Sptlc1 serine palmitoyltransferase, long chain base subunit 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sptlc1provided by RGD
Official Full Name: serine palmitoyltransferase, long chain base subunit 1provided by RGD
Primary source: RGD:1307140
See related: Ensembl:ENSRNOG00000010882 AllianceGenome:RGD:1307140
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Lcb1; Spt1; LCB 1; SPT 1; RGD1306617
Summary: 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 SPOTS complex. Predicted to be active in endoplasmic reticulum. Human ortholog(s) of this gene implicated in hereditary sensory and autonomic neuropathy type 1A. Orthologous to human SPTLC1 (serine palmitoyltransferase long chain base subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 137.9), Kidney (RPKM 129.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 17p14

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	17	NC_086035.1 (12029189..12068234)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	17	NC_051352.1 (11877249..11916295)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	17	NC_005116.4 (11856525..11895566)

Chromosome 17 - NC_086035.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data suggest that expression of enzymes involved in sphingolipid metabolism in skeletal muscle are regulated by dietary factors; here, caloric restriction down-regulates expression of Spt1 and Spt2 but up-regulates ceramide synthases (Cers1, Cers2).
Title: Modulation of sphingolipid metabolism with calorie restriction enhances insulin action in skeletal muscle.
sustained loss/reduction in SPT expression/activity promotes greater partitioning of palmitate towards diacylglycerol) synthesis, which impacts negatively upon insulin receptor substrate1-directed insulin signalling.
Title: Modulating serine palmitoyl transferase (SPT) expression and activity unveils a crucial role in lipid-induced insulin resistance in rat skeletal muscle cells.
marked upregulation of expression of both SPT subunits in actively proliferating cells in balloon-injured vessels(serine palmitoyltransferase 1)(serine palmitoyltransferase 2)
Title: Increased expression of serine palmitoyltransferase (SPT) in balloon-injured rat carotid artery.

Submit: New GeneRIF Correction

General gene information

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Markers

RH141238 (e-PCR)
- UniSTS:223234

RH131111 (e-PCR)
- UniSTS:214394

RH140940 (e-PCR)
- UniSTS:214394

AI235989 (e-PCR)
- UniSTS:261755

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables pyridoxal phosphate binding	IEA Inferred from Electronic Annotation more info
enables serine C-palmitoyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
NOT enables serine C-palmitoyltransferase activity	ISO Inferred from Sequence Orthology more info
contributes_to serine C-palmitoyltransferase activity	ISO Inferred from Sequence Orthology more info
enables serine C-palmitoyltransferase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in ceramide biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within ceramide biosynthetic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of lipophagy	ISO Inferred from Sequence Orthology more info
involved_in regulation of fat cell apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sphinganine biosynthetic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sphingolipid biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in sphingolipid metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sphingomyelin biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in sphingomyelin biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in sphingosine biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within sphingosine biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in sphingosine biosynthetic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of SPOTS complex	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
part_of serine C-palmitoyltransferase complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: serine palmitoyltransferase 1

Names: long chain base biosynthesis protein 1; serine palmitoyltransferase subunit 1; serine-palmitoyl-CoA transferase 1

NP_001101876.1

EC 2.3.1.50

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.