Scd4 (stearoyl-coenzyme A desaturase 4) - Rat Genome Database

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Gene: Scd4 (stearoyl-coenzyme A desaturase 4) Rattus norvegicus
Analyze
Symbol: Scd4
Name: stearoyl-coenzyme A desaturase 4
RGD ID: 1563648
Description: Predicted to enable iron ion binding activity; palmitoyl-CoA 9-desaturase activity; and stearoyl-CoA 9-desaturase activity. Predicted to be involved in cellular response to nutrient; fatty acid biosynthetic process; and response to fatty acid. Predicted to act upstream of or within fatty acid biosynthetic process. Predicted to be located in membrane. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human SCD (stearoyl-CoA desaturase); PARTICIPATES IN eicosanoid signaling pathway via peroxisome proliferator-activated receptor gamma; unsaturated fatty acid biosynthetic pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: acyl-CoA desaturase 4; LOC499358; RGD1563648; similar to stearoyl-CoA desaturase-4; stearoyl-CoA desaturase 4
RGD Orthologs
Mouse
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81253,152,519 - 253,165,216 (+)NCBIGRCr8
mRatBN7.21243,203,433 - 243,216,007 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1243,203,881 - 243,215,148 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01264,094,007 - 264,105,473 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1264,094,080 - 264,105,344 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01271,536,899 - 271,548,370 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41249,392,727 - 249,404,075 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1239,018,702 - 239,030,168 (+)NCBICelera
Cytogenetic Map1q54NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


1 to 20 of 32 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scd4Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of SCD4 mRNACTDPMID:33387578
Scd4Rat6-propyl-2-thiouracil decreases expressionEXP 6480464Propylthiouracil results in decreased expression of SCD4 mRNACTDPMID:24780913
Scd4Ratamitrole decreases expressionEXP 6480464Amitrole results in decreased expression of SCD4 mRNACTDPMID:30047161
Scd4Ratatrazine affects methylationEXP 6480464Atrazine affects the methylation of SCD4 geneCTDPMID:35440735
Scd4Ratbis(2-ethylhexyl) phthalate multiple interactionsISOScd4 (Mus musculus)6480464[diethyl phthalate co-treated with Diethylhexyl Phthalate co-treated with diisononyl phthalate co-treated with Dibutyl Phthalate co-treated with diisobutyl phthalate co-treated with butylbenzyl phthalate] affects the expression of SCD4 mRNACTDPMID:39150890
Scd4Ratbisphenol A increases expressionEXP 6480464bisphenol A results in increased expression of SCD4 mRNACTDPMID:25181051 and PMID:35192832
Scd4Ratbisphenol F increases expressionISOScd4 (Mus musculus)6480464bisphenol F results in increased expression of SCD4 mRNACTDPMID:38685157
Scd4RatButylbenzyl phthalate multiple interactionsISOScd4 (Mus musculus)6480464[diethyl phthalate co-treated with Diethylhexyl Phthalate co-treated with diisononyl phthalate co-treated with Dibutyl Phthalate co-treated with diisobutyl phthalate co-treated with butylbenzyl phthalate] affects the expression of SCD4 mRNACTDPMID:39150890
Scd4RatCuprizon decreases expressionEXP 6480464Cuprizone results in decreased expression of SCD4 mRNACTDPMID:27523638
Scd4Ratdibutyl phthalate multiple interactionsISOScd4 (Mus musculus)6480464[diethyl phthalate co-treated with Diethylhexyl Phthalate co-treated with diisononyl phthalate co-treated with Dibutyl Phthalate co-treated with diisobutyl phthalate co-treated with butylbenzyl phthalate] affects the expression of SCD4 mRNACTDPMID:39150890
Scd4Ratdiethyl phthalate multiple interactionsISOScd4 (Mus musculus)6480464[diethyl phthalate co-treated with Diethylhexyl Phthalate co-treated with diisononyl phthalate co-treated with Dibutyl Phthalate co-treated with diisobutyl phthalate co-treated with butylbenzyl phthalate] affects the expression of SCD4 mRNACTDPMID:39150890
Scd4Ratdiisobutyl phthalate multiple interactionsISOScd4 (Mus musculus)6480464[diethyl phthalate co-treated with Diethylhexyl Phthalate co-treated with diisononyl phthalate co-treated with Dibutyl Phthalate co-treated with diisobutyl phthalate co-treated with butylbenzyl phthalate] affects the expression of SCD4 mRNACTDPMID:39150890
Scd4Ratdiisononyl phthalate multiple interactionsISOScd4 (Mus musculus)6480464[diethyl phthalate co-treated with Diethylhexyl Phthalate co-treated with diisononyl phthalate co-treated with Dibutyl Phthalate co-treated with diisobutyl phthalate co-treated with butylbenzyl phthalate] affects the expression of SCD4 mRNACTDPMID:39150890
Scd4Ratdoxorubicin decreases expressionEXP 6480464Doxorubicin results in decreased expression of SCD4 mRNACTDPMID:32289291
Scd4Ratendosulfan decreases expressionEXP 6480464Endosulfan results in decreased expression of SCD4 mRNACTDPMID:29391264
Scd4Ratflutamide increases expressionEXP 6480464Flutamide results in increased expression of SCD4 mRNACTDPMID:24793618
Scd4Ratmanganese(II) chloride decreases expressionEXP 6480464manganese chloride results in decreased expression of SCD4 mRNACTDPMID:28801915
Scd4Ratmanganese(II) chloride increases methylationEXP 6480464manganese chloride results in increased methylation of SCD4 geneCTDPMID:28801915
Scd4Ratmethimazole decreases expressionEXP 6480464Methimazole results in decreased expression of SCD4 mRNACTDPMID:30047161
Scd4RatMonobutylphthalate increases expressionEXP 6480464monobutyl phthalate results in increased expression of SCD4 mRNACTDPMID:29162477

1 to 20 of 32 rows

Biological Process
1 to 12 of 12 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scd4Ratcellular response to nutrient involved_inISOScd4 (Mus musculus)1624291 PMID:12815040RGDPMID:12815040
Scd4Ratfatty acid biosynthetic process acts_upstream_of_or_withinISOScd4 (Mus musculus)1624291 PMID:12815040RGDPMID:12815040
Scd4Ratfatty acid biosynthetic process involved_inIEAUniProtKB-KW:KW-02751600115GO_REF:0000043UniProtGO_REF:0000043
Scd4Ratfatty acid biosynthetic process involved_inIEAARBA:ARBA000286941600115GO_REF:0000117UniProtGO_REF:0000117
Scd4Ratfatty acid metabolic process involved_inIEAUniProtKB-KW:KW-02761600115GO_REF:0000043UniProtGO_REF:0000043
Scd4Ratlipid metabolic process involved_inIEAUniProtKB-KW:KW-04431600115GO_REF:0000043UniProtGO_REF:0000043
Scd4Ratlipid metabolic process involved_inIEAInterPro:IPR0058041600115GO_REF:0000002InterProGO_REF:0000002
Scd4Ratmonounsaturated fatty acid biosynthetic process involved_inISOScd4 (Mus musculus)1624291 PMID:12815040RGDPMID:12815040
Scd4Ratmonounsaturated fatty acid biosynthetic process acts_upstream_of_or_withinISOScd4 (Mus musculus)1624291 PMID:16443825RGDPMID:16443825
Scd4Ratmonounsaturated fatty acid biosynthetic process involved_inIBAMGI:1353437 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Scd4Ratresponse to fatty acid involved_inIBAPANTHER:PTN002603094 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Scd4Ratunsaturated fatty acid biosynthetic process involved_inIBACGD:CAL0000197289 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
1 to 12 of 12 rows

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scd4Ratendoplasmic reticulum membrane is_active_inIBAMGI:98239 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Scd4Ratintracellular membrane-bounded organelle located_inIEAUniProtKB-KW:KW-04921600115GO_REF:0000043UniProtGO_REF:0000043
Scd4Ratmembrane located_inISOScd4 (Mus musculus)1624291 PMID:12815040RGDPMID:12815040
Scd4Ratmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043
Scd4Ratmembrane located_inIEAUniProtKB-SubCell:SL-01621600115GO_REF:0000044UniProtGO_REF:0000044

Molecular Function
1 to 9 of 9 rows

  
1 to 9 of 9 rows

Imported Annotations - KEGG (archival)

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scd4Rateicosanoid signaling pathway via peroxisome proliferator-activated receptor gamma  IEA 6907045 KEGGrno:03320
Scd4Ratunsaturated fatty acid biosynthetic pathway  IEA 6907045 KEGGrno:01040

#
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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
PMID:12815040   PMID:16443825  



Scd4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81253,152,519 - 253,165,216 (+)NCBIGRCr8
mRatBN7.21243,203,433 - 243,216,007 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1243,203,881 - 243,215,148 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01264,094,007 - 264,105,473 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1264,094,080 - 264,105,344 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01271,536,899 - 271,548,370 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41249,392,727 - 249,404,075 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1239,018,702 - 239,030,168 (+)NCBICelera
Cytogenetic Map1q54NCBI
Scd4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391944,321,765 - 44,335,182 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1944,321,531 - 44,335,182 (+)EnsemblGRCm39 Ensembl
GRCm381944,333,326 - 44,346,743 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1944,333,092 - 44,346,743 (+)EnsemblGRCm38mm10GRCm38
MGSCv371944,407,816 - 44,421,233 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361944,386,637 - 44,400,054 (+)NCBIMGSCv36mm8
Celera1945,107,480 - 45,120,860 (+)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1937.98NCBI

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Variants in Scd4
169 total Variants

Predicted Target Of
Summary Value
Count of predictions:139
Count of miRNA genes:110
Interacting mature miRNAs:122
Transcripts:ENSRNOT00000017834, ENSRNOT00000047602
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


1 to 10 of 62 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
631690Scl5Serum cholesterol level QTL 52.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1236125214260522016Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1201554356246554356Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1216255568260522016Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1223201027260522016Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1195804352257091168Rat

1 to 10 of 62 rows



alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
8 9 30 78 61 57 31 22 31 6 165 75 58 45 56 26



Ensembl Acc Id: ENSRNOT00000017834   ⟹   ENSRNOP00000017834
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1243,203,881 - 243,215,148 (+)Ensembl
Rnor_6.0 Ensembl1264,094,080 - 264,105,344 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000047602   ⟹   ENSRNOP00000046035
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1264,094,080 - 264,094,920 (+)Ensembl
RefSeq Acc Id: XM_574671   ⟹   XP_574671
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81253,152,519 - 253,165,216 (+)NCBI
mRatBN7.21243,203,433 - 243,216,007 (+)NCBI
Rnor_6.01264,094,007 - 264,105,473 (+)NCBI
Rnor_5.01271,536,899 - 271,548,370 (+)NCBI
RGSC_v3.41249,392,727 - 249,404,075 (+)RGD
Sequence:
Protein RefSeqs XP_574671 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL94282 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000017834
  ENSRNOP00000017834.6
RefSeq Acc Id: XP_574671   ⟸   XM_574671
- UniProtKB: A6JHF8 (UniProtKB/TrEMBL),   D4ABJ9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000046035   ⟸   ENSRNOT00000047602
Ensembl Acc Id: ENSRNOP00000017834   ⟸   ENSRNOT00000017834
Fatty acid desaturase

Name Modeler Protein Id AA Range Protein Structure
AF-D4ABJ9-F1-model_v2 AlphaFold D4ABJ9 1-353 view protein structure


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



1 to 18 of 18 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-55590 BioCyc
Ensembl Genes ENSRNOG00000032554 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017834 ENTREZGENE
  ENSRNOT00000017834.7 UniProtKB/TrEMBL
InterPro Fatty_acid_desaturase-1 UniProtKB/TrEMBL
  Fatty_acid_desaturase-1_C UniProtKB/TrEMBL
  Fatty_acid_desaturase-1_core UniProtKB/TrEMBL
KEGG Report rno:499358 UniProtKB/TrEMBL
NCBI Gene 499358 ENTREZGENE
PANTHER PTHR11351 UniProtKB/TrEMBL
  STEAROYL-COA DESATURASE 4 UniProtKB/TrEMBL
Pfam FA_desaturase UniProtKB/TrEMBL
PhenoGen Scd4 PhenoGen
PRINTS FACDDSATRASE UniProtKB/TrEMBL
PROSITE FATTY_ACID_DESATUR_1 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000032554 RatGTEx
UniProt A6JHF8 ENTREZGENE, UniProtKB/TrEMBL
  D4ABJ9 ENTREZGENE, UniProtKB/TrEMBL
1 to 18 of 18 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Scd4  stearoyl-coenzyme A desaturase 4  RGD1563648_predicted  similar to stearoyl-CoA desaturase-4 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1563648_predicted  similar to stearoyl-CoA desaturase-4 (predicted)  LOC499358  similar to stearoyl-CoA desaturase-4  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499358  similar to stearoyl-CoA desaturase-4      Symbol and Name status set to provisional 70820 PROVISIONAL