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

Gene ID: 74126, updated on 2-Nov-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 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, Nov 2024]
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 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. 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
  2. Experimental study of the protective effects of SYVN1 against diabetic retinopathy. Yang S, et al. Sci Rep, 2015 Sep 11. PMID 26358086, Free PMC Article
  3. Hrd1 and ER-Associated Protein Degradation, ERAD, are Critical Elements of the Adaptive ER Stress Response in Cardiac Myocytes. Doroudgar S, et al. Circ Res, 2015 Aug 28. PMID 26137860, Free PMC Article
  4. Effects of oxidative stress on the solubility of HRD1, a ubiquitin ligase implicated in Alzheimer's disease. Saito R, et al. PLoS One, 2014. PMID 24788773, Free PMC Article
  5. Cholesterol-induced HRD1 reduction accelerates vascular smooth muscle cell senescence via stimulation of endoplasmic reticulum stress-induced reactive oxygen species. Wang L, et al. J Mol Cell Cardiol, 2024 Feb. PMID 38171043

See all (90) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Regulation of hepatic inclusions and fibrinogen biogenesis by SEL1L-HRD1 ERAD.
    Title: Regulation of hepatic inclusions and fibrinogen biogenesis by SEL1L-HRD1 ERAD.
  2. HRD1-mediated ubiquitination of HDAC2 regulates PPARalpha-mediated autophagy and alleviates metabolic-associated fatty liver disease.
    Title: HRD1-mediated ubiquitination of HDAC2 regulates PPARα-mediated autophagy and alleviates metabolic-associated fatty liver disease.
  3. Dysregulated SYVN1 promotes CAV1 protein ubiquitination and accentuates ischemic stroke.
    Title: Dysregulated SYVN1 promotes CAV1 protein ubiquitination and accentuates ischemic stroke.
  4. 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.
  5. 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.
  6. 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.
  7. 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.
  8. 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.
  9. 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.
  10. 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.
Submit: New GeneRIF Correction See all GeneRIFs (49)

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 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 ERAD pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in ERAD pathway ISS
Inferred from Sequence or Structural Similarity
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 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 IEA
Inferred from Electronic Annotation
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
  
part_of Hrd1p ubiquitin ligase ERAD-L complex ISS
Inferred from Sequence or Structural Similarity
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
 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 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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