U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 291314, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Sephs1provided by RGD
    Official Full Name
    selenophosphate synthetase 1provided by RGD
    Primary source
    RGD:1311182
    See related
    EnsemblRapid: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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Sephs1 in Genome Data Viewer
    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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

    Go to the top of the pageHelp

    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

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    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 phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    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

    Go to the top of the page Help
    Preferred Names
    selenide, water dikinase 1
    NP_001098100.1
    XP_006254328.1
    XP_038951468.1
    XP_038951469.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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, ENSRNOT00000024697.7
      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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools