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: Predicted to enable squalene synthase [NAD(P)H] 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
Black Rat
Alliance Orthologs
More Info more info ...
Is Marker For: Strains:   SCR/Sscr
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81541,588,114 - 41,616,168 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1541,588,117 - 41,616,168 (-)EnsemblGRCr8
mRatBN7.21537,412,143 - 37,440,198 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1537,412,146 - 37,440,287 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1539,264,820 - 39,292,948 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01540,415,629 - 40,443,757 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01538,872,774 - 38,900,828 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01546,339,248 - 46,367,302 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1546,339,249 - 46,367,302 (-)Ensemblrn6Rnor6.0
Rnor_5.01550,104,042 - 50,132,096 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41542,425,336 - 42,453,390 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1537,096,417 - 37,124,524 (-)NCBICelera
RGSC_v3.11542,442,550 - 42,469,109 (-)NCBI
Cytogenetic Map15p12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

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-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
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)
aldehydo-D-glucose  (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)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
avobenzone  (ISO)
Azaspiracid  (ISO)
azoxystrobin  (ISO)
benzbromarone  (EXP)
benzene  (ISO)
benzo[a]pyrene  (ISO)
beta-lapachone  (ISO)
beta-naphthoflavone  (ISO)
bexarotene  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
butan-1-ol  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (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)
D-glucose  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP)
dibutyl phthalate  (EXP)
dichloromethane  (ISO)
difenoconazole  (EXP)
dimethyl sulfoxide  (ISO)
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)
glucose  (ISO)
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,ISO)
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

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Persistent Neuroadaptations in the Expression of Genes Involved in Cholesterol Homeostasis Induced by Chronic, Voluntary Alcohol Intake in Rats. Alsebaaly J, etal., Front Mol Neurosci. 2018 Dec 13;11:457. doi: 10.3389/fnmol.2018.00457. eCollection 2018.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
5. 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.
6. 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.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
10. GOA pipeline RGD automated data pipeline
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. 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.
13. 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.
14. 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.
15. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
16. 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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1541,588,117 - 41,616,168 (-)EnsemblGRCr8
mRatBN7.21537,412,143 - 37,440,198 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1537,412,146 - 37,440,287 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1539,264,820 - 39,292,948 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01540,415,629 - 40,443,757 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01538,872,774 - 38,900,828 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01546,339,248 - 46,367,302 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1546,339,249 - 46,367,302 (-)Ensemblrn6Rnor6.0
Rnor_5.01550,104,042 - 50,132,096 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41542,425,336 - 42,453,390 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1537,096,417 - 37,124,524 (-)NCBICelera
RGSC_v3.11542,442,550 - 42,469,109 (-)NCBI
Cytogenetic Map15p12NCBI
FDFT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38811,795,582 - 11,839,298 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl811,795,570 - 11,839,500 (+)Ensemblhg38GRCh38
GRCh37811,653,091 - 11,696,807 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36811,697,599 - 11,734,227 (+)NCBIBuild 36Build 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-CHM13v2.087,901,010 - 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 EnsemblGRCm39
GRCm381463,145,150 - 63,181,687 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1463,145,150 - 63,179,578 (-)Ensemblmm10GRCm38
MGSCv371463,763,987 - 63,796,630 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (+)Ensembl
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2526,717,027 - 26,750,517 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02526,215,096 - 26,248,206 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475825,340,142 - 25,363,669 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Fdft1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11261,199,609 - 61,225,915 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Fdft1
76 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152272835342072050Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15278592347785923Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat

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

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000032089   ⟹   ENSRNOP00000029808
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1541,588,117 - 41,616,168 (-)Ensembl
mRatBN7.2 Ensembl1537,412,155 - 37,440,287 (-)Ensembl
Rnor_6.0 Ensembl1546,339,249 - 46,367,302 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000117968   ⟹   ENSRNOP00000086658
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1541,588,117 - 41,607,297 (-)Ensembl
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:
RefSeq Acc Id: NP_062111   ⟸   NM_019238
- UniProtKB: Q02769 (UniProtKB/Swiss-Prot),   A6K6F7 (UniProtKB/TrEMBL),   A0A8I6GF68 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000029808   ⟸   ENSRNOT00000032089
Ensembl 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
Ensembl Transcript ENSRNOT00000032089 ENTREZGENE
  ENSRNOT00000032089.5 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.600.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7188993 IMAGE-MGC_LOAD
InterPro Isoprenoid_synthase_dom_sf UniProtKB/Swiss-Prot
  Squ/phyt_synthse UniProtKB/Swiss-Prot
  Squal_synth-like UniProtKB/Swiss-Prot
  Squalene/phytoene_synthase_CS UniProtKB/Swiss-Prot
  Trans_IPPS_euk-type UniProtKB/Swiss-Prot
  Trans_IPPS_HH UniProtKB/Swiss-Prot
KEGG Report rno:29580 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93486 IMAGE-MGC_LOAD
NCBI Gene 29580 ENTREZGENE
PANTHER PTHR11626 UniProtKB/Swiss-Prot
  SQUALENE SYNTHASE UniProtKB/Swiss-Prot
Pfam SQS_PSY UniProtKB/Swiss-Prot
PhenoGen Fdft1 PhenoGen
PROSITE SQUALEN_PHYTOEN_SYN_1 UniProtKB/Swiss-Prot
  SQUALEN_PHYTOEN_SYN_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000021314 RatGTEx
Superfamily-SCOP SSF48576 UniProtKB/Swiss-Prot
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