Ggps1 (geranylgeranyl diphosphate synthase 1)

Gene: Ggps1 (geranylgeranyl diphosphate synthase 1) Rattus norvegicus

Analyze

Symbol:

Ggps1

Name:

geranylgeranyl diphosphate synthase 1

RGD ID:

1359680

Description:

Predicted to enable farnesyltranstransferase activity; geranyltranstransferase activity; and identical protein binding activity. Predicted to be involved in isoprenoid biosynthetic process. Predicted to be located in several cellular components, including Z disc; nucleoplasm; and perinuclear region of cytoplasm. Orthologous to human GGPS1 (geranylgeranyl diphosphate synthase 1); PARTICIPATES IN alendronate pharmacodynamics pathway; cholesterol biosynthetic pathway; cholesterol ester storage disease pathway; INTERACTS WITH 2,6-dinitrotoluene; 4,4'-sulfonyldiphenol; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

(2E,6E)-farnesyl diphosphate synthase; Crlf3; dimethylallyltranstransferase; farnesyl diphosphate synthase; farnesyltranstransferase; geranylgeranyl pyrophosphate synthase; geranylgeranyl pyrophosphate synthetase; geranyltranstransferase; GGPP synthase; GGPP synthetase; GGPPSase; rGGPS1a; rGGPS1a1; rGGPS1a2; rGGPS1a3

RGD Orthologs

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):	GGPS1 (geranylgeranyl diphosphate synthase 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Ggps1 (geranylgeranyl diphosphate synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ggps1 (geranylgeranyl diphosphate synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	GGPS1 (geranylgeranyl diphosphate synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	GGPS1 (geranylgeranyl diphosphate synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ggps1 (geranylgeranyl diphosphate synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	GGPS1 (geranylgeranyl diphosphate synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	GGPS1 (geranylgeranyl diphosphate synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ggps1 (geranylgeranyl diphosphate synthase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	GGPS1 (geranylgeranyl diphosphate synthase 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ggps1 (geranylgeranyl diphosphate synthase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ggps1 (geranylgeranyl diphosphate synthase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	BTS1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	qm	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ggps1	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	17	55,958,750 - 55,982,762 (+)	NCBI		GRCr8
mRatBN7.2	17	51,263,262 - 51,282,471 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	51,263,263 - 51,276,220 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	17	54,432,047 - 54,444,439 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	58,434,988 - 58,447,380 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	52,566,148 - 52,578,539 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	53,956,185 - 53,971,039 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	53,956,203 - 53,971,443 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	51,649,809 - 51,665,285 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	59,458,469 - 59,470,856 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	17	59,469,315 - 59,482,261 (+)	NCBI
Celera	17	47,270,878 - 47,283,263 (+)	NCBI		Celera
Cytogenetic Map	17	q12.1	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

common variable immunodeficiency 14 (ISO)

gastrointestinal stromal tumor (ISO)

genetic disease (ISO)

MUSCULAR DYSTROPHY, CONGENITAL HEARING LOSS, AND OVARIAN INSUFFICIENCY SYNDROME (ISO)

parathyroid carcinoma (ISO)

sensorineural hearing loss (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

2,6-dinitrotoluene (EXP)

2-methylcholine (ISO)

2-trans,6-trans,10-trans-geranylgeranyl diphosphate (ISO)

4,4'-sulfonyldiphenol (EXP)

acetamides (ISO)

aflatoxin B1 (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (EXP)

butanal (ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

CGP 52608 (ISO)

copper(II) sulfate (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

dicrotophos (ISO)

dioxygen (ISO)

disodium selenite (ISO)

elemental selenium (ISO)

ethanol (ISO)

folic acid (ISO)

GW 4064 (ISO)

hydrogen peroxide (ISO)

isotretinoin (ISO)

methylmercury chloride (ISO)

oleic acid (ISO)

ozone (ISO)

paracetamol (EXP,ISO)

pirinixic acid (ISO)

rimonabant (ISO)

selenium atom (ISO)

sodium arsenate (ISO)

sodium fluoride (ISO)

theophylline (ISO)

trichloroethene (EXP)

valproic acid (ISO)

vitamin E (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

farnesyl diphosphate biosynthetic process (IEA)

geranyl diphosphate biosynthetic process (IEA)

geranylgeranyl diphosphate biosynthetic process (IEA)

isoprenoid biosynthetic process (IBA,IEA)

isoprenoid metabolic process (ISO,ISS)

ubiquinone biosynthetic process (IEA)

Cellular Component

cytoplasm (ISO,ISS)

cytosol (IEA,ISO)

mitochondrion (IEA)

nucleoplasm (IEA,ISO)

perinuclear region of cytoplasm (ISO,ISS)

transferase complex (IEA)

Z disc (ISO,ISS)

Molecular Function

dimethylallyltranstransferase activity (IEA)

farnesyltranstransferase activity (ISO,ISS)

geranyltranstransferase activity (ISO)

identical protein binding (ISO)

metal ion binding (IEA)

prenyltransferase activity (IBA,IEA)

protein binding (ISO)

transferase activity (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

alendronate pharmacodynamics pathway (ISO)

cholesterol biosynthetic pathway (ISO)

cholesterol ester storage disease pathway (ISO)

congenital hemidysplasia with ichthyosiform erythroderma and limb defects pathway (ISO)

desmosterolosis pathway (ISO)

hypercholesterolemia pathway (ISO)

ibandronate pharmacodynamics pathway (ISO)

mevalonic aciduria pathway (ISO)

nitrogenous bisphosphonate pharmacodynamics pathway (ISO)

pamidronate pharmacodynamics pathway (ISO)

risedronate pharmacodynamics pathway (ISO)

Smith-Lemli-Opitz Syndrome pathway (ISO)

statin pharmacodynamics pathway (ISO)

terpenoid biosynthetic pathway (IEA)

Wolman disease pathway (ISO)

X-linked dominant chondrodysplasia punctata 2 pathway (ISO)

zoledronate pharmacodynamics pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Relationship between intron 4b splicing of the rat geranylgeranyl diphosphate synthase gene and the active enzyme expression level.	Matsumura Y, etal., J Biochem (Tokyo) 2004 Sep;136(3):301-12.
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
5.	SMPDB Annotation Import Pipeline	Pipeline to import SMPDB annotations from SMPDB into RGD
6.	GOA pipeline	RGD automated data pipeline
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:9741684	PMID:10026212	PMID:10101267	PMID:12477932	PMID:15489334	PMID:17846065	PMID:25416956	PMID:31515488

Genomics

Comparative Map Data

Ggps1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	17	55,958,750 - 55,982,762 (+)	NCBI		GRCr8
mRatBN7.2	17	51,263,262 - 51,282,471 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	51,263,263 - 51,276,220 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	17	54,432,047 - 54,444,439 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	58,434,988 - 58,447,380 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	52,566,148 - 52,578,539 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	53,956,185 - 53,971,039 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	53,956,203 - 53,971,443 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	51,649,809 - 51,665,285 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	59,458,469 - 59,470,856 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	17	59,469,315 - 59,482,261 (+)	NCBI
Celera	17	47,270,878 - 47,283,263 (+)	NCBI		Celera
Cytogenetic Map	17	q12.1	NCBI

GGPS1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	235,327,216 - 235,344,532 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	235,327,350 - 235,344,532 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	235,490,531 - 235,507,847 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	233,558,376 - 233,574,470 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	1	231,817,925 - 231,832,451	NCBI
Celera	1	208,734,506 - 208,750,602 (+)	NCBI		Celera
Cytogenetic Map	1	q42.3	NCBI
HuRef	1	205,940,797 - 205,956,780 (+)	NCBI		HuRef
CHM1_1	1	236,764,062 - 236,780,050 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	1	234,718,929 - 234,736,246 (+)	NCBI		T2T-CHM13v2.0

Ggps1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	14,224,375 - 14,238,319 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	14,225,244 - 14,238,073 (-)	Ensembl		GRCm39 Ensembl
GRCm38	13	14,049,790 - 14,063,566 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	14,050,659 - 14,063,488 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	14,144,712 - 14,155,668 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	13	13,844,571 - 13,855,527 (-)	NCBI		MGSCv36	mm8
Celera	13	14,359,738 - 14,365,181 (-)	NCBI		Celera
Cytogenetic Map	13	A1	NCBI
cM Map	13	5.29	NCBI

Ggps1
(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_004955492	4,583,633 - 4,589,144 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955492	4,582,998 - 4,593,194 (-)	NCBI	ChiLan1.0	ChiLan1.0

GGPS1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	1	13,849,205 - 13,863,448 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	14,051,551 - 14,075,807 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	210,874,385 - 210,888,647 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	215,887,514 - 215,902,845 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	215,888,966 - 215,902,845 (+)	Ensembl	panpan1.1		panPan2

GGPS1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	4	4,590,302 - 4,602,307 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	4	4,592,262 - 4,602,077 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	4	4,565,325 - 4,584,522 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	4	4,604,907 - 4,624,116 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	4	4,612,317 - 4,623,860 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	4	4,623,310 - 4,635,095 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	4	4,733,529 - 4,752,650 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	4	4,962,676 - 4,974,485 (-)	NCBI		UU_Cfam_GSD_1.0

Ggps1
(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_024409344	40,938,988 - 40,950,671 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936484	17,104,750 - 17,110,059 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936484	17,104,437 - 17,115,897 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

GGPS1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	55,908,674 - 55,923,988 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	55,907,885 - 55,924,037 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	59,995,794 - 60,004,545 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

GGPS1
(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	25	72,502,333 - 72,517,349 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666055	74,533,277 - 74,548,320 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ggps1
(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_004624775	15,141,131 - 15,149,187 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Ggps1
61 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	209
Count of miRNA genes:	154
Interacting mature miRNAs:	173
Transcripts:	ENSRNOT00000022483
Prediction methods:	Miranda, Pita
Result types:	miRGate_prediction

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

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

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1354658	Spl8	Serum phospholipid level QTL 8	3.8		blood VLDL phospholipid amount (VT:0010507)	blood very low density lipoprotein phospholipid level (CMO:0001571)	17	1	60781592	Rat
1354581	Bp247	Blood pressure QTL 247	4.5		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	17	1	69599340	Rat
1354662	Rf49	Renal function QTL 49	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	17	1	69599340	Rat
1354596	Bw32	Body weight QTL 32	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	17	4299130	60781592	Rat
1354630	Cm34	Cardiac mass QTL 34	8.7		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	17	4299130	69599340	Rat
1354638	Insul1	Insulin level QTL 1	4.8		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	17	4299130	69599340	Rat
1354651	Lmblg2	Limb length QTL 2	6		tibia length (VT:0004357)	tibia length (CMO:0000450)	17	4299130	69599340	Rat
2303561	Bw91	Body weight QTL 91	2		body mass (VT:0001259)	body weight (CMO:0000012)	17	8868462	53868462	Rat
1331765	Hrtrt15	Heart rate QTL 15	4.094		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	17	15330613	55836425	Rat
1354640	Scl32	Serum cholesterol level QTL 32	5.4		blood HDL cholesterol amount (VT:0000184)	blood high density lipoprotein cholesterol level (CMO:0000052)	17	15781592	60781592	Rat
1354659	Scl68	Serum cholesterol level QTL 68	3.9		blood VLDL cholesterol amount (VT:0005144)	blood very low density lipoprotein cholesterol level (CMO:0000648)	17	15781592	60781592	Rat
7394837	Memor18	Memory QTL 18			exploratory behavior trait (VT:0010471)	measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)	17	18640182	63640182	Rat
1354628	Stl13	Serum triglyceride level QTL 13	3.8		blood triglyceride amount (VT:0002644)	blood triglyceride level (CMO:0000118)	17	21293039	60781592	Rat
61394	Bp8	Blood pressure QTL 8	2.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	23080567	59555013	Rat
7488966	Bp370	Blood pressure QTL 370		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	23653184	57246843	Rat
12903978	Cm118	Cardiac mass QTL 118		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	17	23653184	68653184	Rat
12903979	Cm119	Cardiac mass QTL 119		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	17	23653184	68653184	Rat
12903980	Cm120	Cardiac mass QTL 120		0.002	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	17	23653184	68653184	Rat
12903981	Am17	Aortic mass QTL 17		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	17	23653184	68653184	Rat
1559055	Bp278	Blood pressure QTL 278		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	23653184	68653184	Rat
12903982	Kidm70	Kidney mass QTL 70		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	23653184	70974005	Rat
1354619	Bp242	Blood pressure QTL 242	6.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	24599340	69599340	Rat
1581512	Cm55	Cardiac mass QTL 55	2.8	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	17	27027949	56836890	Rat
4889955	Bss93	Bone structure and strength QTL 93	4.4		tibia size trait (VT:0100001)	tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)	17	27027949	60463643	Rat
2302377	Scl61	Serum cholesterol level QTL 61	4.36		blood HDL cholesterol amount (VT:0000184)	serum high density lipoprotein cholesterol level (CMO:0000361)	17	27389946	53481766	Rat
8552928	Pigfal9	Plasma insulin-like growth factor 1 level QTL 9	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	17	28409147	73409147	Rat
9590107	Sffal7	Serum free fatty acids level QTL 7	4.81	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	17	28409147	73409147	Rat
10450503	Bp386	Blood pressure QTL 386		0.28	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	31368391	62109574	Rat
2324621	Coatc5	Coat color QTL 5			coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	17	31368391	73951021	Rat
724549	Niddm56	Non-insulin dependent diabetes mellitus QTL 56		0.03	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	31990784	76990784	Rat
1354663	Bvd5	Brain ventricular dilatation QTL 5	3.51	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	17	31990784	81292925	Rat
1300148	Bp192	Blood pressure QTL 192	3.47		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	17	34550843	73951021	Rat
724528	Uae4	Urinary albumin excretion QTL 4	4.9	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	17	35837085	69599340	Rat
2301412	Kidm40	Kidney mass QTL 40		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	37479847	82479847	Rat
2317054	Aia12	Adjuvant induced arthritis QTL 12	4.24		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	17	38281509	83281509	Rat
2317060	Aia26	Adjuvant induced arthritis QTL 26	3.22		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	17	38281509	83281509	Rat
1598871	Memor5	Memory QTL 5	5.3		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	17	40540041	80387013	Rat
1358295	Aocep1	Aortic cell protein QTL 1	6.1	0.00000071	thoracic aorta cellular protein amount (VT:0010598)	aortic cell percentage	17	40990005	85990005	Rat
631497	Bp98	Blood pressure QTL 98	3.66		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	41354651	60463643	Rat
1354635	Bp245	Blood pressure QTL 245	6		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	17	42073160	69599340	Rat
1354635	Bp245	Blood pressure QTL 245	6		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	42073160	69599340	Rat
7411575	Bw140	Body weight QTL 140	30.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	17	48560935	86533673	Rat
8694181	Bw151	Body weight QTL 151	4.36	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	17	48560935	86533673	Rat
2317038	Ginf3	Gastrointestinal inflammation QTL 3	2.89	0.005	liver integrity trait (VT:0010547)	liver granuloma severity score (CMO:0002157)	17	49920154	86533673	Rat
2303580	Gluco49	Glucose level QTL 49	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	17	50040271	86533673	Rat
1354629	Scl31	Serum cholesterol level QTL 31	4.1		blood cholesterol amount (VT:0000180)	blood total cholesterol level (CMO:0000051)	17	50890908	60781592	Rat
1354654	Spl7	Serum phospholipid level QTL 7	5.5		blood phospholipid amount (VT:0006084)	blood phospholipid level (CMO:0001169)	17	50890908	60781592	Rat
4889894	Eae33	Experimental allergic encephalomyelitis QTL 33	5.2	0.0001	nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	17	50909099	86022412	Rat
2317053	Aia25	Adjuvant induced arthritis QTL 25	2.69		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	17	50909196	60781426	Rat

Markers in Region

D19344

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	17	51,273,871 - 51,273,972 (+)	MAPPER	mRatBN7.2
Rnor_6.0	17	53,966,812 - 53,966,912	NCBI	Rnor6.0
Rnor_5.0	17	51,660,418 - 51,660,518	UniSTS	Rnor5.0
RGSC_v3.4	17	59,469,081 - 59,469,181	UniSTS	RGSC3.4
Celera	17	47,281,488 - 47,281,588	UniSTS
Cytogenetic Map	17	q12.1	UniSTS

BF396244

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	17	51,263,920 - 51,264,114 (+)	MAPPER	mRatBN7.2
Rnor_6.0	17	53,956,863 - 53,957,056	NCBI	Rnor6.0
Rnor_5.0	17	51,650,469 - 51,650,662	UniSTS	Rnor5.0
RGSC_v3.4	17	59,459,129 - 59,459,322	UniSTS	RGSC3.4
Celera	17	47,271,539 - 47,271,732	UniSTS
RH 3.4 Map	17	514.18	UniSTS
Cytogenetic Map	17	q12.1	UniSTS

RH139854

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	17	51,274,700 - 51,274,883 (+)	MAPPER	mRatBN7.2
Rnor_6.0	17	53,967,641 - 53,967,823	NCBI	Rnor6.0
Rnor_5.0	17	51,661,247 - 51,661,429	UniSTS	Rnor5.0
RGSC_v3.4	17	59,469,910 - 59,470,092	UniSTS	RGSC3.4
Celera	17	47,282,317 - 47,282,499	UniSTS
Cytogenetic Map	17	q12.1	UniSTS

RH140344

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	17	51,275,849 - 51,276,003 (+)	MAPPER	mRatBN7.2
Rnor_6.0	17	53,968,789 - 53,968,942	NCBI	Rnor6.0
Rnor_5.0	17	51,662,395 - 51,662,548	UniSTS	Rnor5.0
RGSC_v3.4	17	59,471,058 - 59,471,211	UniSTS	RGSC3.4
Celera	17	47,283,465 - 47,283,618	UniSTS
Cytogenetic Map	17	q12.1	UniSTS

AA998284

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	17	51,275,384 - 51,275,571 (+)	MAPPER	mRatBN7.2
Rnor_6.0	17	53,968,325 - 53,968,510	NCBI	Rnor6.0
Rnor_5.0	17	51,661,931 - 51,662,116	UniSTS	Rnor5.0
RGSC_v3.4	17	59,470,594 - 59,470,779	UniSTS	RGSC3.4
Celera	17	47,283,001 - 47,283,186	UniSTS
RH 3.4 Map	17	531.7	UniSTS
Cytogenetic Map	17	q12.1	UniSTS

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	8	20	4	19	4			74	28	36	11
Low		35	37	37		37	8	11		7	5		8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001007626	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008771699	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095521	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095522	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095523	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276199	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276200	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AB118237	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AB118238	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AB118239	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AB118240	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AB118241	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AB118242	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AB118243	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC114215	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC131129	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC090327	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474030	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ232889	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000017	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000022483 ⟹ ENSRNOP00000022483

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	51,263,276 - 51,276,220 (+)	Ensembl
Rnor_6.0 Ensembl	17	53,956,203 - 53,968,585 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000080101 ⟹ ENSRNOP00000073229

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	17	53,962,444 - 53,971,443 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000090387 ⟹ ENSRNOP00000071601

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	51,263,263 - 51,274,839 (+)	Ensembl
Rnor_6.0 Ensembl	17	53,965,562 - 53,969,159 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000095806 ⟹ ENSRNOP00000094969

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	51,263,276 - 51,276,220 (+)	Ensembl

RefSeq Acc Id:

NM_001007626 ⟹ NP_001007627

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	55,958,750 - 55,971,135 (+)	NCBI
mRatBN7.2	17	51,263,262 - 51,275,648 (+)	NCBI
Rnor_6.0	17	53,956,203 - 53,968,587 (+)	NCBI
Rnor_5.0	17	51,649,809 - 51,665,285 (+)	NCBI
RGSC_v3.4	17	59,458,469 - 59,470,856 (+)	RGD
Celera	17	47,270,878 - 47,283,263 (+)	RGD

Sequence:

show sequence

GTGGCATACGACGCCTGCGCAGTGTGATAGGGATGGCGTATTTTCTTACACCGAGTATTGCGGC
GTTGCTGGCCGCTGAGGAGGGCGGAGATTTCTGTGTGAAATAGGGGGAGGGCTCCAAGAAAGCT
TCAGGAAGAGCGGCAGTCTGAACAATAAAGTGGGGAATTGGCGTGGGTACTGCTAGTCTCGTTT
CGGCGGCTTCAAGTCTGAGATCATCGTGGAACCGTCAACTTTGAAATTAATAAAACATGGAGAA
AACTAAAGAGAAAGCTGAAAGAATTCTTCTAGAGCCTTATAAGTACTTACTTCAATTACCAGGT
AAACAGGTGAGAACCAAACTTTCACAGGCATTTAATCACTGGCTGAAAGTTCCAGAAGACAAGC
TACAGATTATCATTGAAGTGACTGAAATGTTGCATAATGCCAGTTTACTCATTGATGATATTGA
AGACAGTTCAAAGCTCCGACGTGGTTTTCCAGTTGCTCACAGCATCTATGGTGTCCCATCTGTC
ATTAACTCTGCCAATTATGTCTACTTCCTTGGCCTGGAAAAAGTCTTAACACTTGATCACCCAG
ATGCAGTGAAGCTTTTCACACGACAGCTTTTGGAACTTCATCAGGGACAAGGCCTAGATATTTA
CTGGAGAGATACCTACACTTGTCCGACTGAAGAAGAATATAAAGCCATGGTGTTGCAGAAGACA
GGTGGCTTGTTTGGATTAGCCGTAGGCCTCATGCAGTTGTTCTCTGACTACAAAGAAGATCTAA
AGCCACTGCTGGACACACTTGGGCTCTTCTTCCAGATTAGAGATGATTACGCCAATCTACACTC
CAAAGAATACAGTGAAAACAAAAGTTTCTGTGAAGACCTGACAGAAGGAAAGTTCTCATTTCCT
ACTATTCATGCCATTTGGTCAAGGCCAGAAAGCACCCAGGTACAGAACATCCTGCGCCAAAGAA
CAGAAAATATAGACATTAAAAAGTACTGTGTGCAGTACCTGGAGGATGTAGGTTCTTTTGAATA
TACGCGATACACTCTTAGAGAGCTCGAAGCTAAAGCCTACAAACAAATCGAGGCCTGCGGTGGG
AACCCTTCACTAGTGGCTTTAGTCAAGCATTTAAGTAAGATGTTCACAGAAGAAAATGAATAAT
GTTAGCCATTCTTTTTTTTTTTTTTTTTAAGATTTATTTATGTATGTGAATACACCGTAGCTGT
CTTCAGACACACCAGAAGAGAGCATTGGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTT
GCTGGGAATTGAACTCAGGACCTCTGGAAGAACAGTCAGTGCTCTTAACCACTGAGCCATCTCT
CTAGCCCAATGTTAGTCATTCTTGATTAGACTCAATAATTTCTTTTAGTTGAAAATGAGAAGTG
GTTTCTTCCCATTTATCTTTTCAAGTACTAGTCTCCAAAAATTGAGTAAATGAGGGTAATGTGT
GTAAAATGTTTTGTTTTCAAAATCCCTTTGCACAAAATACAAAATTGAGGGCTAGAGAGATGGC
TCAGTGGTTAAAAGGCTGCTCTTCCAGAGAACCCAAGTTCCATCTCCAGGGCCCACAGTAAAGT
TCACCAACATCTGTAACTATTTCCACATAATCTTCTGGGCTTTTCAGGCACCAGGCACACACAT
AATATACAGGTATACCTATATATAGGTATATAGGGTCATAAATTTCAGACACTGAATGTGACCA
GCTCTTCCTACTACCCCACATATACTGGGCTTGTCAATAAAAACGACTTATCTTCCAAGAAACT
ATCTGCTTTCTAACAGTGAATGGAGGGTTTCCAGTTCATAGATGACAATTCAAACATGGATTTC
TTAGGCTAGTCTCTCTTGCTAGTTGGCTAAAAAGACCAAAGAACTGCTGTTTTTCCCTAAATGA
TAGTGCCAAGAGTACCTCAGTTTTATCTCTAAAGTCCTGTACCAAAGTCTGAAAAGACAAAATA
AATACACAGGCACTTTTCCAACCACCTTGCTTGTTTCCATGCTTGACACCCCACAAATCGACCC
TTTTGACAAAAGAGGCTGTTCTACTTAATGAAGTTCAATTCACAACCTAGTCTTGGTTTTTTTG
TTTTGTTTTGTTTTTTTGTTTGTGTTTTTTTTTTCTGGTTTGTGTTTTTTCTTGTAACATTTTT
CTGACCCAATCTGATTAGTATCTGTGTATAATGTTTCTTTGAAGAAAGAAAATAATATAAAAGA
TGTTCGTGGAGTTCACTAGTAATGCCAGCATTCTGAGGTAGAGTCAGGATGATTAGAAGTTCAA
GGTTATACTCTGCTCTTATATATATATAAGTTTGAGGCCAGTCTGAGTGACAGGGGACATTGTG
TCCAAAGAAAATAAAAAAAAAAAAAAACCAAATTTTTTTATTTCTTGAGACAGGTTTTACTATG
CAATTCTAGCTGGCCTAGAACTCCAGGATCTATTAGCCTGGCTTCTGCCTCTTCAAGTGCTAGA
ATCAAATGTGTGTCCTACCATGATGCCTGGCAAAGACTGTGTAAGTCAATTTATTTCCTTGCCT
AATTAAATTAATTTTGGCCTGGTGCTAACTCATAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_008771699 ⟹ XP_008769921

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	55,958,839 - 55,977,958 (+)	NCBI
mRatBN7.2	17	51,263,351 - 51,276,995 (+)	NCBI
Rnor_6.0	17	53,956,185 - 53,967,911 (+)	NCBI

Sequence:

show sequence

CCATGAGGCAGAGGGGAGGTGGCATACGACGCCTGCGCAGTGTGATAGGGATGGCGTATTTTCT
TACACCGAGTATTGCGGCGTTGCTGGCCGCTGAGGAGGGCGGAGATTTCTGTGTGAAATAGGGG
GAGGGCTCCAAGAAAGCTTCAGGAAGAGCGGCAGTCTGAACAATAAAGTGGGGAATTGGCGTGG
GTACTGCTAGTCTCGTTTCGGCGGCTTCAAGTCTGAGATCATCGTGGAACCGTAAACAGGTGAG
AACCAAACTTTCACAGGCATTTAATCACTGGCTGAAAGTTCCAGAAGACAAGCTACAGATTATC
ATTGAAGTGACTGAAATGTTGCATAATGCCAGTTTACTCATTGATGATATTGAAGACAGTTCAA
AGCTCCGACGTGGTTTTCCAGTTGCTCACAGCATCTATGGTGTCCCATCTGTCATTAACTCTGC
CAATTATGTCTACTTCCTTGGCCTGGAAAAAGTCTTAACACTTGATCACCCAGATGCAGTGAAG
CTTTTCACACGACAGCTTTTGGAACTTCATCAGGGACAAGGCCTAGATATTTACTGGAGAGATA
CCTACACTTGTCCGACTGAAGAAGAATATAAAGCCATGGTGTTGCAGAAGACAGGTGGCTTGTT
TGGATTAGCCGTAGGCCTCATGCAGTTGTTCTCTGACTACAAAGAAGATCTAAAGCCACTGCTG
GACACACTTGGGCTCTTCTTCCAGATTAGAGATGATTACGCCAATCTACACTCCAAAGAATACA
GTGAAAACAAAAGTTTCTGTGAAGACCTGACAGAAGGAAAGTTCTCATTTCCTACTATTCATGC
CATTTGGTCAAGGCCAGAAAGCACCCAGGTACAGAACATCCTGCGCCAAAGAACAGAAAATATA
GACATTAAAAAGTACTGTGTGCAGTACCTGGAGGATGTAGGTTCTTTTGAATATACGCGATACA
CTCTTAGAGAGCTCGAAGCTAAAGCCTACAAACAAATCGAGGCCTGCGGTGGGAACCCTTCACT
AGTGGCTTTAGTCAAGCATTTAAGTAAGATGTTCACAGAAGAAAATGAATAATGTTAGCCATTC
TTTTTTTTTTTTTTTTTAAGATTTATTTATGTATGTGAATACACCGTAGCTGTCTTCAGACACA
CCAGAAGAGAGCATTGGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTG
AACTCAGGACCTCTGGAAGAACAGTCAGTGCTCTTAACCACTGAGCCATCTCTCTAGCCCAATG
TTAGTCATTCTTGATTAGACTCAATAATTTCTTTTAGTTGAAAATGAGAAGTGGTTTCTTCCCA
TTTATCTTTTCAAGTACTAGTCTCCAAAAATTGAGTAAATGAGGGTAATGTGTGTAAAATGTTT
TGTTTTCAAAATCCCTTTGCACAAAATACAAAATTGAGGGCTAGAGAGATGGCTCAGTGGTTAA
AAGGCTGCTCTTCCAGAGAACCCAAGTTCCATCTCCAGGGCCCACAGTAAAGTTCACCAACATC
TGTAACTATTTCCACATAATCTTCTGGGCTTTTCAGGCACCAGGCACACACATAATATACAGGT
ATACCTATATATAGGTATATAGGGTCATAAATTTCAGACACTGAATGTGACCAGCTCTTCCTAC
TACCCCACATATACTGGGCTTGTCAATAAAAACGACTTATCTTCCAAGAAACTATCTGCTTTCT
AACAGTGAATGGAGGGTTTCCAGTTCATAGATGACAATTCAAACATGGATTTCTTAGGCTAGTC
TCTCTTGCTAGTTGGCTAAAAAGACCAAAGAACTGCTGTTTTTCCCTAAA

hide sequence

RefSeq Acc Id:

XM_039095521 ⟹ XP_038951449

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	55,959,027 - 55,977,958 (+)	NCBI
mRatBN7.2	17	51,266,951 - 51,277,006 (+)	NCBI

RefSeq Acc Id:

XM_039095522 ⟹ XP_038951450

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	55,959,027 - 55,977,958 (+)	NCBI
mRatBN7.2	17	51,268,986 - 51,277,006 (+)	NCBI

RefSeq Acc Id:

XM_039095523 ⟹ XP_038951451

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	55,958,836 - 55,977,958 (+)	NCBI
mRatBN7.2	17	51,263,276 - 51,282,471 (+)	NCBI

RefSeq Acc Id:

XM_063276199 ⟹ XP_063132269

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	55,958,836 - 55,982,762 (+)	NCBI

RefSeq Acc Id:

XM_063276200 ⟹ XP_063132270

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	55,958,836 - 55,977,958 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001007627	(Get FASTA)	NCBI Sequence Viewer
	XP_008769921	(Get FASTA)	NCBI Sequence Viewer
	XP_038951449	(Get FASTA)	NCBI Sequence Viewer
	XP_038951450	(Get FASTA)	NCBI Sequence Viewer
	XP_038951451	(Get FASTA)	NCBI Sequence Viewer
	XP_063132269	(Get FASTA)	NCBI Sequence Viewer
	XP_063132270	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH90327	(Get FASTA)	NCBI Sequence Viewer
	BAD30051	(Get FASTA)	NCBI Sequence Viewer
	BAD30052	(Get FASTA)	NCBI Sequence Viewer
	BAD30053	(Get FASTA)	NCBI Sequence Viewer
	BAD30054	(Get FASTA)	NCBI Sequence Viewer
	EDL87421	(Get FASTA)	NCBI Sequence Viewer
	EDL87422	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000022483
	ENSRNOP00000022483.4
	ENSRNOP00000071601.2
	ENSRNOP00000094969.1
	ENSRNOP00055013737
	ENSRNOP00060020600
	ENSRNOP00065028460
GenBank Protein	Q6F596	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001007627 ⟸ NM_001007626

- UniProtKB:

Q6F596 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MEKTKEKAERILLEPYKYLLQLPGKQVRTKLSQAFNHWLKVPEDKLQIIIEVTEMLHNASLLID
DIEDSSKLRRGFPVAHSIYGVPSVINSANYVYFLGLEKVLTLDHPDAVKLFTRQLLELHQGQGL
DIYWRDTYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKEDLKPLLDTLGLFFQIRDDYAN
LHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQRTENIDIKKYCVQYLEDVGS
FEYTRYTLRELEAKAYKQIEACGGNPSLVALVKHLSKMFTEENE

hide sequence

RefSeq Acc Id:

XP_008769921 ⟸ XM_008771699

- Peptide Label:

isoform X5

- Sequence:

show sequence

MLHNASLLIDDIEDSSKLRRGFPVAHSIYGVPSVINSANYVYFLGLEKVLTLDHPDAVKLFTRQ
LLELHQGQGLDIYWRDTYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKEDLKPLLDTLGL
FFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQRTENIDIKKY
CVQYLEDVGSFEYTRYTLRELEAKAYKQIEACGGNPSLVALVKHLSKMFTEENE

hide sequence

RefSeq Acc Id:

ENSRNOP00000073229 ⟸ ENSRNOT00000080101

RefSeq Acc Id:

ENSRNOP00000071601 ⟸ ENSRNOT00000090387

RefSeq Acc Id:

ENSRNOP00000022483 ⟸ ENSRNOT00000022483

RefSeq Acc Id:	XP_038951451 ⟸ XM_039095523
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038951449 ⟸ XM_039095521
- Peptide Label:	isoform X1
- UniProtKB:	Q6F596 (UniProtKB/Swiss-Prot)

RefSeq Acc Id:	XP_038951450 ⟸ XM_039095522
- Peptide Label:	isoform X1
- UniProtKB:	Q6F596 (UniProtKB/Swiss-Prot)

RefSeq Acc Id:

ENSRNOP00000094969 ⟸ ENSRNOT00000095806

RefSeq Acc Id:	XP_063132269 ⟸ XM_063276199
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_063132270 ⟸ XM_063276200
- Peptide Label:	isoform X4
- UniProtKB:	A6K9C8 (UniProtKB/TrEMBL)

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q6F596-F1-model_v2	AlphaFold	Q6F596	1-300	view protein structure

Transcriptome

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

Promoters

RGD ID:

13700516

Promoter ID:

EPDNEW_R11039

Type:

initiation region

Name:

Ggps1_1

Description:

geranylgeranyl diphosphate synthase 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	17	53,956,228 - 53,956,288	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1359680	AgrOrtholog
BioCyc Gene	G2FUF-9064	BioCyc
BioCyc Pathway	PWY-5120 [geranylgeranyl diphosphate biosynthesis]	BioCyc
BioCyc Pathway Image	PWY-5120	BioCyc
Ensembl Genes	ENSRNOG00000016767	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ENSRNOG00055010127	UniProtKB/Swiss-Prot
	ENSRNOG00060015024	UniProtKB/Swiss-Prot
	ENSRNOG00065020819	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000022483	ENTREZGENE
	ENSRNOT00000022483.6	UniProtKB/Swiss-Prot
	ENSRNOT00000090387.2	UniProtKB/TrEMBL
	ENSRNOT00000095806.1	UniProtKB/TrEMBL
	ENSRNOT00055017085	UniProtKB/Swiss-Prot
	ENSRNOT00060025776	UniProtKB/Swiss-Prot
	ENSRNOT00065035349	UniProtKB/Swiss-Prot
Gene3D-CATH	1.10.600.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7125199	IMAGE-MGC_LOAD
InterPro	Isoprenoid_synthase_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Polyprenyl_synt	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Polyprenyl_synt_CS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:291211	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:105870	IMAGE-MGC_LOAD
NCBI Gene	291211	ENTREZGENE
PANTHER	GERANYLGERANYL PYROPHOSPHATE SYNTHASE	UniProtKB/Swiss-Prot
	GERANYLGERANYL PYROPHOSPHATE SYNTHASE	UniProtKB/Swiss-Prot
	GERANYLGERANYL PYROPHOSPHATE SYNTHASE	UniProtKB/TrEMBL
	GERANYLGERANYL PYROPHOSPHATE SYNTHASE	UniProtKB/TrEMBL
Pfam	polyprenyl_synt	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Ggps1	PhenoGen
PROSITE	POLYPRENYL_SYNTHASE_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	POLYPRENYL_SYNTHASE_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000016767	RatGTEx
	ENSRNOG00055010127	RatGTEx
	ENSRNOG00060015024	RatGTEx
	ENSRNOG00065020819	RatGTEx
Superfamily-SCOP	SSF48576	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A0G2K0W0_RAT	UniProtKB/TrEMBL
	A0A8I6AN37_RAT	UniProtKB/TrEMBL
	A6K9C8	ENTREZGENE, UniProtKB/TrEMBL
	A6K9C9_RAT	UniProtKB/TrEMBL
	GGPPS_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2006-03-30	Ggps1	geranylgeranyl diphosphate synthase 1			Symbol and Name status set to approved	1299863	APPROVED
2005-07-29	Ggps1	geranylgeranyl diphosphate synthase 1			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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - OMIM

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)

BioCyc Pathways

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - OMIM

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)

BioCyc Pathways