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    Syvn1 synovial apoptosis inhibitor 1, synoviolin [ Mus musculus (house mouse) ]

    Gene ID: 74126, updated on 13-May-2024

    Summary

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    Official Symbol
    Syvn1provided by MGI
    Official Full Name
    synovial apoptosis inhibitor 1, synoviolinprovided by MGI
    Primary source
    MGI:MGI:1921376
    See related
    Ensembl:ENSMUSG00000024807 AllianceGenome:MGI:1921376
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Hrd1; 1200010C09Rik; D530017H19Rik
    Summary
    Enables ubiquitin protein ligase activity. Involved in immature B cell differentiation; protein stabilization; and proteolysis involved in cellular protein catabolic process. Acts upstream of or within in utero embryonic development and negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway. Located in endoplasmic reticulum quality control compartment. Is expressed in rib. Orthologous to human SYVN1 (synoviolin 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in spleen adult (RPKM 49.0), adrenal adult (RPKM 42.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Syvn1 in Genome Data Viewer
    Location:
    19 A; 19 4.34 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (6096586..6103748)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (6046576..6053718)

    Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 19505 Neighboring gene STARR-positive B cell enhancer ABC_E7629 Neighboring gene STARR-positive B cell enhancer ABC_E7630 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:6046308-6046417 Neighboring gene thymosin, beta 10 pseudogene Neighboring gene microRNA 6988 Neighboring gene mitochondrial ribosomal protein L49 Neighboring gene STARR-seq mESC enhancer starr_45418 Neighboring gene FAU ubiquitin like and ribosomal protein S30 fusion Neighboring gene zinc finger, HIT domain containing 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. ER proteostasis regulators cell-non-autonomously control sleep. Kawano T, et al. Cell Rep, 2023 Mar 28. PMID 36924492
    2. Synoviolin is not a pathogenic factor for auto-inflammatory diseases. Matsumoto T, et al. Biochem Biophys Res Commun, 2021 Jun 18. PMID 33932778
    3. The role of Hrd1 in ultraviolet (UV) radiation induced photoaging. Jin Y, et al. Aging (Albany NY), 2020 Nov 9. PMID 33168784, Free PMC Article
    4. Energy supplementation rescues growth restriction and female infertility of mice with hepatic HRD1 ablation. Chen L, et al. Am J Transl Res, 2020. PMID 32509196, Free PMC Article
    5. ER-associated ubiquitin ligase HRD1 programs liver metabolism by targeting multiple metabolic enzymes. Wei J, et al. Nat Commun, 2018 Sep 10. PMID 30201971, Free PMC Article

    See all (80) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Dysregulated SYVN1 promotes CAV1 protein ubiquitination and accentuates ischemic stroke.
      Title: Dysregulated SYVN1 promotes CAV1 protein ubiquitination and accentuates ischemic stroke.
    2. SEL1L-HRD1 interaction is required to form a functional HRD1 ERAD complex.
      Title: SEL1L-HRD1 interaction is required to form a functional HRD1 ERAD complex.
    3. HRD1-induced TMEM2 ubiquitination promotes ER stress-mediated apoptosis through a non-canonical pathway in intestinal ischemia/reperfusion.
      Title: HRD1-induced TMEM2 ubiquitination promotes ER stress-mediated apoptosis through a non-canonical pathway in intestinal ischemia/reperfusion.
    4. Cholesterol-induced HRD1 reduction accelerates vascular smooth muscle cell senescence via stimulation of endoplasmic reticulum stress-induced reactive oxygen species.
      Title: Cholesterol-induced HRD1 reduction accelerates vascular smooth muscle cell senescence via stimulation of endoplasmic reticulum stress-induced reactive oxygen species.
    5. Exogenous H2 S promotes ubiquitin-mediated degradation of SREBP1 to alleviate diabetic cardiomyopathy via SYVN1 S-sulfhydration.
      Title: Exogenous H(2) S promotes ubiquitin-mediated degradation of SREBP1 to alleviate diabetic cardiomyopathy via SYVN1 S-sulfhydration.
    6. Role of SYVN1 in the control of airway remodeling in asthma protection by promoting SIRT2 ubiquitination and degradation.
      Title: Role of SYVN1 in the control of airway remodeling in asthma protection by promoting SIRT2 ubiquitination and degradation.
    7. SYVN1 Promotes STAT3 Protein Ubiquitination and Exerts Antiangiogenesis Effects in Retinopathy of Prematurity Development.
      Title: SYVN1 Promotes STAT3 Protein Ubiquitination and Exerts Antiangiogenesis Effects in Retinopathy of Prematurity Development.
    8. Endoplasmic reticulum stress-triggered ferroptosis via the XBP1-Hrd1-Nrf2 pathway induces EMT progression in diabetic nephropathy.
      Title: Endoplasmic reticulum stress-triggered ferroptosis via the XBP1-Hrd1-Nrf2 pathway induces EMT progression in diabetic nephropathy.
    9. HRD1 functions as a tumor suppressor in ovarian cancer by facilitating ubiquitination-dependent SLC7A11 degradation.
      Title: HRD1 functions as a tumor suppressor in ovarian cancer by facilitating ubiquitination-dependent SLC7A11 degradation.
    10. HRD1-mediated METTL14 degradation regulates m(6)A mRNA modification to suppress ER proteotoxic liver disease.
      Title: HRD1-mediated METTL14 degradation regulates m(6)A mRNA modification to suppress ER proteotoxic liver disease.
    Submit: New GeneRIF Correction See all GeneRIFs (47)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (3)  1 citation

    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 MGI

    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 binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein-folding chaperone binding ISO
    Inferred from Sequence Orthology
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    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
    		  
    involved_in ERAD pathway IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within ERAD pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in immature B cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within in utero embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein stabilization IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within response to unfolded protein ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    involved_in retrograde protein transport, ER to cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    is_active_in endoplasmic reticulum quality control compartment IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum quality control compartment IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum quality control compartment ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane 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
    		  
    part_of ubiquitin ligase complex ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase synoviolin
    Names
    RING-type E3 ubiquitin transferase synoviolin
    synoviolin 1
    NP_001158181.1
    NP_083045.4
    XP_006531913.1

    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_001164709.1 → NP_001158181.1  E3 ubiquitin-protein ligase synoviolin

      See identical proteins and their annotated locations for NP_001158181.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      BB676375, BC046829
      Consensus CDS
      CCDS29487.1
      UniProtKB/Swiss-Prot
      Q80T88, Q8CGB5, Q9DBY1
      UniProtKB/TrEMBL
      A0A0R4J1R1
      Related
      ENSMUSP00000114960.2, ENSMUST00000134667.8
      Conserved Domains (3) summary
      PHA03291
      Location:530 → 601
      PHA03291; envelope glycoprotein I; Provisional
      COG5243
      Location:10 → 333
      HRD1; HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
      PRK06975
      Location:476 → 582
      PRK06975; bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed

    2. NM_028769.5 → NP_083045.4  E3 ubiquitin-protein ligase synoviolin

      See identical proteins and their annotated locations for NP_083045.4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AK004688, BB676375, CD349490
      Consensus CDS
      CCDS29487.1
      UniProtKB/Swiss-Prot
      Q80T88, Q8CGB5, Q9DBY1
      UniProtKB/TrEMBL
      A0A0R4J1R1
      Related
      ENSMUSP00000114843.2, ENSMUST00000138532.8
      Conserved Domains (3) summary
      PHA03291
      Location:530 → 601
      PHA03291; envelope glycoprotein I; Provisional
      COG5243
      Location:10 → 333
      HRD1; HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
      PRK06975
      Location:476 → 582
      PRK06975; bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000085.7 Reference GRCm39 C57BL/6J

      Range
      6096586..6103748
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006531850.5 → XP_006531913.1  E3 ubiquitin-protein ligase synoviolin isoform X1

      See identical proteins and their annotated locations for XP_006531913.1

      UniProtKB/Swiss-Prot
      Q80T88, Q8CGB5, Q9DBY1
      UniProtKB/TrEMBL
      A0A0R4J1R1
      Conserved Domains (3) summary
      PHA03291
      Location:530 → 601
      PHA03291; envelope glycoprotein I; Provisional
      COG5243
      Location:10 → 333
      HRD1; HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
      PRK06975
      Location:476 → 582
      PRK06975; bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed

    RNA

    1. XR_004940177.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9DBY1.3 GenPept UniProtKB/Swiss-Prot:Q9DBY1

    Gene LinkOut

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

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