGCCCTGGGTGAGAAAGCGCGTAGGAATAACTATTACAGCACTTGATGCTCATGAGG
ATCATGGCACAAAATAGCTTTACGTGTGTCTTAGGTGTTTGTCTGCTGTAGTCTACTGGCTGCA
AACTGCTGGGCTTTTGTATCCCATTTAGTATTTTTATAGTCTAGGAAAATATTTTCTGAGACCA
GTTTTAGATGTGTTCAGATTCCTATAGAAATATTCAATTTACTGCACCTGCTTGGTGGTTGGAA
GGAGGCCAAAAGCTCAATTTGGACACTCTCTCTTTTTTCCCCCTCCGAAAATAAATAACTAATG
ACTCATTCCTTTTGACAAGCTGTAGAATTAGGTCCATTTTTAAACCATTTTCGTCTATTTCAAA
TGCCAAATTCCAATCGATTTTTAAAGAGGTTTCTAGAAAAAAATTGTTATTCCATAGTTAAATA
ATCTTTCTAAAATGTTTTATATATCAGGCGTGATCACAACTGACTGCGTGGTTCCTCGGTCAAT
GGTGCTAGCTCGTTCTGAAGACAGGGCCATGTGGGCGGCATTGGTTCTGCAGCATCGGCACGCC
AGCCTTCCTCTTCCTCTGTGTCTGGTGTTGCATTGGAACACGTTTTGTTTTTAGAAATAAAAAA
TTTTGAATTCTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006243591 ⟹ XP_006243653

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	97,419,766 - 97,484,885 (-)	NCBI
Rnor_6.0	8	104,724,728 - 104,790,578 (-)	NCBI
Rnor_5.0	8	104,171,280 - 104,237,228 (-)	NCBI

Sequence:

show sequence

GGGCCCCAGCGGTTGTGAAGCTCCTCGCAGGGCGGGCTTGTGTCTGGGGTCTCGGGGTGGCGAC
CCCAAAGAGGTCTCCGTGATGCGGGGATCGGGAGGCAGGGGCGGGCTTCCAAGCCGCGGGTGTG
ATCCCCACCAACAAGCTCTTTCCCTTATCTACGCGCTCCCCAGTTTCCACCTCTCCCCACGCCC
CTCCCCGCGTCGAGGGTCCCAGTCCCTCCGATCCGTCTCCCCTTTCTCAGCCCTGCACCCTAGA
AGCCTGCCCACACACCCCCTTTTCTCCCGCAAGCCCTCCCACGCCTACCTCCTCCGGTTGCCTG
ACGCTCGCCTCTTCCCTCCCCGCTCTGCTCTTACGGTCCCCGCCGCCACCCCAACAGGGTCCCA
CTATGCCCCCGCGCCCCTGCTGAGCGACGCAACGGGAATCTGAGCTCCGGGGTCCCCCTTCTCC
CGACTGTCCCAAAGCAGCGGTGTCCAGGACAGGCTCCGGATTAGAGGTGAAACCATGAAGAGAA
CGTAGAACACGCAATAATGCTTTACCGCAATCGCTTCTTGGTGCTGCTGGCCCTGGCTGGGCTG
CTGGCTTTCCTGAGCCTCAGCCTGCAGTTCTTTCATCTGATCCCAGTGTCCACCACAAAGAATG
GCGGAAGCAGCAAGAGCCGGAAGAGGATCATGCCTGACCCAGTGACAGAGCCCCCCACGGTAGA
CCCGGTCTATGAAGCTCTTCTGTACTGCAACATTCCGAGTGTAGCCGAGCACAGCATGGAAGGT
CATGCCCCGCATCATTATAAGCTGGTCTCCGTTCACGTGTTCATCCGCCATGGGGACAGGTACC
CACTGTATGCCATTCCCAAAACGAAGCGGCCAGAAATCGACTGCACTCTAGTGGCCAGCAGGAA
GCCATATCACCCTAAACTGGAAGCTTTCGTTGGTCACATGCTGAAAGGTTCCGGAGCCTCTTTT
GAAAGCCCCTTAGGTTCCCTGCCTCTCTATCCTAACCATCCTCTGTGTGAGATGGGGGAGCTCA
CGCAGACAGGAGTCGTGCAGCATCTGCAGAATGGCCAGCTGCTGAGGGACATCTATCTGAGGAA
ACACAAGCTTCTGCCGAACAACTGGTCCTCAGACCAGCTTTACCTAGAGACCACGGGGAAGAGC
CGCACCCTGCAGAGTGGGCTAGCCTTGCTCTATGGCTTCCTCCCAGAGTTCGACTGGAAGAAGG
TCTACTTCAAGCACCAACCAAGTGCTCTGTTCTGCTCTGGAAGCTGCTACTGCCCGCTAAGAAA
CCAGTATCTGGAGAAGGAACAGCGACGCCAGTACCTGCTCCGTCTGAAGAACAGCGACCTAGAG
AGGACCTACGGGGAGATGGCCAAGATCGTGGACATCCCCACCAAGCAGCTCCGGGCGGCCAACC
CCATCGACTCCATGCTCTGCCACTTCTGCCACAATGTCAGCTTCCCCTGCAGCAGAAGTGGCTG
CCTTGGCATGGAGCACTTTAAGGTGATCAAGACGCACCAGATAGAGGATGAGCGAGAGAGGCAC
GAGAAGCTCCTGTACTTTGGGTACTCCCTCCTCGGGGCCCACCCCATCCTGAATCAGACGGTTA
ACCGGATGCAGCGCGCTGCCTTGGGCTGGAGGGACGAGCTGTTCACCCTCTACTCTGCTCACGA
CGTCACCCTGTCACCCATCCTCAGTGCCTTGGGTCTTTTGGAAGCCAGGTTCCCAAGGTTTGCT
GCCAGGCTGGTTTTTGAGCTCTGGCAAGACCGTCAAAAGCCCAGCGAGCATTCCGTCCGGATTC
TTTATAATGGGGCTGACGTCACCTTCCACACCTCCTTCTGCCATGACTTCCACAAGCACTCTCC
CAAGCCCATGTGTCCTCTGGAGAACTTGGTCCGCTTTGTCAAAAGGGATATGTTTGTAGCCCTG
GATGGCAGCAGTACTAACTATTACGATGCATGCCACGGGGAAGGGGCCTAAGAGGTACTCAGCA
CAGCCGCGTCTGCTTGCTGGTTCTGTCTGTTGCTAAGATGTCAAGGTATGGAGTTCTAACGGTG
CAGATTAGGTGGGGTGATCATGCTCATGGGCGAGACAAACGGGAACACATACCGTATACTACTT
GGTACAAAATAGCCGGTTCACAGAGGAAGGAAGGCACGTTCTCACAGCCGTGCGCAGCTTAGAA
TGCCAGCATTCGGCTCAGCACTCACAGTTGCCAAGCCAACCTTATATAACTTTTGGCCTGCCAT
GAACCAGCAAACCTCTGCCAAAGTCCTCTTAATCTCGGACATTCACCTTCACCTTGTGTGGAAA
TTTTCCCAGAGGAACGAGTTCAAAGTGTGCCCGGCAGCCTTTGTCTGGAGGGACCACAAGATCA
CTGTCTTAGACTTGGTAGCCCTAAAGGTCACGGAGAATCTCTCCCTGTCAGATCTTCTCGGCTG
TGCGCTGGTTGGCCATATGTAAGTGGGCAGAATAGGCGGCAGCCAGCTCTGGCCGCTGGCTGTT
TGCTGACTCACCTTGAAGAGCAGCCTGTGCCGTTGGACTCCCGCTCCTTGGGAGCCAGCGGGGC
CGCAGTGCGGCAGGTCCTTTGGGAGCGTCTGCTAGAAGCACAGGGTTGGGTCAATGGCCCTGGG
TGAGAAAGCGCGTAGGAATAACTATTACAGCACTTGATGCTCATGAGGATCATGGCACAAAATA
GCTTTACGTGTGTCTTAGGTGTTTGTCTGCTGTAGTCTACTGGCTGCAAACTGCTGGGCTTTTG
TATCCCATTTAGTATTTTTATAGTCTAGGAAAATATTTTCTGAGACCAGTTTTAGATGTGTTCA
GATTCCTATAGAAATATTCAATTTACTGCACCTGCTTGGTGGTTGGAAGGAGGCCAAAAGCTCA
ATTTGGACACTCTCTCTTTTTTCCCCCTCCGAAAATAAATAACTAATGACTCATTCCTTTTGAC
AAGCTGTAGAATTAGGTCCATTTTTAAACCATTTTCGTCTATTTCAAATGCCAAATTCCAATCG
ATTTTTAAAGAGGTTTCTAGAAAAAAATTGTTATTCCATAGTTAAATAATCTTTCTAAAATGTT
TTATATATCAGGCGTGATCACAACTGACTGCGTGGTTCCTCGGTCAATGGTGCTAGCTCGTTCT
GAAGACAGGGCCATGTGGGCGGCATTGGTTCTGCAGCATCGGCACGCCAGCCTTCCTCTTCCTC
TGTGTCTGGTGTTGCATTGGAACACGTTTTGTTTTTAGAAATAAAAAATTTTGAATTCTTAGCC
TGTACAACTCA

hide sequence

RefSeq Acc Id:

XM_006243592 ⟹ XP_006243654

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	97,419,766 - 97,460,814 (-)	NCBI
Rnor_6.0	8	104,724,728 - 104,763,931 (-)	NCBI
Rnor_5.0	8	104,171,280 - 104,237,228 (-)	NCBI

Sequence:

show sequence

CTGAGCCCTCTCCAGCCCTGCCCTCCTGTGTATCTTTTTACAGCAAATCTTGGGTCTCATATCC
TTCCTTCTAGAAGTCTGTAATGCATTTTAGCTTTGAGTTTCAAGGTGCCTCCTTTTACTGCCCC
ACTGCACCCCCAAAGTCTGGTGCCTGAGATCTTTATTGTTTAGAATGGCACCTGCTGATGTCAG
GAGATACTATGTTCTAGAATGAACTGTACATGCGTGTGTGAGTGAGTGAGTGGATGCATGTGTG
GGTGCATGTGTGGATGCATGCGTGGACGTATGCATGGATGCATGGGTTGGCTTCCCAATCAGCT
GAAGAGCTCTGGACCCAGGCTGACTGTTGTGAGCTGAGAACACCCCATTCCACTCTGTACTCTG
TGCCTCACGGGCAACTCTCGACTTCATCCATCTTCATCAGTCTCCAGGGTTGGTTTATTCTTAG
CCAAGCAGCTTTGATTTTGCAATTAAGCTCCATTCTGCCGTGACCTTGGAGTCCCCTTCAGATG
CAGCCTTTGCCTTGCTTGGCTCACGCTTACTTTACAATTACATGATTCTTTTTTTAAATTATAA
TGCTCTTTACTTAGGCCCAAATGATCATGATCAAGATGAATCAGAGCATCTACCAAAGCATTTT
CTTTATTTAATTCTACCCTTCTATTCCTGGGAGGAGCACTTCAGCTGAACATATGGAAGATAAT
TGAATGCATATTTTCTTTCATTTCAAATCCTAAATTTTCTATCCTTTGAAGAGGAAACCAGAGC
CAGTTGCCTGATGTGGCAGTCTTGGTTCTTATAAATTAAAAAAAAAAAAAAATAGTTCAGGGTT
CAGCTCTGGAAGCCTCTGTGGTGGAGTTGTAGCTTAGGGAAAAGCCTTTGGTGTGTTTCTTTCC
CCTTTTAATTCAGAAGTGGTATTTACCAGAGTGTAAGGGGATCTGCTCATTATCTTGTGCTGTC
TCAACTCGGTGCTTTTGCTTTTGCTGCTCAGATTTATGGTAAAGTCAAAGGGAGTTGGCCGGAT
TTTCTGTTTGTTTAAGCAGAAATTCAATATAATAATTCTAGGTTTGAGGTATTTTTAGCCAGGG
ACTAGAGCCATGCCAAGCAGCCGCCACATAACAGGTAACACCATCATATGGAGTCATGTGCTGG
AACATGTGGCTGTGTCCACAGGAGCGTTTTGGAGAATTGGGTTTGGTTATGACTGCATGTTGGA
TCGAGAATGTCTTTTGCATGGACGGTAACGGGACCTGAGAGATGTTGGGGAAGAGGAAATGAGA
GAGCCACAGTCCCTCAGAAACACTTCACCCAGCCAACAGGGCAGTGAGTCATCCTATGGATTTG
ATTTTCTGTGCTGTGAGTAGCAGGCCATGGGGCTTCCCTCAAGGCTCGGACCATTGTGATCTGT
GTGTGTGAGGTGTCTGAGGAGCTGCCTGCAGTAGCCCCCGGGGGTAGGCACAGGAGCCACATGA
CTTAACAAGTGCCTCCCTTAGCCTCCTGGCTGGCATAGCAACAGGGGAAGAGAGTGCTGGAAAA
CCCAGGCTTCATCCCGGACTTACAGAGCTGAACAGAGGCTACACTTGGACAGGCTCCGGATTAG
AGGTGAAACCATGAAGAGAACGTAGAACACGCAATAATGCTTTACCGCAATCGCTTCTTGGTGC
TGCTGGCCCTGGCTGGGCTGCTGGCTTTCCTGAGCCTCAGCCTGCAGTTCTTTCATCTGATCCC
AGTGTCCACCACAAAGAATGGCGGAAGCAGCAAGAGCCGGAAGAGGATCATGCCTGACCCAGTG
ACAGAGCCCCCCACGGTAGACCCGGTCTATGAAGCTCTTCTGTACTGCAACATTCCGAGTGTAG
CCGAGCACAGCATGGAAGGTCATGCCCCGCATCATTATAAGCTGGTCTCCGTTCACGTGTTCAT
CCGCCATGGGGACAGGTACCCACTGTATGCCATTCCCAAAACGAAGCGGCCAGAAATCGACTGC
ACTCTAGTGGCCAGCAGGAAGCCATATCACCCTAAACTGGAAGCTTTCGTTGGTCACATGCTGA
AAGGTTCCGGAGCCTCTTTTGAAAGCCCCTTAGGTTCCCTGCCTCTCTATCCTAACCATCCTCT
GTGTGAGATGGGGGAGCTCACGCAGACAGGAGTCGTGCAGCATCTGCAGAATGGCCAGCTGCTG
AGGGACATCTATCTGAGGAAACACAAGCTTCTGCCGAACAACTGGTCCTCAGACCAGCTTTACC
TAGAGACCACGGGGAAGAGCCGCACCCTGCAGAGTGGGCTAGCCTTGCTCTATGGCTTCCTCCC
AGAGTTCGACTGGAAGAAGGTCTACTTCAAGCACCAACCAAGTGCTCTGTTCTGCTCTGGAAGC
TGCTACTGCCCGCTAAGAAACCAGTATCTGGAGAAGGAACAGCGACGCCAGTACCTGCTCCGTC
TGAAGAACAGCGACCTAGAGAGGACCTACGGGGAGATGGCCAAGATCGTGGACATCCCCACCAA
GCAGCTCCGGGCGGCCAACCCCATCGACTCCATGCTCTGCCACTTCTGCCACAATGTCAGCTTC
CCCTGCAGCAGAAGTGGCTGCCTTGGCATGGAGCACTTTAAGGTGATCAAGACGCACCAGATAG
AGGATGAGCGAGAGAGGCACGAGAAGCTCCTGTACTTTGGGTACTCCCTCCTCGGGGCCCACCC
CATCCTGAATCAGACGGTTAACCGGATGCAGCGCGCTGCCTTGGGCTGGAGGGACGAGCTGTTC
ACCCTCTACTCTGCTCACGACGTCACCCTGTCACCCATCCTCAGTGCCTTGGGTCTTTTGGAAG
CCAGGTTCCCAAGGTTTGCTGCCAGGCTGGTTTTTGAGCTCTGGCAAGACCGTCAAAAGCCCAG
CGAGCATTCCGTCCGGATTCTTTATAATGGGGCTGACGTCACCTTCCACACCTCCTTCTGCCAT
GACTTCCACAAGCACTCTCCCAAGCCCATGTGTCCTCTGGAGAACTTGGTCCGCTTTGTCAAAA
GGGATATGTTTGTAGCCCTGGATGGCAGCAGTACTAACTATTACGATGCATGCCACGGGGAAGG
GGCCTAAGAGGTACTCAGCACAGCCGCGTCTGCTTGCTGGTTCTGTCTGTTGCTAAGATGTCAA
GGTATGGAGTTCTAACGGTGCAGATTAGGTGGGGTGATCATGCTCATGGGCGAGACAAACGGGA
ACACATACCGTATACTACTTGGTACAAAATAGCCGGTTCACAGAGGAAGGAAGGCACGTTCTCA
CAGCCGTGCGCAGCTTAGAATGCCAGCATTCGGCTCAGCACTCACAGTTGCCAAGCCAACCTTA
TATAACTTTTGGCCTGCCATGAACCAGCAAACCTCTGCCAAAGTCCTCTTAATCTCGGACATTC
ACCTTCACCTTGTGTGGAAATTTTCCCAGAGGAACGAGTTCAAAGTGTGCCCGGCAGCCTTTGT
CTGGAGGGACCACAAGATCACTGTCTTAGACTTGGTAGCCCTAAAGGTCACGGAGAATCTCTCC
CTGTCAGATCTTCTCGGCTGTGCGCTGGTTGGCCATATGTAAGTGGGCAGAATAGGCGGCAGCC
AGCTCTGGCCGCTGGCTGTTTGCTGACTCACCTTGAAGAGCAGCCTGTGCCGTTGGACTCCCGC
TCCTTGGGAGCCAGCGGGGCCGCAGTGCGGCAGGTCCTTTGGGAGCGTCTGCTAGAAGCACAGG
GTTGGGTCAATGGCCCTGGGTGAGAAAGCGCGTAGGAATAACTATTACAGCACTTGATGCTCAT
GAGGATCATGGCACAAAATAGCTTTACGTGTGTCTTAGGTGTTTGTCTGCTGTAGTCTACTGGC
TGCAAACTGCTGGGCTTTTGTATCCCATTTAGTATTTTTATAGTCTAGGAAAATATTTTCTGAG
ACCAGTTTTAGATGTGTTCAGATTCCTATAGAAATATTCAATTTACTGCACCTGCTTGGTGGTT
GGAAGGAGGCCAAAAGCTCAATTTGGACACTCTCTCTTTTTTCCCCCTCCGAAAATAAATAACT
AATGACTCATTCCTTTTGACAAGCTGTAGAATTAGGTCCATTTTTAAACCATTTTCGTCTATTT
CAAATGCCAAATTCCAATCGATTTTTAAAGAGGTTTCTAGAAAAAAATTGTTATTCCATAGTTA
AATAATCTTTCTAAAATGTTTTATATATCAGGCGTGATCACAACTGACTGCGTGGTTCCTCGGT
CAATGGTGCTAGCTCGTTCTGAAGACAGGGCCATGTGGGCGGCATTGGTTCTGCAGCATCGGCA
CGCCAGCCTTCCTCTTCCTCTGTGTCTGGTGTTGCATTGGAACACGTTTTGTTTTTAGAAATAA
AAAATTTTGAATTCTTAGCCTGTACAACTCA

hide sequence

RefSeq Acc Id:

XM_017595678 ⟹ XP_017451167

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	97,419,766 - 97,450,979 (-)	NCBI
Rnor_6.0	8	104,724,728 - 104,757,462 (-)	NCBI

Sequence:

show sequence

ATGGAGGGGGCTTGAGACTCACAGGAGGGCAGGCGGCTTCACTGTAAACTGAGGGCCTAGGTGT
GAGGGCCGTGAGGAGACCCTGGAGCTTTCTCGTTGTTGGTGCCCACAGTGAATGGGTGCAAGCA
GGGGTCCTAAACTGGTGTCTGTTCTTTCCTTGAGTCCAGGTCTCACTCTGTAGCCCAGACTAGT
CTCAAGCTAATGAGGCCTTCCTCGGCCTCCTGGGCATGTGCCACACTCACACCAGCCTCGGGAT
ACATTCTTTGAATTCTTACATGTATTTCTAAACCGCTTGCTTATTCCTGAAATTTTCTTTGCCA
TCCATTGCAAGGTGCAGAGGGTCCCTTTGATTTTCTACGCTGAGCAGGGGCATTTGGTTCCTGG
AGAACTGGGTGGCCATTTTATATTCAGTCACTGATGGGGCTGGAGTAGTTCAGGATAGGGTGGT
GAAATTGGGTCAGAAGCCGCACCTGGGAGGTCCCAGGTAGCACAGTAAGGACTCTCAGGTGAAG
CTTGTCTGTGAGCCTTACCACCCCCCAGTTTTTCACTGGGTTCTTATGCTCACACTGTACCCCA
AATCTGTGCTGCCAACACTTGCCATGAGAGGGGCTATCCTGGAGCTCAAATCCTGCTCCAGTAT
CTCATTGATTGCCATCCTTCAGTGGTGGCCCACTGTCCGCTGTGTCCCACCCTCTGCTTGGCCT
TCTCCAAAGAAATCAGTCTTGCCCTGTGCTCCTCATCCCTACGACCCTTCCCCGGCCAGCTGTT
CCCGTCTTCTTTCCATCTGTTTAGCCCTTGCCTTGCCTTCTCTGGATGCCTTCCATTGCTCCCA
AGAGTTGATGCTTCTGAGGTGAACATCAGGATTTCCTGAGCCAGCTCCCTTTTGCTGGTCATGG
AGCCTCCCTGTACTGTGTCCTGTGTATTTCGGGACCCCACATGCCCAGTACAGAGTGGACATCT
CTGAATGAATGAATGAATGTCCACTCTAAAAGCATCTTCCTTTCCCTTGGATTCCATGTACTGG
AAACTGAGGAGGTGCTGATAAAATACTGAGAACTGTGTTTGCTGTCTCCTGGCTTCTCTGTTTT
ACCATCTCACCGTGGTGGGTGGGAGACAAGTGTTTGTCACCTCCAGGAGCTCTGTGGGGAGGTG
CCATTTCTGTTCCACTCAGAGGGGCAGAAAGAAGAGCAGGTGGCTCAGTCAGTGGGATGTGGTG
CACGCACAGGAATGTGGGGCGAATTGGCCTCAGGAGTGGGTGGTAAGAAAGAAAGCTTTTTAAG
CAGGCTCGCCCGATTTACCTCCAGGGTGGTATACAGTTAGGATCACCTCTGTGCACGTAACAAT
CTATTCTAACCATGAAGAGGTTTAAAAATACTTATTTCATCTTTCCAATATTGGAGGTGGTCAA
GAGAAGGTGACCATAGACGTGCAAAAATACTCCAGATGCCTAATGCCCTGCAAAAATAGAAATC
CTTTCAAAAAAGTGGCTTTTGGCTTTCAGTGGTTTCATTGTTTGTCGTTTTTTCATTGGAAATT
TTCCATCCTTCGGTGAAGGAGGTGGGACCTGCAGTCAGCCTGGGTTTTGTCCTGAGCCCTGGGC
GGGTTCGAGGGGTGAATGTGGCTGACTTGTGTTCCCCAGGCAGCTCGCATGAGCTGGCCTGTGT
GGCACTGAATGGCCCTGTGTGTCTTGCTTGTGGAACGCTTCTGAATGTTCGTCTGTGTTAAGAG
GGCCGCTTTTCAGCCACACTTTTTTAAGGAAAATTTTGCAGAATAAATTGGCCTGGCTGGACCC
GAGCCCTTCACTCTGGAGTACCTTGCAGTTCAGAAAGCTTAAGAAATGGACGTCCGTGCTGCCT
TTCTCCTTCTCGTTCATCTGATCCCAGTGTCCACCACAAAGAATGGCGGAAGCAGCAAGAGCCG
GAAGAGGATCATGCCTGACCCAGTGACAGAGCCCCCCACGGTAGACCCGGTCTATGAAGCTCTT
CTGTACTGCAACATTCCGAGTGTAGCCGAGCACAGCATGGAAGGTCATGCCCCGCATCATTATA
AGCTGGTCTCCGTTCACGTGTTCATCCGCCATGGGGACAGGTACCCACTGTATGCCATTCCCAA
AACGAAGCGGCCAGAAATCGACTGCACTCTAGTGGCCAGCAGGAAGCCATATCACCCTAAACTG
GAAGCTTTCGTTGGTCACATGCTGAAAGGTTCCGGAGCCTCTTTTGAAAGCCCCTTAGGTTCCC
TGCCTCTCTATCCTAACCATCCTCTGTGTGAGATGGGGGAGCTCACGCAGACAGGAGTCGTGCA
GCATCTGCAGAATGGCCAGCTGCTGAGGGACATCTATCTGAGGAAACACAAGCTTCTGCCGAAC
AACTGGTCCTCAGACCAGCTTTACCTAGAGACCACGGGGAAGAGCCGCACCCTGCAGAGTGGGC
TAGCCTTGCTCTATGGCTTCCTCCCAGAGTTCGACTGGAAGAAGGTCTACTTCAAGCACCAACC
AAGTGCTCTGTTCTGCTCTGGAAGCTGCTACTGCCCGCTAAGAAACCAGTATCTGGAGAAGGAA
CAGCGACGCCAGTACCTGCTCCGTCTGAAGAACAGCGACCTAGAGAGGACCTACGGGGAGATGG
CCAAGATCGTGGACATCCCCACCAAGCAGCTCCGGGCGGCCAACCCCATCGACTCCATGCTCTG
CCACTTCTGCCACAATGTCAGCTTCCCCTGCAGCAGAAGTGGCTGCCTTGGCATGGAGCACTTT
AAGGTGATCAAGACGCACCAGATAGAGGATGAGCGAGAGAGGCACGAGAAGCTCCTGTACTTTG
GGTACTCCCTCCTCGGGGCCCACCCCATCCTGAATCAGACGGTTAACCGGATGCAGCGCGCTGC
CTTGGGCTGGAGGGACGAGCTGTTCACCCTCTACTCTGCTCACGACGTCACCCTGTCACCCATC
CTCAGTGCCTTGGGTCTTTTGGAAGCCAGGTTCCCAAGGTTTGCTGCCAGGCTGGTTTTTGAGC
TCTGGCAAGACCGTCAAAAGCCCAGCGAGCATTCCGTCCGGATTCTTTATAATGGGGCTGACGT
CACCTTCCACACCTCCTTCTGCCATGACTTCCACAAGCACTCTCCCAAGCCCATGTGTCCTCTG
GAGAACTTGGTCCGCTTTGTCAAAAGGGATATGTTTGTAGCCCTGGATGGCAGCAGTACTAACT
ATTACGATGCATGCCACGGGGAAGGGGCCTAAGAGGTACTCAGCACAGCCGCGTCTGCTTGCTG
GTTCTGTCTGTTGCTAAGATGTCAAGGTATGGAGTTCTAACGGTGCAGATTAGGTGGGGTGATC
ATGCTCATGGGCGAGACAAACGGGAACACATACCGTATACTACTTGGTACAAAATAGCCGGTTC
ACAGAGGAAGGAAGGCACGTTCTCACAGCCGTGCGCAGCTTAGAATGCCAGCATTCGGCTCAGC
ACTCACAGTTGCCAAGCCAACCTTATATAACTTTTGGCCTGCCATGAACCAGCAAACCTCTGCC
AAAGTCCTCTTAATCTCGGACATTCACCTTCACCTTGTGTGGAAATTTTCCCAGAGGAACGAGT
TCAAAGTGTGCCCGGCAGCCTTTGTCTGGAGGGACCACAAGATCACTGTCTTAGACTTGGTAGC
CCTAAAGGTCACGGAGAATCTCTCCCTGTCAGATCTTCTCGGCTGTGCGCTGGTTGGCCATATG
TAAGTGGGCAGAATAGGCGGCAGCCAGCTCTGGCCGCTGGCTGTTTGCTGACTCACCTTGAAGA
GCAGCCTGTGCCGTTGGACTCCCGCTCCTTGGGAGCCAGCGGGGCCGCAGTGCGGCAGGTCCTT
TGGGAGCGTCTGCTAGAAGCACAGGGTTGGGTCAATGGCCCTGGGTGAGAAAGCGCGTAGGAAT
AACTATTACAGCACTTGATGCTCATGAGGATCATGGCACAAAATAGCTTTACGTGTGTCTTAGG
TGTTTGTCTGCTGTAGTCTACTGGCTGCAAACTGCTGGGCTTTTGTATCCCATTTAGTATTTTT
ATAGTCTAGGAAAATATTTTCTGAGACCAGTTTTAGATGTGTTCAGATTCCTATAGAAATATTC
AATTTACTGCACCTGCTTGGTGGTTGGAAGGAGGCCAAAAGCTCAATTTGGACACTCTCTCTTT
TTTCCCCCTCCGAAAATAAATAACTAATGACTCATTCCTTTTGACAAGCTGTAGAATTAGGTCC
ATTTTTAAACCATTTTCGTCTATTTCAAATGCCAAATTCCAATCGATTTTTAAAGAGGTTTCTA
GAAAAAAATTGTTATTCCATAGTTAAATAATCTTTCTAAAATGTTTTATATATCAGGCGTGATC
ACAACTGACTGCGTGGTTCCTCGGTCAATGGTGCTAGCTCGTTCTGAAGACAGGGCCATGTGGG
CGGCATTGGTTCTGCAGCATCGGCACGCCAGCCTTCCTCTTCCTCTGTGTCTGGTGTTGCATTG
GAACACGTTTTGTTTTTAGAAATAAAAAATTTTGAATTCTTAGCCTGTACAACTCA

hide sequence

RefSeq Acc Id:

XM_039081543 ⟹ XP_038937471

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	97,419,766 - 97,465,131 (-)	NCBI

RefSeq Acc Id:

XR_005487842

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	97,419,773 - 97,485,163 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001007711	(Get FASTA)	NCBI Sequence Viewer
	XP_006243653	(Get FASTA)	NCBI Sequence Viewer
	XP_006243654	(Get FASTA)	NCBI Sequence Viewer
	XP_017451167	(Get FASTA)	NCBI Sequence Viewer
	XP_038937471	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH81981	(Get FASTA)	NCBI Sequence Viewer
	EDL77485	(Get FASTA)	NCBI Sequence Viewer
	Q66H78	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001007711 ⟸ NM_001007710

- UniProtKB:

Q66H78 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MLYRNRFLVLLALAGLLAFLSLSLQFFHLIPVSTTKNGGSSKSRKRIMPDPVTEPPTVDPVYEA
LLYCNIPSVAEHSMEGHAPHHYKLVSVHVFIRHGDRYPLYAIPKTKRPEIDCTLVASRKPYHPK
LEAFVGHMLKGSGASFESPLGSLPLYPNHPLCEMGELTQTGVVQHLQNGQLLRDIYLRKHKLLP
NNWSSDQLYLETTGKSRTLQSGLALLYGFLPEFDWKKVYFKHQPSALFCSGSCYCPLRNQYLEK
EQRRQYLLRLKNSDLERTYGEMAKIVDIPTKQLRAANPIDSMLCHFCHNVSFPCSRSGCLGMEH
FKVIKTHQIEDERERHEKLLYFGYSLLGAHPILNQTVNRMQRAALGWRDELFTLYSAHDVTLSP
ILSALGLLEARFPRFAARLVFELWQDRQKPSEHSVRILYNGADVTFHTSFCHDFHKHSPKPMCP
LENLVRFVKRDMFVALDGSSTNYYDACHGEGA

hide sequence

RefSeq Acc Id:	XP_006243653 ⟸ XM_006243591
- Peptide Label:	isoform X1
- UniProtKB:	Q66H78 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MLYRNRFLVLLALAGLLAFLSLSLQFFHLIPVSTTKNGGSSKSRKRIMPDPVTEPPTVDPVYEA LLYCNIPSVAEHSMEGHAPHHYKLVSVHVFIRHGDRYPLYAIPKTKRPEIDCTLVASRKPYHPK LEAFVGHMLKGSGASFESPLGSLPLYPNHPLCEMGELTQTGVVQHLQNGQLLRDIYLRKHKLLP NNWSSDQLYLETTGKSRTLQSGLALLYGFLPEFDWKKVYFKHQPSALFCSGSCYCPLRNQYLEK EQRRQYLLRLKNSDLERTYGEMAKIVDIPTKQLRAANPIDSMLCHFCHNVSFPCSRSGCLGMEH FKVIKTHQIEDERERHEKLLYFGYSLLGAHPILNQTVNRMQRAALGWRDELFTLYSAHDVTLSP ILSALGLLEARFPRFAARLVFELWQDRQKPSEHSVRILYNGADVTFHTSFCHDFHKHSPKPMCP LENLVRFVKRDMFVALDGSSTNYYDACHGEGA hide sequence

RefSeq Acc Id:	XP_006243654 ⟸ XM_006243592
- Peptide Label:	isoform X1
- UniProtKB:	Q66H78 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MLYRNRFLVLLALAGLLAFLSLSLQFFHLIPVSTTKNGGSSKSRKRIMPDPVTEPPTVDPVYEA LLYCNIPSVAEHSMEGHAPHHYKLVSVHVFIRHGDRYPLYAIPKTKRPEIDCTLVASRKPYHPK LEAFVGHMLKGSGASFESPLGSLPLYPNHPLCEMGELTQTGVVQHLQNGQLLRDIYLRKHKLLP NNWSSDQLYLETTGKSRTLQSGLALLYGFLPEFDWKKVYFKHQPSALFCSGSCYCPLRNQYLEK EQRRQYLLRLKNSDLERTYGEMAKIVDIPTKQLRAANPIDSMLCHFCHNVSFPCSRSGCLGMEH FKVIKTHQIEDERERHEKLLYFGYSLLGAHPILNQTVNRMQRAALGWRDELFTLYSAHDVTLSP ILSALGLLEARFPRFAARLVFELWQDRQKPSEHSVRILYNGADVTFHTSFCHDFHKHSPKPMCP LENLVRFVKRDMFVALDGSSTNYYDACHGEGA hide sequence

RefSeq Acc Id:

XP_017451167 ⟸ XM_017595678

- Peptide Label:

isoform X2

- Sequence:

show sequence

MDVRAAFLLLVHLIPVSTTKNGGSSKSRKRIMPDPVTEPPTVDPVYEALLYCNIPSVAEHSMEG
HAPHHYKLVSVHVFIRHGDRYPLYAIPKTKRPEIDCTLVASRKPYHPKLEAFVGHMLKGSGASF
ESPLGSLPLYPNHPLCEMGELTQTGVVQHLQNGQLLRDIYLRKHKLLPNNWSSDQLYLETTGKS
RTLQSGLALLYGFLPEFDWKKVYFKHQPSALFCSGSCYCPLRNQYLEKEQRRQYLLRLKNSDLE
RTYGEMAKIVDIPTKQLRAANPIDSMLCHFCHNVSFPCSRSGCLGMEHFKVIKTHQIEDERERH
EKLLYFGYSLLGAHPILNQTVNRMQRAALGWRDELFTLYSAHDVTLSPILSALGLLEARFPRFA
ARLVFELWQDRQKPSEHSVRILYNGADVTFHTSFCHDFHKHSPKPMCPLENLVRFVKRDMFVAL
DGSSTNYYDACHGEGA

hide sequence

RefSeq Acc Id:

ENSRNOP00000017085 ⟸ ENSRNOT00000017085

RefSeq Acc Id:	XP_038937471 ⟸ XM_039081543
- Peptide Label:	isoform X1

Transcriptome

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

Promoters

RGD ID:

13696195

Promoter ID:

EPDNEW_R6720

Type:

initiation region

Name:

Pxylp1_1

Description:

2-phosphoxylose phosphatase 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	8	104,790,667 - 104,790,727	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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

ACI/EurMcwi (RGD)

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

ACI/N (MCW)

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

BBDP/Wor (RGD)

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

BN/SsN (MCW)

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

Buf/N (MCW)

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

COP/CrCrl (MCW & UW)

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

F344/NCrl (RGD)

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

F344/NRrrc (MCW)

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

FHH/EurMcwi (MCW)

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

FHH/EurMcwi (RGD)

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

FHL/EurMcwi (MCW)

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

FHL/EurMcwi (RGD)

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

GH/OmrMcwi (MCW)

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

GK/Ox (RGD)

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

LE/Stm (RGD)

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

LEW/Crl (RGD)

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

LEW/NCrlBR (RGD)

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

LH/MavRrrc (RGD)

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

LL/MavRrrc (RGD)

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

LN/MavRrrc (RGD)

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

M520/N (MCW)

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

MHS/Gib (RGD)

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

MNS/Gib (RGD)

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

MR/N (MCW)

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

SBH/Ygl (MCW)

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

SBH/Ygl (RGD)

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

SBN/Ygl (MCW)

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

SBN/Ygl (RGD)

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

SHR/NHsd (RGD)

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

SHRSP/Gcrc (RGD)

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

SR/JrHsd (MCW)

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

SR/JrHsd (RGD)

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

SS/Jr (RGD)

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

SS/JrHsdMcwi (MCW)

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

SS/JrHsdMcwi (RGD)

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

WAG/Rij (RGD)

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

WKY/Gcrc (RGD)

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

WKY/N (MCW)

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

WKY/NCrl (RGD)

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

WKY/NHsd (RGD)

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

WN/N (MCW)

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

Damaging Variants

Assembly: RGSC_v3.4

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
8	101919407	101919408	C	A	snv	LCR/2Mco (UMich)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1359617	AgrOrtholog
Ensembl Genes	ENSRNOG00000012480	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000017085	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000017085	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	3.40.50.1240	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7128571	IMAGE-MGC_LOAD
InterPro	His_Pase_clade-2	UniProtKB/Swiss-Prot
	His_PPase_superfam	UniProtKB/Swiss-Prot
KEGG Report	rno:315939	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:94167	IMAGE-MGC_LOAD
NCBI Gene	315939	ENTREZGENE
Pfam	His_Phos_2	UniProtKB/Swiss-Prot
PhenoGen	Pxylp1	PhenoGen
Superfamily-SCOP	SSF53254	UniProtKB/Swiss-Prot
UniProt	PXYP1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2014-03-27	Pxylp1	2-phosphoxylose phosphatase 1	Acpl2	acid phosphatase-like 2	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Acpl2	acid phosphatase-like 2	MGC94167	similar to RIKEN cDNA C130099A20	Symbol and Name updated	1299863	APPROVED
2005-07-29	MGC94167	similar to RIKEN cDNA C130099A20			Symbol and Name status set to provisional	70820	PROVISIONAL

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

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

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

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

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