Sptlc1 (serine palmitoyltransferase, long chain base subunit 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Sptlc1 (serine palmitoyltransferase, long chain base subunit 1) Rattus norvegicus
Analyze
Symbol: Sptlc1
Name: serine palmitoyltransferase, long chain base subunit 1
RGD ID: 1307140
Description: Predicted to enable serine C-palmitoyltransferase activity. Predicted to be involved in ceramide biosynthetic process; regulation of fat cell apoptotic process; and sphingosine biosynthetic process. Predicted to act upstream of or within positive regulation of lipophagy; sphinganine biosynthetic process; and sphingomyelin biosynthetic process. Predicted to be located in endoplasmic reticulum membrane. Predicted to be part of serine palmitoyltransferase complex. Predicted to be active in endoplasmic reticulum. Human ortholog(s) of this gene implicated in hereditary sensory and autonomic neuropathy type 1A and juvenile amyotrophic lateral sclerosis type 27. Orthologous to human SPTLC1 (serine palmitoyltransferase long chain base subunit 1); PARTICIPATES IN Fabry disease pathway; Gaucher's disease pathway; Krabbe disease pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LCB 1; Lcb1; LOC361213; long chain base biosynthesis protein 1; RGD1306617; serine palmitoyltransferase 1; serine palmitoyltransferase subunit 1; serine palmitoyltransferase, long chain base subunit 1 (predicted); serine-palmitoyl-CoA transferase 1; similar to Serine palmitoyltransferase 1; SPT 1; Spt1; Sptlc1_predicted
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
GRCr81712,029,189 - 12,068,234 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1712,029,189 - 12,068,234 (+)EnsemblGRCr8
mRatBN7.21711,877,249 - 11,916,295 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1711,877,249 - 11,916,295 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1711,806,367 - 11,845,387 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01713,409,465 - 13,448,715 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01711,726,429 - 11,765,677 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01711,856,525 - 11,895,566 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1711,856,525 - 11,895,566 (+)Ensemblrn6Rnor6.0
Rnor_5.01713,956,140 - 13,995,224 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41717,576,401 - 17,615,246 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1711,642,596 - 11,681,492 (+)NCBICelera
RGSC_v3.11717,599,561 - 17,613,645 (+)NCBI
Cytogenetic Map17p14NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9363775   PMID:11816724   PMID:16216550   PMID:18922131   PMID:19416652   PMID:19416851   PMID:20182505   PMID:25332431   PMID:25691431   PMID:25771159   PMID:26301690   PMID:28100772  


Genomics

Comparative Map Data
Sptlc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81712,029,189 - 12,068,234 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1712,029,189 - 12,068,234 (+)EnsemblGRCr8
mRatBN7.21711,877,249 - 11,916,295 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1711,877,249 - 11,916,295 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1711,806,367 - 11,845,387 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01713,409,465 - 13,448,715 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01711,726,429 - 11,765,677 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01711,856,525 - 11,895,566 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1711,856,525 - 11,895,566 (+)Ensemblrn6Rnor6.0
Rnor_5.01713,956,140 - 13,995,224 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41717,576,401 - 17,615,246 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1711,642,596 - 11,681,492 (+)NCBICelera
RGSC_v3.11717,599,561 - 17,613,645 (+)NCBI
Cytogenetic Map17p14NCBI
SPTLC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38992,031,147 - 92,115,413 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl992,000,087 - 92,115,433 (-)Ensemblhg38GRCh38
GRCh37994,793,429 - 94,877,695 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36993,833,248 - 93,917,511 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34991,920,900 - 91,957,245NCBI
Celera965,229,735 - 65,313,999 (-)NCBICelera
Cytogenetic Map9q22.31NCBI
HuRef964,471,097 - 64,555,697 (-)NCBIHuRef
CHM1_1994,939,836 - 95,024,218 (-)NCBICHM1_1
T2T-CHM13v2.09104,197,620 - 104,281,900 (-)NCBIT2T-CHM13v2.0
Sptlc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391353,486,784 - 53,531,401 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1353,486,784 - 53,531,433 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381353,332,748 - 53,377,417 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1353,332,748 - 53,377,397 (-)Ensemblmm10GRCm38
MGSCv371353,428,117 - 53,472,730 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361353,340,282 - 53,384,895 (-)NCBIMGSCv36mm8
Celera1354,411,645 - 54,456,357 (-)NCBICelera
Cytogenetic Map13B1NCBI
cM Map1327.68NCBI
Sptlc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495551557,711 - 161,611 (+)Ensembl
ChiLan1.0NW_00495551557,711 - 161,012 (+)NCBIChiLan1.0ChiLan1.0
SPTLC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21147,375,918 - 47,462,709 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1947,378,230 - 47,465,095 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0963,087,798 - 63,174,977 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1991,185,574 - 91,213,003 (-)NCBIPanPan1.1PanPan1.1panPan2
SPTLC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1194,997,240 - 95,062,424 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl194,997,290 - 95,064,468 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha195,445,084 - 95,510,150 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0195,597,902 - 95,649,028 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl195,597,972 - 95,649,026 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1195,224,979 - 95,289,739 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0194,951,482 - 95,016,318 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0195,710,467 - 95,775,506 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Sptlc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494413,566,496 - 13,627,827 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936796886,922 - 948,254 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936796886,946 - 948,254 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPTLC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl143,081,972 - 3,138,103 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1143,081,964 - 3,138,113 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2143,956,042 - 4,012,182 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SPTLC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.112102,475,437 - 102,551,401 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl12102,475,415 - 102,551,322 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603890,728,707 - 90,804,273 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sptlc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624868318,059 - 393,773 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624868317,992 - 393,776 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Sptlc1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11471,644,251 - 71,683,239 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Sptlc1
282 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:169
Count of miRNA genes:133
Interacting mature miRNAs:144
Transcripts:ENSRNOT00000014546
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17143999106Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)17926675540968173Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17436005727233623Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17212084342054133Rat
1582224Epfw4Epididymal fat weight QTL 43.50.0058epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)17920650523859062Rat
1582225Bw67Body weight QTL 676.20.0001body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
2302377Scl61Serum cholesterol level QTL 614.36blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)17622199858177198Rat
1582226Bw64Body weight QTL 644.20.0017body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131706603Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17473353449733534Rat
1582208Kidm32Kidney mass QTL 323.90.0018kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17920650523859062Rat
1549900Iddm20Insulin dependent diabetes mellitus QTL 203.7pancreas integrity trait (VT:0010560)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)17122181410Rat
2317053Aia25Adjuvant induced arthritis QTL 252.69joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)171060469455604694Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17136045694Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17121499218Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17473353449733534Rat
1581553Pur14Proteinuria QTL 145.30.0001urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)17798524316523460Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17857434232199534Rat
1582258Bw76Body weight QTL 764.60.0005body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17138037084Rat
1582199Insul5Insulin level QTL 53.40.0119blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)17920650523859062Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17143999106Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17436005727233623Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17143999106Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17212084322087569Rat
1582241Bw70Body weight QTL 704.60.0003body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
1582245Bw73Body weight QTL 734.60.0004body mass (VT:0001259)body weight (CMO:0000012)17920650523859062Rat
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122877318Rat

Markers in Region
AI235989  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21711,890,037 - 11,890,254 (+)MAPPERmRatBN7.2
Rnor_6.01711,869,311 - 11,869,527NCBIRnor6.0
Rnor_5.01713,968,969 - 13,969,185UniSTSRnor5.0
RGSC_v3.41717,588,991 - 17,589,207UniSTSRGSC3.4
Celera1711,655,239 - 11,655,455UniSTS
RH 3.4 Map17110.7UniSTS
Cytogenetic Map17p14UniSTS
RH131111  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21711,915,387 - 11,915,570 (+)MAPPERmRatBN7.2
Rnor_6.01711,894,659 - 11,894,841NCBIRnor6.0
Rnor_5.01713,994,317 - 13,994,499UniSTSRnor5.0
RGSC_v3.41717,614,339 - 17,614,521UniSTSRGSC3.4
Celera1711,680,585 - 11,680,767UniSTS
RH 3.4 Map17112.4UniSTS
Cytogenetic Map17p14UniSTS
RH141238  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21711,915,005 - 11,915,225 (+)MAPPERmRatBN7.2
Rnor_6.01711,894,277 - 11,894,496NCBIRnor6.0
Rnor_5.01713,993,935 - 13,994,154UniSTSRnor5.0
RGSC_v3.41717,613,957 - 17,614,176UniSTSRGSC3.4
Celera1711,680,203 - 11,680,422UniSTS
Cytogenetic Map17p14UniSTS


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: ENSRNOT00000014546   ⟹   ENSRNOP00000014546
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1712,029,189 - 12,068,234 (+)Ensembl
mRatBN7.2 Ensembl1711,877,249 - 11,916,295 (+)Ensembl
Rnor_6.0 Ensembl1711,856,525 - 11,895,566 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000103100   ⟹   ENSRNOP00000082531
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1712,031,801 - 12,068,234 (+)Ensembl
mRatBN7.2 Ensembl1711,879,861 - 11,916,295 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000113906   ⟹   ENSRNOP00000085605
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1711,879,896 - 11,916,295 (+)Ensembl
RefSeq Acc Id: NM_001108406   ⟹   NP_001101876
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81712,029,189 - 12,068,234 (+)NCBI
mRatBN7.21711,877,249 - 11,916,295 (+)NCBI
Rnor_6.01711,856,525 - 11,895,566 (+)NCBI
Rnor_5.01713,956,140 - 13,995,224 (+)NCBI
RGSC_v3.41717,576,401 - 17,615,246 (+)RGD
Celera1711,642,596 - 11,681,492 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001101876 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein D4A2H2 (Get FASTA)   NCBI Sequence Viewer  
  EDL98057 (Get FASTA)   NCBI Sequence Viewer  
  EDL98058 (Get FASTA)   NCBI Sequence Viewer  
  EDL98059 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000014546
  ENSRNOP00000014546.4
RefSeq Acc Id: NP_001101876   ⟸   NM_001108406
- UniProtKB: D4A2H2 (UniProtKB/Swiss-Prot),   A0A8I6A3Q5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000014546   ⟸   ENSRNOT00000014546
Ensembl Acc Id: ENSRNOP00000082531   ⟸   ENSRNOT00000103100
Ensembl Acc Id: ENSRNOP00000085605   ⟸   ENSRNOT00000113906
Protein Domains
Aminotransferase class I/classII large

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A2H2-F1-model_v2 AlphaFold D4A2H2 1-473 view protein structure

Transcriptome

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

Promoters
RGD ID:13700330
Promoter ID:EPDNEW_R10854
Type:multiple initiation site
Name:Sptlc1_1
Description:serine palmitoyltransferase, long chain base subunit 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_6.01711,856,520 - 11,856,580EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307140 AgrOrtholog
BioCyc Gene G2FUF-10122 BioCyc
Ensembl Genes ENSRNOG00000010882 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000014546 ENTREZGENE
  ENSRNOT00000014546.5 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.640.10 UniProtKB/Swiss-Prot
  3.90.1150.10 UniProtKB/Swiss-Prot
InterPro Aminotransferase_I/II UniProtKB/Swiss-Prot
  AON_synthase_class-II UniProtKB/Swiss-Prot
  PyrdxlP-dep_Trfase UniProtKB/Swiss-Prot
  PyrdxlP-dep_Trfase_dom1 UniProtKB/Swiss-Prot
  PyrdxlP-dep_Trfase_major UniProtKB/Swiss-Prot
KEGG Report rno:361213 UniProtKB/Swiss-Prot
NCBI Gene Sptlc1 ENTREZGENE
PANTHER CLASS II AMINOTRANSFERASE/8-AMINO-7-OXONONANOATE SYNTHASE UniProtKB/Swiss-Prot
  SERINE PALMITOYLTRANSFERASE 1 UniProtKB/Swiss-Prot
Pfam Aminotran_1_2 UniProtKB/Swiss-Prot
PhenoGen Sptlc1 PhenoGen
RatGTEx ENSRNOG00000010882 RatGTEx
Superfamily-SCOP SSF53383 UniProtKB/Swiss-Prot
UniProt A0A8I5ZUP8_RAT UniProtKB/TrEMBL
  A0A8I6A3Q5 ENTREZGENE
  D4A2H2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Sptlc1  serine palmitoyltransferase, long chain base subunit 1   Sptlc1_predicted  serine palmitoyltransferase, long chain base subunit 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-04-05 Sptlc1_predicted  serine palmitoyltransferase, long chain base subunit 1 (predicted)  RGD1306617_predicted  similar to Serine palmitoyltransferase 1 (predicted)  Data merged from RGD:1306617 737654 APPROVED
2005-01-20 RGD1306617_predicted  similar to Serine palmitoyltransferase 1 (predicted)  LOC361213_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 Sptlc1_predicted  serine palmitoyltransferase, long chain base subunit 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED
2005-01-12 LOC361213_predicted  similar to Serine palmitoyltransferase 1 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL