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Sephs1 selenophosphate synthetase 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 291314, updated on 11-Apr-2024

Summary

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Official Symbol
Sephs1provided by RGD
Official Full Name
selenophosphate synthetase 1provided by RGD
Primary source
RGD:1311182
See related
Ensembl:ENSRNOG00000018125 AllianceGenome:RGD:1311182
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 enable protein heterodimerization activity; protein homodimerization activity; and selenide, water dikinase activity. Predicted to be involved in selenocysteine biosynthetic process. Predicted to be located in nuclear membrane and plasma membrane. Predicted to be active in cytoplasm. Orthologous to human SEPHS1 (selenophosphate synthetase 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 132.4), Thymus (RPKM 84.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
17q12.3
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (78263725..78296132, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (73354435..73382803, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (77312562..77340934, complement)

Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene upper zone of growth plate and cartilage matrix associated Neighboring gene uncharacterized LOC120097916 Neighboring gene phytanoyl-CoA 2-hydroxylase Neighboring gene uncharacterized LOC134482743 Neighboring gene BEN domain containing 7

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Human selenophosphate synthetase 1 has five splice variants with unique interactions, subcellular localizations and expression patterns. Kim JY, et al. Biochem Biophys Res Commun, 2010 Jun 18. PMID 20471958, Free PMC Article
  2. Next-generation sequencing to generate interactome datasets. Yu H, et al. Nat Methods, 2011 Jun. PMID 21516116, Free PMC Article
  3. Towards a proteome-scale map of the human protein-protein interaction network. Rual JF, et al. Nature, 2005 Oct 20. PMID 16189514
  4. A proteome-scale map of the human interactome network. Rolland T, et al. Cell, 2014 Nov 20. PMID 25416956, Free PMC Article
  5. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SEPHS1 attenuates intervertebral disc degeneration by delaying nucleus pulposus cell senescence through the Hippo-Yap/Taz pathway.
    Title: SEPHS1 attenuates intervertebral disc degeneration by delaying nucleus pulposus cell senescence through the Hippo-Yap/Taz pathway.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables protein heterodimerization activity ISO
Inferred from Sequence Orthology
more info
  
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
  
enables selenide, water dikinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in selenocysteine biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear membrane ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
selenide, water dikinase 1
NP_001098100.1
XP_006254328.1
XP_038951468.1
XP_038951469.1

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)

  1. NM_001104630.1 → NP_001098100.1  selenide, water dikinase 1

    See identical proteins and their annotated locations for NP_001098100.1

    Status: VALIDATED

    Source sequence(s)
    AY724491, BG375377, CB704759, DV714794, DY313865, DY318079, JAXUCZ010000017
    UniProtKB/TrEMBL
    A6JLZ8, A6JLZ9, D3ZFY0
    Related
    ENSRNOP00000024697.5, ENSRNOT00000024697.6
    Conserved Domains (1) summary
    TIGR00476
    Location:19 → 333
    selD; selenium donor protein

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

  1. NC_086035.1 Reference GRCr8

    Range
    78263725..78296132 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006254266.5 → XP_006254328.1  selenide, water dikinase 1 isoform X1

    See identical proteins and their annotated locations for XP_006254328.1

    UniProtKB/TrEMBL
    A6JLZ8, A6JLZ9, D3ZFY0
    Conserved Domains (1) summary
    TIGR00476
    Location:19 → 333
    selD; selenium donor protein

  2. XM_039095541.2 → XP_038951469.1  selenide, water dikinase 1 isoform X3

    Conserved Domains (1) summary
    cl10019
    Location:28 → 287
    PurM-like; AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain ...

  3. XM_039095540.2 → XP_038951468.1  selenide, water dikinase 1 isoform X2

    Conserved Domains (1) summary
    cl10019
    Location:20 → 256
    PurM-like; AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain ...
Nucleotide Protein Strain
Heading Accession and Version

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