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    Syvn1 synoviolin 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361712, updated on 2-May-2024

    Summary

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    Official Symbol
    Syvn1provided by RGD
    Official Full Name
    synoviolin 1provided by RGD
    Primary source
    RGD:1310488
    See related
    Ensembl:ENSRNOG00000020950 AllianceGenome:RGD:1310488
    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
    RGD1310488
    Summary
    Predicted to enable several functions, including chaperone binding activity; enzyme binding activity; and unfolded protein binding activity. Predicted to be involved in several processes, including protein K48-linked ubiquitination; protein stabilization; and proteolysis involved in cellular protein catabolic process. Predicted to act upstream of or within in utero embryonic development; negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway; and ubiquitin-dependent ERAD pathway. Predicted to be located in endoplasmic reticulum quality control compartment; nucleoplasm; and smooth endoplasmic reticulum. Predicted to be part of Derlin-1 retrotranslocation complex and Hrd1p ubiquitin ligase ERAD-L complex. Predicted to be active in cytoplasm. Orthologous to human SYVN1 (synoviolin 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 113.8), Kidney (RPKM 74.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Syvn1 in Genome Data Viewer
    Location:
    1q43
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (212766736..212775426)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (203339235..203346137)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (221409281..221416229)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 22 member 20 Neighboring gene calpain 1 Neighboring gene uncharacterized LOC108349685 Neighboring gene mitochondrial ribosomal protein L49 Neighboring gene zinc finger, HIT-type containing 2 Neighboring gene FAU ubiquitin like and ribosomal protein S30 fusion

    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. Endoplasmic Reticulum Stress Induces HRD1 to Protect Alveolar Type II Epithelial Cells from Apoptosis Induced by Cigarette Smoke Extract. Tan SX, et al. Cell Physiol Biochem, 2017. PMID 28992619
    2. Hrd1 induces cardiomyocyte apoptosis via regulating the degradation of IGF-1R by sema3a. Liu X, et al. Biochim Biophys Acta Mol Basis Dis, 2018 Dec. PMID 30248386
    3. Icariin induces synoviolin expression through NFE2L1 to protect neurons from ER stress-induced apoptosis. Li F, et al. PLoS One, 2015. PMID 25806530, Free PMC Article
    4. The E3 Ubiquitin Ligase SYVN1 Plays an Antiapoptotic Role in Polycystic Ovary Syndrome by Regulating Mitochondrial Fission. Sun L, et al. Oxid Med Cell Longev, 2022. PMID 36193086, Free PMC Article
    5. Human HRD1 protects against ER stress-induced apoptosis through ER-associated degradation. Kaneko M, et al. FEBS Lett, 2002 Dec 4. PMID 12459480

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SYVN1 attenuates ferroptosis and alleviates spinal cord ischemia-reperfusion injury in rats by regulating the HMGB1/NRF2/HO-1 axis.
      Title: SYVN1 attenuates ferroptosis and alleviates spinal cord ischemia-reperfusion injury in rats by regulating the HMGB1/NRF2/HO-1 axis.
    2. The E3 Ubiquitin Ligase SYVN1 Plays an Antiapoptotic Role in Polycystic Ovary Syndrome by Regulating Mitochondrial Fission.
      Title: The E3 Ubiquitin Ligase SYVN1 Plays an Antiapoptotic Role in Polycystic Ovary Syndrome by Regulating Mitochondrial Fission.
    3. Hrd1 might mediate the ubiquitination of IGF-1R through sema3a and then participate in the regulation of cardiomyocyte apoptosis.
      Title: Hrd1 induces cardiomyocyte apoptosis via regulating the degradation of IGF-1R by sema3a.
    4. Endoplasmic reticulum stress induces HRD1 to protect alveolar type II epithelial cells from apoptosis induced by cigarette smoke extract.
      Title: Endoplasmic Reticulum Stress Induces HRD1 to Protect Alveolar Type II Epithelial Cells from Apoptosis Induced by Cigarette Smoke Extract.
    5. our study reveals Icariin-induced Synoviolin expression through NFE2L1 as a previously unappreciated molecular mechanism underlying the neuronal protective function of Icariin.
      Title: Icariin induces synoviolin expression through NFE2L1 to protect neurons from ER stress-induced apoptosis.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATPase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein-folding chaperone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin-specific protease binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables unfolded protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in ERAD pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within ERAD pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ERAD pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in immature B cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in retrograde protein transport, ER to cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of Derlin-1 retrotranslocation complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of Hrd1p ubiquitin ligase ERAD-L complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in endomembrane system IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum quality control compartment IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum quality control compartment ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in smooth endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase synoviolin
    Names
    HRD1 protein
    synovial apoptosis inhibitor 1, synoviolin
    NP_001094209.1
    XP_006230914.1
    XP_038939886.1
    XP_063124320.1

    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_001100739.1 → NP_001094209.1  E3 ubiquitin-protein ligase synoviolin

      See identical proteins and their annotated locations for NP_001094209.1

      Status: PROVISIONAL

      Source sequence(s)
      BC166727
      UniProtKB/TrEMBL
      A6HZC0, B2RYC4, F7FG68
      Related
      ENSRNOP00000028462.6, ENSRNOT00000028462.7
      Conserved Domains (2) summary
      COG5243
      Location:10 → 333
      HRD1; HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
      pfam13639
      Location:289 → 330
      zf-RING_2; Ring finger domain

    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_086019.1 Reference GRCr8

      Range
      212766736..212775426
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063268250.1 → XP_063124320.1  E3 ubiquitin-protein ligase synoviolin isoform X2

      UniProtKB/TrEMBL
      B2RYC4, F7FG68

    2. XM_006230852.5 → XP_006230914.1  E3 ubiquitin-protein ligase synoviolin isoform X1

      See identical proteins and their annotated locations for XP_006230914.1

      UniProtKB/TrEMBL
      A6HZC0, A6HZC1
      Conserved Domains (2) summary
      COG5243
      Location:10 → 333
      HRD1; HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
      NF033913
      Location:524 → 597
      fibronec_FbpA; LPXTG-anchored fibronectin-binding protein FbpA

    3. XM_039083958.2 → XP_038939886.1  E3 ubiquitin-protein ligase synoviolin isoform X1

      UniProtKB/TrEMBL
      A6HZC0, A6HZC1
      Conserved Domains (2) summary
      COG5243
      Location:10 → 333
      HRD1; HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
      NF033913
      Location:524 → 597
      fibronec_FbpA; LPXTG-anchored fibronectin-binding protein FbpA
    Nucleotide Protein Strain
    Heading Accession and Version

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