Fdft1 (farnesyl diphosphate farnesyl transferase 1) - Rat Genome Database

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Gene: Fdft1 (farnesyl diphosphate farnesyl transferase 1) Rattus norvegicus
Analyze
Symbol: Fdft1
Name: farnesyl diphosphate farnesyl transferase 1
RGD ID: 61834
Description: Enables farnesyl-diphosphate farnesyltransferase activity. Involved in cholesterol biosynthetic process and farnesyl diphosphate metabolic process. Located in endoplasmic reticulum membrane. Used to study cataract. Orthologous to human FDFT1 (farnesyl-diphosphate farnesyltransferase 1); PARTICIPATES IN cholesterol biosynthetic pathway; alendronate pharmacodynamics pathway; cholesterol ester storage disease pathway; INTERACTS WITH 1,2,4-trimethylbenzene; 1-(3-(trifluoromethyl)phenyl)piperazine; 1-benzylpiperazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: farnesyl diphosphate farnesyltransferase; farnesyl-diphosphate farnesyltransferase; FPP:FPP farnesyltransferase; MGC93486; SQS; squalene synthase; squalene synthetase; SS
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   SCR/Sscr  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81541,588,114 - 41,616,168 (-)NCBIGRCr8
mRatBN7.21537,412,143 - 37,440,198 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1537,412,146 - 37,440,287 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1539,264,820 - 39,292,948 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01540,415,629 - 40,443,757 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01538,872,774 - 38,900,828 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01546,339,248 - 46,367,302 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1546,339,249 - 46,367,302 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01550,104,042 - 50,132,096 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41542,425,336 - 42,453,390 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11542,442,550 - 42,469,109 (-)NCBI
Celera1537,096,417 - 37,124,524 (-)NCBICelera
Cytogenetic Map15p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2,4-trimethylbenzene  (EXP)
1,2-dimethylhydrazine  (ISO)
1-(3-(trifluoromethyl)phenyl)piperazine  (EXP)
1-benzylpiperazine  (EXP)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
22-Hydroxycholesterol  (ISO)
3,3',5-triiodo-L-thyronine  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-(4-chlorophenyl)imidazo[2,1-b][1,3]thiazole-5-carbaldehyde O-(3,4-dichlorobenzyl)oxime  (ISO)
6-propyl-2-thiouracil  (EXP)
8-Br-cAMP  (ISO)
9-cis-retinoic acid  (EXP)
acetamide  (EXP)
acetylsalicylic acid  (EXP)
acrolein  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
aluminium atom  (ISO)
aluminium(0)  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
antimony(0)  (ISO)
Archazolid B  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
avobenzone  (ISO)
Azaspiracid  (ISO)
azoxystrobin  (ISO)
benzbromarone  (EXP)
benzene  (ISO)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (ISO)
bexarotene  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
butan-1-ol  (ISO)
caffeine  (EXP,ISO)
capsaicin  (ISO)
captan  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chloropicrin  (ISO)
chlorpyrifos  (ISO)
cholesterol  (ISO)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
clofibrate  (EXP)
cocaine  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
curcumin  (EXP)
cyclosporin A  (ISO)
cyproconazole  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP)
dibutyl phthalate  (EXP)
dichloromethane  (ISO)
difenoconazole  (EXP)
dimethylarsinic acid  (ISO)
dinophysistoxin 1  (ISO)
dioxygen  (ISO)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
diuron  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
farnesol  (ISO)
fenarimol  (EXP)
fenofibrate  (ISO)
flavonoids  (ISO)
fluoranthene  (ISO)
fluoxetine  (ISO)
flusilazole  (EXP,ISO)
fluvastatin  (ISO)
folic acid  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
fumonisin B1  (ISO)
Ganoderic acid A  (ISO)
gentamycin  (EXP)
GW 4064  (ISO)
hexaconazole  (ISO)
hydrogen peroxide  (ISO)
isoflavones  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
ketamine  (EXP)
ketoconazole  (EXP)
L-ethionine  (EXP)
lead nitrate  (EXP)
lead(0)  (ISO)
leflunomide  (ISO)
lovastatin  (ISO)
maneb  (ISO)
methidathion  (ISO)
methyl methanesulfonate  (ISO)
methylarsonic acid  (ISO)
methylmercury chloride  (ISO)
miconazole  (ISO)
mitomycin C  (ISO)
mitoxantrone  (ISO)
N-ethyl-N-nitrosourea  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (ISO)
okadaic acid  (ISO)
oleic acid  (ISO)
omeprazole  (EXP)
ozone  (EXP,ISO)
p-chloromercuribenzoic acid  (ISO)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorobutanesulfonic acid  (EXP)
perfluorobutyric acid  (EXP)
perfluorododecanoic acid  (EXP)
perfluorohexanesulfonic acid  (EXP,ISO)
perfluorohexanoic acid  (EXP)
perfluorononanoic acid  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
perfluoroundecanoic acid  (EXP)
phencyclidine  (ISO)
phenobarbital  (EXP,ISO)
phenylmercury acetate  (ISO)
phenylpropanolamine  (ISO)
phosgene  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (EXP,ISO)
piroxicam  (ISO)
potassium dichromate  (ISO)
pravastatin  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propiconazole  (EXP)
quercetin  (ISO)
quercetin 3-O-beta-D-glucofuranoside  (ISO)
quercetin 3-O-beta-D-glucopyranoside  (ISO)
resveratrol  (ISO)
rotenone  (EXP,ISO)
SB 431542  (ISO)
selenium atom  (ISO)
senecionine  (ISO)
simvastatin  (EXP,ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sunitinib  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (ISO)
thapsigargin  (ISO)
Theaflavin 3,3'-digallate  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (ISO)
triadimefon  (ISO)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
Triptolide  (EXP)
tunicamycin  (ISO)
undecane  (EXP)
valproic acid  (ISO)
vincristine  (ISO)
vorinostat  (ISO)
Yessotoxin  (ISO)
zoledronic acid  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
4. Molecular cloning, expression, and characterization of the cDNA for the rat hepatic squalene synthase. McKenzie TL, etal., J Biol Chem 1992 Oct 25;267(30):21368-74.
5. Lanosterol synthase mutations cause cholesterol deficiency-associated cataracts in the Shumiya cataract rat. Mori M, etal., J Clin Invest. 2006 Feb;116(2):395-404. Epub 2006 Jan 26.
6. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
8. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
9. GOA pipeline RGD automated data pipeline
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Solubilization, purification, and characterization of a truncated form of rat hepatic squalene synthetase. Shechter I, etal., J Biol Chem 1992 Apr 25;267(12):8628-35.
12. Subcellular localization of squalene synthase in rat hepatic cells. Biochemical and immunochemical evidence. Stamellos KD, etal., J Biol Chem. 1993 Jun 15;268(17):12825-36.
13. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
14. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
15. Defects of cholesterol biosynthesis. Waterham HR FEBS Lett. 2006 Oct 9;580(23):5442-9. Epub 2006 Jul 20.
Additional References at PubMed
PMID:8889548   PMID:15489334   PMID:17460354   PMID:32980992  


Genomics

Comparative Map Data
Fdft1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81541,588,114 - 41,616,168 (-)NCBIGRCr8
mRatBN7.21537,412,143 - 37,440,198 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1537,412,146 - 37,440,287 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1539,264,820 - 39,292,948 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01540,415,629 - 40,443,757 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01538,872,774 - 38,900,828 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01546,339,248 - 46,367,302 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1546,339,249 - 46,367,302 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01550,104,042 - 50,132,096 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41542,425,336 - 42,453,390 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11542,442,550 - 42,469,109 (-)NCBI
Celera1537,096,417 - 37,124,524 (-)NCBICelera
Cytogenetic Map15p12NCBI
FDFT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38811,795,582 - 11,839,309 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl811,795,573 - 11,839,395 (+)EnsemblGRCh38hg38GRCh38
GRCh37811,653,091 - 11,696,818 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36811,697,599 - 11,734,227 (+)NCBINCBI36Build 36hg18NCBI36
Build 34811,697,663 - 11,734,215NCBI
Celera810,789,513 - 10,826,122 (+)NCBICelera
Cytogenetic Map8p23.1NCBI
HuRef810,591,147 - 10,627,774 (+)NCBIHuRef
CHM1_1811,725,653 - 11,762,299 (+)NCBICHM1_1
T2T-CHM13v2.087,900,999 - 7,944,714 (-)NCBIT2T-CHM13v2.0
Fdft1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391463,382,599 - 63,419,136 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1463,382,599 - 63,417,027 (-)EnsemblGRCm39 Ensembl
GRCm381463,145,150 - 63,181,687 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1463,145,150 - 63,179,578 (-)EnsemblGRCm38mm10GRCm38
MGSCv371463,763,987 - 63,796,630 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361462,099,260 - 62,131,903 (-)NCBIMGSCv36mm8
Celera1460,907,922 - 60,941,524 (-)NCBICelera
Cytogenetic Map14D1NCBI
cM Map1433.24NCBI
Fdft1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540353,067,637 - 53,081,499 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540353,068,011 - 53,081,499 (+)NCBIChiLan1.0ChiLan1.0
FDFT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2728,270,343 - 28,306,745 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan184,296,571 - 4,332,974 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v087,363,250 - 7,399,863 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
FDFT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12526,060,031 - 26,093,515 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2526,060,386 - 26,093,582 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2526,717,027 - 26,750,517 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02526,215,096 - 26,248,206 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2526,212,580 - 26,248,141 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12526,160,696 - 26,194,180 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02526,064,844 - 26,097,943 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02526,216,048 - 26,249,367 (-)NCBIUU_Cfam_GSD_1.0
Fdft1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934461,589,408 - 61,590,034 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366283,599,435 - 3,600,061 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FDFT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1414,967,074 - 15,016,227 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11414,976,259 - 15,010,701 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21416,164,964 - 16,199,406 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FDFT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.187,272,580 - 7,306,859 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl87,271,509 - 7,306,760 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605235,129,389 - 35,164,015 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fdft1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475825,340,074 - 25,366,299 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475825,340,142 - 25,363,669 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fdft1
122 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:454
Count of miRNA genes:244
Interacting mature miRNAs:298
Transcripts:ENSRNOT00000032089
Prediction methods:Microtar, Miranda, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat

Markers in Region
RH128506  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21537,412,224 - 37,412,411 (+)MAPPERmRatBN7.2
Rnor_6.01546,339,330 - 46,339,516NCBIRnor6.0
Rnor_5.01550,104,124 - 50,104,310UniSTSRnor5.0
RGSC_v3.41542,425,418 - 42,425,604UniSTSRGSC3.4
Celera1537,096,499 - 37,096,685UniSTS
RH 3.4 Map15269.5UniSTS
Cytogenetic Map15p12UniSTS
RH133832  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21537,413,761 - 37,413,977 (+)MAPPERmRatBN7.2
Rnor_6.01546,340,867 - 46,341,082NCBIRnor6.0
Rnor_5.01550,105,661 - 50,105,876UniSTSRnor5.0
RGSC_v3.41542,426,955 - 42,427,170UniSTSRGSC3.4
Celera1537,098,036 - 37,098,251UniSTS
Cytogenetic Map15p12UniSTS
BE105722  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21537,411,874 - 37,412,043 (+)MAPPERmRatBN7.2
Rnor_6.01546,338,980 - 46,339,148NCBIRnor6.0
Rnor_5.01550,103,774 - 50,103,942UniSTSRnor5.0
RGSC_v3.41542,425,068 - 42,425,236UniSTSRGSC3.4
Celera1537,096,149 - 37,096,317UniSTS
RH 3.4 Map15272.2UniSTS
Cytogenetic Map15p12UniSTS
AI176781  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21537,411,797 - 37,411,997 (+)MAPPERmRatBN7.2
Rnor_6.01546,338,903 - 46,339,102NCBIRnor6.0
Rnor_5.01550,103,697 - 50,103,896UniSTSRnor5.0
RGSC_v3.41542,424,991 - 42,425,190UniSTSRGSC3.4
Celera1537,096,072 - 37,096,271UniSTS
RH 3.4 Map15270.3UniSTS
Cytogenetic Map15p12UniSTS


Related Rat Strains
The following Strains have been annotated to Fdft1
SCR/Sscr    


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 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000032089   ⟹   ENSRNOP00000029808
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1537,412,155 - 37,440,287 (-)Ensembl
Rnor_6.0 Ensembl1546,339,249 - 46,367,302 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117968   ⟹   ENSRNOP00000086658
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1537,412,146 - 37,440,194 (-)Ensembl
RefSeq Acc Id: NM_019238   ⟹   NP_062111
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81541,588,114 - 41,616,168 (-)NCBI
mRatBN7.21537,412,143 - 37,440,198 (-)NCBI
Rnor_6.01546,339,248 - 46,367,302 (-)NCBI
Rnor_5.01550,104,042 - 50,132,096 (-)NCBI
RGSC_v3.41542,425,336 - 42,453,390 (-)RGD
Celera1537,096,417 - 37,124,524 (-)RGD
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_062111   ⟸   NM_019238
- UniProtKB: Q02769 (UniProtKB/Swiss-Prot),   A6K6F7 (UniProtKB/TrEMBL),   A0A8I6GF68 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000029808   ⟸   ENSRNOT00000032089
RefSeq Acc Id: ENSRNOP00000086658   ⟸   ENSRNOT00000117968

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q02769-F1-model_v2 AlphaFold Q02769 1-416 view protein structure

Transcriptome

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

Promoters
RGD ID:13699776
Promoter ID:EPDNEW_R10298
Type:initiation region
Name:Fdft1_1
Description:farnesyl diphosphate farnesyl transferase 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01546,367,315 - 46,367,375EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61834 AgrOrtholog
BioCyc Gene G2FUF-13437 BioCyc
BioCyc Pathway PWY-5670 [epoxysqualene biosynthesis] BioCyc
BioCyc Pathway Image PWY-5670 BioCyc
Ensembl Genes ENSRNOG00000021314 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00065030182 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000032089 ENTREZGENE
  ENSRNOT00000032089.5 UniProtKB/Swiss-Prot
  ENSRNOT00000117968.1 UniProtKB/TrEMBL
  ENSRNOT00065052092 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.600.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7188993 IMAGE-MGC_LOAD
InterPro Isoprenoid_synthase_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Squ/phyt_synthse UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Squal_synth-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Squalene/phytoene_synthase_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Trans_IPPS_euk-type UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Trans_IPPS_HH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29580 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93486 IMAGE-MGC_LOAD
NCBI Gene 29580 ENTREZGENE
PANTHER PTHR11626 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SQUALENE SYNTHASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SQS_PSY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Fdft1 PhenoGen
PROSITE SQUALEN_PHYTOEN_SYN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SQUALEN_PHYTOEN_SYN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000021314 RatGTEx
  ENSRNOG00065030182 RatGTEx
Superfamily-SCOP SSF48576 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC229595
UniProt A0A8I6GF68 ENTREZGENE, UniProtKB/TrEMBL
  A6K6F7 ENTREZGENE, UniProtKB/TrEMBL
  FDFT_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Fdft1  farnesyl diphosphate farnesyl transferase 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference