SPTLC3 (serine palmitoyltransferase long chain base subunit 3) - Rat Genome Database

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Gene: SPTLC3 (serine palmitoyltransferase long chain base subunit 3) Chlorocebus sabaeus
Analyze
Symbol: SPTLC3
Name: serine palmitoyltransferase long chain base subunit 3
RGD ID: 18697326
Description: ENCODES a protein that exhibits acyltransferase activity (inferred); pyridoxal phosphate binding (inferred); serine C-palmitoyltransferase activity (inferred); INVOLVED IN sphingoid biosynthetic process (ortholog); ASSOCIATED WITH genetic disease (ortholog); sensory peripheral neuropathy (ortholog); FOUND IN serine C-palmitoyltransferase complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: serine palmitoyltransferase 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1241,900,389 - 42,067,842 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl241,900,447 - 42,070,112 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660542,190,751 - 2,332,203 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SPTLC3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1241,900,389 - 42,067,842 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl241,900,447 - 42,070,112 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660542,190,751 - 2,332,203 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SPTLC3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382013,008,972 - 13,169,103 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2013,008,972 - 13,169,103 (+)EnsemblGRCh38hg38GRCh38
GRCh372012,989,620 - 13,149,750 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362012,937,627 - 13,095,411 (+)NCBINCBI36Build 36hg18NCBI36
Celera2013,059,733 - 13,217,481 (+)NCBICelera
Cytogenetic Map20p12.1NCBI
HuRef2012,941,029 - 13,101,523 (+)NCBIHuRef
CHM1_12012,989,665 - 13,147,485 (+)NCBICHM1_1
T2T-CHM13v2.02013,048,743 - 13,212,449 (+)NCBIT2T-CHM13v2.0
Sptlc3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392139,335,833 - 139,478,981 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2139,335,833 - 139,479,594 (+)EnsemblGRCm39 Ensembl
GRCm382139,493,913 - 139,637,061 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2139,493,913 - 139,637,674 (+)EnsemblGRCm38mm10GRCm38
MGSCv372139,319,656 - 139,463,410 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362139,185,361 - 139,329,115 (+)NCBIMGSCv36mm8
Celera2140,671,316 - 140,814,560 (+)NCBICelera
Cytogenetic Map2F3NCBI
cM Map268.52NCBI
Sptlc3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83147,301,570 - 147,431,696 (+)NCBIGRCr8
mRatBN7.23126,847,878 - 126,978,010 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3126,847,878 - 126,978,010 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3130,707,371 - 130,835,985 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03139,291,458 - 139,420,089 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03136,994,594 - 137,123,206 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03132,560,437 - 132,689,313 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3132,560,506 - 132,692,737 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03139,023,075 - 139,151,792 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43127,691,668 - 127,825,206 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13127,597,526 - 127,729,920 (+)NCBI
Celera3125,501,233 - 125,630,510 (+)NCBICelera
Cytogenetic Map3q36NCBI
Sptlc3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541522,531,626 - 22,682,564 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541522,532,193 - 22,686,071 (+)NCBIChiLan1.0ChiLan1.0
SPTLC3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22113,894,378 - 14,053,615 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12013,891,210 - 14,052,725 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02012,966,584 - 13,125,802 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12012,952,501 - 13,111,347 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2012,952,524 - 13,111,347 (+)Ensemblpanpan1.1panPan2
SPTLC3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1249,447,575 - 9,597,544 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl249,447,859 - 9,595,975 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha249,258,320 - 9,409,355 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0249,860,196 - 10,010,807 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl249,861,421 - 10,011,073 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1249,471,327 - 9,619,877 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0249,555,159 - 9,706,174 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0249,904,468 - 10,055,517 (-)NCBIUU_Cfam_GSD_1.0
Sptlc3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640158,213,063 - 158,353,439 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364856,644,188 - 6,784,828 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364856,647,930 - 6,784,792 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPTLC3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1721,769,484 - 21,903,264 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11721,769,388 - 21,903,269 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21724,339,933 - 24,473,785 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Sptlc3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474113,956,570 - 14,152,600 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474113,956,688 - 14,152,127 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 21 5
Low 15 12 29
Below cutoff 6 26

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000009894   ⟹   ENSCSAP00000007998
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl241,900,447 - 42,070,112 (+)Ensembl
RefSeq Acc Id: XM_037984749   ⟹   XP_037840677
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660542,190,751 - 2,332,203 (+)NCBI
Protein Sequences
Protein RefSeqs XP_037840677 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000007998.1
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000007998   ⟸   ENSCSAT00000009894
RefSeq Acc Id: XP_037840677   ⟸   XM_037984749


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000011801 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000009894.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.640.10 UniProtKB/TrEMBL
  3.90.1150.10 UniProtKB/TrEMBL
InterPro Aminotrans_II_pyridoxalP_BS UniProtKB/TrEMBL
  Aminotransferase_I/II UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase_dom1 UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase_major UniProtKB/TrEMBL
KEGG Report csab:103214399 UniProtKB/TrEMBL
NCBI Gene SPTLC3 ENTREZGENE
PANTHER CLASS II AMINOTRANSFERASE/8-AMINO-7-OXONONANOATE SYNTHASE UniProtKB/TrEMBL
  SERINE PALMITOYLTRANSFERASE 3 UniProtKB/TrEMBL
Pfam Aminotran_1_2 UniProtKB/TrEMBL
PROSITE AA_TRANSFER_CLASS_2 UniProtKB/TrEMBL
Superfamily-SCOP SSF53383 UniProtKB/TrEMBL
UniProt A0A0D9RHA9_CHLSB UniProtKB/TrEMBL