Sptssb serine palmitoyltransferase, small subunit B [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sptssbprovided by RGD
Official Full Name: serine palmitoyltransferase, small subunit Bprovided by RGD
Primary source: RGD:2324614
See related: EnsemblRapid:ENSRNOG00000009388 AllianceGenome:RGD:2324614
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to contribute to serine C-palmitoyltransferase activity. Predicted to be involved in ceramide biosynthetic process; endoplasmic reticulum organization; and sphingosine biosynthetic process. Predicted to act upstream of or within regulation of serine C-palmitoyltransferase activity and sphingolipid biosynthetic process. Predicted to be part of serine palmitoyltransferase complex. Orthologous to human SPTSSB (serine palmitoyltransferase small subunit B). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Adrenal (RPKM 37.3), Brain (RPKM 34.8) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q32

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (156432509..156461936, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (154133728..154162127, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (166654036..166682325, complement)

Chromosome 2 - NC_086020.1 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?

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General gene information

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Markers

BI281089 (e-PCR)
- UniSTS:249384

BF406676 (e-PCR)
- UniSTS:248391

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to serine C-palmitoyltransferase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within ceramide biosynthetic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endoplasmic reticulum organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of serine C-palmitoyltransferase activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sphingolipid 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 serine palmitoyltransferase complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: serine palmitoyltransferase small subunit B

Names: androgen down regulated in mouse prostate

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.

mRNA and Protein(s)

NM_001271299.1 → NP_001258228.1 serine palmitoyltransferase small subunit B

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 both encode the same protein.

Source sequence(s)

BC087706, FM125939

UniProtKB/TrEMBL

A6J5N9

Related

ENSRNOP00000100272.1, ENSRNOT00000091198.3

Conserved Domains (1) summary

pfam11779
Location:7 → 60

SPT_ssu-like; Small subunit of serine palmitoyltransferase-like
NM_001271301.1 → NP_001258230.1 serine palmitoyltransferase small subunit B

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.

Source sequence(s)

BC087706

UniProtKB/TrEMBL

A6J5N9

Related

ENSRNOP00000109949.1, ENSRNOT00000012422.7

Conserved Domains (1) summary

pfam11779
Location:7 → 60

SPT_ssu-like; Small subunit of serine palmitoyltransferase-like

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086020.1 Reference GRCr8

Range

156432509..156461936 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063281087.1 → XP_063137157.1 serine palmitoyltransferase small subunit B isoform X1

UniProtKB/TrEMBL

A6J5N9
XM_063281086.1 → XP_063137156.1 serine palmitoyltransferase small subunit B isoform X1

UniProtKB/TrEMBL

A6J5N9