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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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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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