Sc5d (sterol-C5-desaturase) - Rat Genome Database

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Gene: Sc5d (sterol-C5-desaturase) Rattus norvegicus
Analyze
Symbol: Sc5d
Name: sterol-C5-desaturase
RGD ID: 620775
Description: Enables C-5 sterol desaturase activity and delta7-sterol 5(6)-desaturase activity. Involved in cholesterol biosynthetic process via lathosterol. Is active in endoplasmic reticulum membrane. Orthologous to human SC5D (sterol-C5-desaturase); PARTICIPATES IN cholesterol biosynthetic pathway; alendronate pharmacodynamics pathway; cholesterol ester storage disease pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C-5 sterol desaturase; delta(7)-sterol 5-desaturase; delta(7)-sterol C5(6)-desaturase; lathosterol 5-desaturase; lathosterol oxidase; MGC93101; Sc5dl; sterol-C5-desaturase (ERG3 delta-5-desaturase homolog, S. cerevisiae)-like; sterol-C5-desaturase (fungal ERG3 delta-5-desaturase)-like; sterol-C5-desaturase (fungal ERG3, delta-5-desaturase) homolog; sterol-C5-desaturase (fungal ERG3, delta-5-desaturase) homolog (S. cerevisae); sterol-C5-desaturase (fungal ERG3, delta-5-desaturase)-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8851,526,669 - 51,538,277 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl851,529,346 - 51,538,277 (-)EnsemblGRCr8
mRatBN7.2842,629,649 - 42,641,257 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl842,632,672 - 42,641,273 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx848,126,129 - 48,135,073 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0846,404,794 - 46,413,738 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0844,272,388 - 44,281,332 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0846,525,406 - 46,537,014 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl846,525,400 - 46,537,050 (-)Ensemblrn6Rnor6.0
Rnor_5.0844,998,826 - 45,010,434 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4845,229,976 - 45,238,924 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera842,225,268 - 42,234,215 (-)NCBICelera
RGSC_v3.1845,238,758 - 45,247,690 (-)NCBI
Cytogenetic Map8q22NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5-triiodo-L-thyronine  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
8-Br-cAMP  (ISO)
acetamide  (EXP)
acetazolamide  (ISO)
aflatoxin B1  (ISO)
aldrin  (ISO)
all-trans-retinoic acid  (EXP,ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
Archazolid B  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
butan-1-ol  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
caffeine  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chloroprene  (ISO)
chlorpromazine  (ISO)
chlorpyrifos  (EXP)
chrysin  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
dextran sulfate  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP,ISO)
dicrotophos  (ISO)
difenoconazole  (EXP)
dinophysistoxin 1  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
epoxiconazole  (ISO)
erastin  (ISO)
ethanol  (ISO)
fenarimol  (EXP)
fipronil  (EXP)
fluoranthene  (ISO)
fluoxetine  (ISO)
flusilazole  (EXP)
flutamide  (EXP)
folic acid  (ISO)
genistein  (EXP,ISO)
gentamycin  (EXP)
haloperidol  (ISO)
hydrogen peroxide  (ISO)
isobutanol  (ISO)
isotretinoin  (ISO)
ketoconazole  (EXP)
levofloxacin  (EXP)
lidocaine  (EXP)
lipopolysaccharide  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
menadione  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-nitrosodiethylamine  (EXP)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nicotine  (ISO)
O-methyleugenol  (ISO)
obeticholic acid  (ISO)
ochratoxin A  (ISO)
okadaic acid  (ISO)
olanzapine  (ISO)
ozone  (ISO)
paracetamol  (ISO)
pentanal  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenylephrine  (EXP)
phenylmercury acetate  (ISO)
phenytoin  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propiconazole  (EXP)
quercetin 3-O-beta-D-glucofuranoside  (ISO)
quercetin 3-O-beta-D-glucopyranoside  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
succimer  (ISO)
sunitinib  (ISO)
tebuconazole  (EXP)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
tolcapone  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
Triptolide  (ISO)
triptonide  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
Yessotoxin  (ISO)
ziprasidone  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

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. Disorders of cholesterol biosynthesis: prototypic metabolic malformation syndromes. Herman GE Hum Mol Genet. 2003 Apr 1;12 Spec No 1:R75-88.
3. Partial purification and characterization of lathosterol 5-desaturase from rat liver microsomes. Honjo K, etal., J Biochem. 1985 Mar;97(3):955-9. doi: 10.1093/oxfordjournals.jbchem.a135137.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Expression and regulation of delta5-desaturase, delta6-desaturase, stearoyl-coenzyme A (CoA) desaturase 1, and stearoyl-CoA desaturase 2 in rat testis. Saether T, etal., Biol Reprod 2003 Jul;69(1):117-24. Epub 2003 Feb 19.
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. Molecular cloning and structural analysis of human sterol C5 desaturase. Sugawara T, etal., Biochim Biophys Acta 2001 Oct 31;1533(3):277-84.
15. Properties and kinetics of membrane-bound enzymes when both the enzyme and substrate are components of the same microsomal membrane. Studies on lathosterol 5-desaturase. Takakuwa Y, etal., J Biol Chem. 1994 Nov 11;269(45):27889-93.
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:12189593   PMID:12812989   PMID:29735017  


Genomics

Comparative Map Data
Sc5d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8851,526,669 - 51,538,277 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl851,529,346 - 51,538,277 (-)EnsemblGRCr8
mRatBN7.2842,629,649 - 42,641,257 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl842,632,672 - 42,641,273 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx848,126,129 - 48,135,073 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0846,404,794 - 46,413,738 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0844,272,388 - 44,281,332 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0846,525,406 - 46,537,014 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl846,525,400 - 46,537,050 (-)Ensemblrn6Rnor6.0
Rnor_5.0844,998,826 - 45,010,434 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4845,229,976 - 45,238,924 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera842,225,268 - 42,234,215 (-)NCBICelera
RGSC_v3.1845,238,758 - 45,247,690 (-)NCBI
Cytogenetic Map8q22NCBI
SC5D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811121,292,771 - 121,313,410 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11121,292,681 - 121,313,410 (+)Ensemblhg38GRCh38
GRCh3711121,163,480 - 121,184,119 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611120,668,598 - 120,689,329 (+)NCBIBuild 36Build 36hg18NCBI36
Build 3411120,668,707 - 120,684,556NCBI
Celera11118,322,556 - 118,343,287 (+)NCBICelera
Cytogenetic Map11q23.3-q24.1NCBI
HuRef11117,104,038 - 117,124,769 (+)NCBIHuRef
CHM1_111121,050,565 - 121,071,293 (+)NCBICHM1_1
T2T-CHM13v2.011121,317,829 - 121,338,469 (+)NCBIT2T-CHM13v2.0
Sc5d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39942,162,888 - 42,175,607 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl942,162,891 - 42,175,552 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38942,251,592 - 42,264,300 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl942,251,595 - 42,264,256 (-)Ensemblmm10GRCm38
MGSCv37942,062,260 - 42,072,383 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36942,005,172 - 42,015,228 (-)NCBIMGSCv36mm8
Celera939,502,932 - 39,513,104 (-)NCBICelera
Cytogenetic Map9A5.1NCBI
cM Map923.57NCBI
Sc5d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541222,274,250 - 22,288,870 (+)Ensembl
ChiLan1.0NW_00495541222,274,131 - 22,288,870 (+)NCBIChiLan1.0ChiLan1.0
SC5D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v29122,007,595 - 122,023,751 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan111123,110,665 - 123,131,599 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v011116,139,979 - 116,160,745 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111120,063,557 - 120,084,297 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11120,063,743 - 120,078,386 (+)EnsemblpanPan2panpan1.1
SC5D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1512,760,591 - 12,774,484 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl512,763,286 - 12,775,393 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha512,813,437 - 12,829,449 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0512,708,566 - 12,724,659 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl512,710,727 - 12,724,612 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1512,815,057 - 12,831,074 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0512,751,628 - 12,767,860 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0512,789,890 - 12,805,983 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Sc5d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947103,124,991 - 103,141,416 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365426,046,390 - 6,059,074 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365426,046,425 - 6,062,825 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SC5D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl948,357,165 - 48,372,386 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1948,357,115 - 48,372,391 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2953,564,379 - 53,580,339 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SC5D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11112,706,511 - 112,720,860 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1112,706,545 - 112,719,722 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604313,365,816 - 13,384,119 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sc5d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248803,874,337 - 3,896,721 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Sc5d
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1836,840,863 - 36,852,692 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Sc5d
33 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:156
Count of miRNA genes:127
Interacting mature miRNAs:141
Transcripts:ENSRNOT00000011284
Prediction methods: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
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83975280384752803Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83910625891341052Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81699464261994642Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83910625891341052Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)839106363103375781Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)81595227960952279Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)81296416557964165Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)85076395195763951Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83910625884106258Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)81296416557964165Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)81038254055382540Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)839106363103375781Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)84447792689477926Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81699464261994642Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)81038254055382540Rat
61337Bp22Blood pressure QTL 225.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625851589833Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)839106258103375958Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)81296416557964165Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)81038254055382540Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83910625891341052Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)835464071107982864Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)84754141992541419Rat
2302278Gluco36Glucose level QTL 364.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)83776085958991895Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)81038254055382540Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)83776085961459705Rat
631648Stl5Serum triglyceride level QTL 540.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)83546407171842899Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83910625884106258Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84961020468373388Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)83154366176543661Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)850763951107970527Rat
1359033Bp273Blood pressure QTL 273arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625884106258Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84961020494610204Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84444783789447837Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)835464071107982864Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81799386262252873Rat
1331744Bp217Blood pressure QTL 2173.398arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625867378345Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)839106363114525825Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83910625891341052Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)84924517894245178Rat
724540Uae8Urinary albumin excretion QTL 85urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)839106258103375958Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)835464071107982864Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)85076395167219641Rat
1359021Bp271Blood pressure QTL 2711.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)83412590255607752Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)84924517894245178Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)84447504389475043Rat

Markers in Region
RH133454  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8851,529,924 - 51,530,138 (+)Marker Load Pipeline
mRatBN7.2842,632,904 - 42,633,118 (+)MAPPERmRatBN7.2
Rnor_6.0846,528,662 - 46,528,875NCBIRnor6.0
Rnor_5.0845,002,082 - 45,002,295UniSTSRnor5.0
RGSC_v3.4845,230,572 - 45,230,785UniSTSRGSC3.4
Celera842,225,864 - 42,226,077UniSTS
RH 3.4 Map8407.3UniSTS
Cytogenetic Map8q22UniSTS
AI228309  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2842,632,583 - 42,632,740 (+)MAPPERmRatBN7.2
Rnor_6.0846,528,341 - 46,528,497NCBIRnor6.0
Rnor_5.0845,001,761 - 45,001,917UniSTSRnor5.0
RGSC_v3.4845,230,251 - 45,230,407UniSTSRGSC3.4
Celera842,225,543 - 42,225,699UniSTS
RH 3.4 Map8407.6UniSTS
Cytogenetic Map8q22UniSTS
RH136956  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2842,632,602 - 42,632,755 (+)MAPPERmRatBN7.2
Rnor_6.0846,528,360 - 46,528,512NCBIRnor6.0
Rnor_5.0845,001,780 - 45,001,932UniSTSRnor5.0
RGSC_v3.4845,230,270 - 45,230,422UniSTSRGSC3.4
Celera842,225,562 - 42,225,714UniSTS
RH 3.4 Map8407.6UniSTS
Cytogenetic Map8q22UniSTS
RH139703  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2842,633,558 - 42,633,741 (+)MAPPERmRatBN7.2
Rnor_6.0846,529,316 - 46,529,498NCBIRnor6.0
Rnor_5.0845,002,736 - 45,002,918UniSTSRnor5.0
RGSC_v3.4845,231,226 - 45,231,408UniSTSRGSC3.4
Celera842,226,518 - 42,226,700UniSTS
RH 3.4 Map8408.1UniSTS
Cytogenetic Map8q22UniSTS


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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000011284   ⟹   ENSRNOP00000011284
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl846,525,400 - 46,537,050 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106582   ⟹   ENSRNOP00000092291
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl851,529,346 - 51,538,277 (-)Ensembl
mRatBN7.2 Ensembl842,632,672 - 42,641,273 (-)Ensembl
RefSeq Acc Id: NM_053642   ⟹   NP_446094
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,529,329 - 51,538,277 (-)NCBI
mRatBN7.2842,632,309 - 42,641,257 (-)NCBI
Rnor_6.0846,528,066 - 46,537,014 (-)NCBI
Rnor_5.0844,998,826 - 45,010,434 (-)NCBI
RGSC_v3.4845,229,976 - 45,238,924 (-)RGD
Celera842,225,268 - 42,234,215 (-)RGD
Sequence:
RefSeq Acc Id: XM_017595406   ⟹   XP_017450895
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8851,526,669 - 51,538,260 (-)NCBI
mRatBN7.2842,629,649 - 42,641,199 (-)NCBI
Rnor_6.0846,525,406 - 46,536,955 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_446094 (Get FASTA)   NCBI Sequence Viewer  
  XP_017450895 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH81704 (Get FASTA)   NCBI Sequence Viewer  
  BAB19798 (Get FASTA)   NCBI Sequence Viewer  
  EDL95251 (Get FASTA)   NCBI Sequence Viewer  
  EDL95252 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000092291
  ENSRNOP00000092291.1
GenBank Protein Q9EQS5 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_446094   ⟸   NM_053642
- UniProtKB: Q9EQS5 (UniProtKB/TrEMBL),   A6J3S8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450895   ⟸   XM_017595406
- Peptide Label: isoform X1
- UniProtKB: Q9EQS5 (UniProtKB/Swiss-Prot),   A6J3S8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000011284   ⟸   ENSRNOT00000011284
Ensembl Acc Id: ENSRNOP00000092291   ⟸   ENSRNOT00000106582
Protein Domains
Fatty acid hydroxylase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9EQS5-F1-model_v2 AlphaFold Q9EQS5 1-299 view protein structure

Transcriptome

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

Promoters
RGD ID:13695875
Promoter ID:EPDNEW_R6400
Type:initiation region
Name:Sc5d_1
Description:sterol-C5-desaturase
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_6.0846,537,031 - 46,537,091EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620775 AgrOrtholog
BioCyc Gene G2FUF-30776 BioCyc
BioCyc Pathway PWY66-4 [cholesterol biosynthesis III (via desmosterol)] BioCyc
BioCyc Pathway Image PWY66-4 BioCyc
Ensembl Genes ENSRNOG00000008305 Ensembl
  ENSRNOG00000065944 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000106582 ENTREZGENE
  ENSRNOT00000106582.1 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7131154 IMAGE-MGC_LOAD
InterPro Fatty_acid_hydroxylase UniProtKB/Swiss-Prot
  Sterol_Desaturase_Related UniProtKB/Swiss-Prot
KEGG Report rno:114100 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93101 IMAGE-MGC_LOAD
NCBI Gene 114100 ENTREZGENE
PANTHER STEROL DESATURASE UniProtKB/Swiss-Prot
Pfam FA_hydroxylase UniProtKB/Swiss-Prot
PhenoGen Sc5d PhenoGen
RatGTEx ENSRNOG00000008305 RatGTEx
  ENSRNOG00000065944 RatGTEx
UniProt A6J3S8 ENTREZGENE, UniProtKB/TrEMBL
  Q9EQS5 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-20 Sc5d  sterol-C5-desaturase  Sc5dl  sterol-C5-desaturase (ERG3 delta-5-desaturase homolog, S. cerevisiae)-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-18 Sc5dl  sterol-C5-desaturase (ERG3 delta-5-desaturase homolog, S. cerevisiae)-like  Sc5d  sterol-C5-desaturase (fungal ERG3, delta-5-desaturase) homolog (S. cerevisae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Sc5d  sterol-C5-desaturase (fungal ERG3, delta-5-desaturase) homolog (S. cerevisae)    sterol-C5-desaturase (fungal ERG3, delta-5-desaturase)-like  Name updated 1299863 APPROVED
2002-08-07 Sc5d  sterol-C5-desaturase (fungal ERG3, delta-5-desaturase)-like      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_regulation expression in Sertoli cells is positively regulated by FSH 1304365