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    syvn1 synovial apoptosis inhibitor 1, synoviolin [ Danio rerio (zebrafish) ]

    Gene ID: 335226, updated on 9-Dec-2024

    Summary

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    Official Symbol
    syvn1provided by ZNC
    Official Full Name
    synovial apoptosis inhibitor 1, synoviolinprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-7166
    See related
    Ensembl:ENSDARG00000017842 AllianceGenome:ZFIN:ZDB-GENE-030131-7166
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:55735; zgc:77108; wu:fk91f10
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in ERAD pathway and proteasome-mediated ubiquitin-dependent protein catabolic process. Predicted to be located in endoplasmic reticulum membrane. Predicted to be active in endoplasmic reticulum quality control compartment. Is expressed in several structures, including axial mesoderm; floor plate; hatching gland; hypochord; and notochord. Orthologous to human SYVN1 (synoviolin 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See syvn1 in Genome Data Viewer
    Location:
    chromosome: 14
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 14 NC_007125.7 (26452692..26465795, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 14 NC_007125.6 (26154587..26167690, complement)

    Chromosome 14 - NC_007125.7Genomic Context describing neighboring genes Neighboring gene phospholipase D family, member 7 Neighboring gene G protein-coupled receptor 137 Neighboring gene SMAD family member 5 Neighboring gene transforming growth factor, beta-induced

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Dual regulation of the transcriptional activity of Nrf1 by β-TrCP- and Hrd1-dependent degradation mechanisms. Tsuchiya Y, et al. Mol Cell Biol, 2011 Nov. PMID 21911472, Free PMC Article
    2. The Sec domain protein Scfd1 facilitates trafficking of ECM components during chondrogenesis. Hou N, et al. Dev Biol, 2017 Jan 1. PMID 27851892
    3. Silver nanoparticles induce endoplasmatic reticulum stress response in zebrafish. Christen V, et al. Toxicol Appl Pharmacol, 2013 Oct 15. PMID 23800688
    4. XBP-1, a key regulator of unfolded protein response, activates transcription of IGF1 and Akt phosphorylation in zebrafish embryonic cell line. Hu MC, et al. Biochem Biophys Res Commun, 2007 Aug 3. PMID 17560942
    5. Indium and indium tin oxide induce endoplasmic reticulum stress and oxidative stress in zebrafish (Danio rerio). Brun NR, et al. Environ Sci Technol, 2014 Oct 7. PMID 25188630

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in ERAD pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ERAD pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in endomembrane system IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endoplasmic reticulum quality control compartment IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase synoviolin
    Names
    HRD1 protein
    RING-type E3 ubiquitin transferase synoviolin
    NP_997900.2

    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_212735.2 → NP_997900.2  E3 ubiquitin-protein ligase synoviolin

      Status: VALIDATED

      Source sequence(s)
      BX323077, EB951305, EH551324
      UniProtKB/Swiss-Prot
      Q6NYA5, Q803I8
      UniProtKB/TrEMBL
      A0A8N7V0A8, A5PMC1
      Related
      ENSDARP00000116575.1, ENSDART00000143454.3
      Conserved Domains (2) summary
      pfam13639
      Location:289 → 330
      zf-RING_2; Ring finger domain
      cl21590
      Location:21 → 256
      PMT_2; Dolichyl-phosphate-mannose-protein mannosyltransferase

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007125.7 Reference GRCz11 Primary Assembly

      Range
      26452692..26465795 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q803I8.2 GenPept UniProtKB/Swiss-Prot:Q803I8

    Gene LinkOut

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