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syvn1.S synoviolin 1 S homeolog [ Xenopus laevis (African clawed frog) ]

Gene ID: 494996, updated on 4-Nov-2024

Summary

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Official Symbol
syvn1.S
Official Full Name
synoviolin 1 S homeolog
Primary source
Xenbase:XB-GENE-6254740
Locus tag
XELAEV_18024278mg
See related
EnsemblRapid:ENSXLAG00005010736 AllianceGenome:Xenbase:XB-GENE-6254740
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Xenopus laevis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as
hrd1; syvn1; hrd1-b; syvn1-a; syvn1-b
Summary
Predicted to enable ubiquitin protein ligase activity. Predicted to act upstream of or within ERAD pathway and ubiquitin-dependent protein catabolic process. Predicted to be located in endoplasmic reticulum membrane. Orthologous to human SYVN1 (synoviolin 1). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See syvn1.S in Genome Data Viewer
Location:
chromosome: 4S
Exon count:
18
Annotation release Status Assembly Chr Location
101 current Xenopus_laevis_v10.1 (GCF_017654675.1) 4S NC_054378.1 (3582045..3611050, complement)
100 previous assembly Xenopus_laevis_v2 (GCF_001663975.1) 4S NC_030731.1 (3452715..3481816, complement)

Chromosome 4S - NC_054378.1Genomic Context describing neighboring genes Neighboring gene calpain 1, (mu/I) large subunit S homeolog Neighboring gene Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed S homeolog Neighboring gene cAMP-dependent protein kinase catalytic subunit-like Neighboring gene cAMP-dependent protein kinase catalytic subunit-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

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. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by Xenbase

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 ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within ERAD pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
Component Evidence Code Pubs
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
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 B
Names
RING-type E3 ubiquitin transferase synoviolin B
synovial apoptosis inhibitor 1, synoviolin
synovial apoptosis inhibitor 1-B
NP_001088172.1
XP_018115168.1
XP_018115169.1

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_001094703.1 → NP_001088172.1  E3 ubiquitin-protein ligase synoviolin B

    See identical proteins and their annotated locations for NP_001088172.1

    Status: PROVISIONAL

    Source sequence(s)
    BC084080
    UniProtKB/Swiss-Prot
    Q5XHH7
    UniProtKB/TrEMBL
    A0A974HMX5
    Related
    ENSXLAP00005031696.1, ENSXLAT00005032467.1
    Conserved Domains (2) summary
    COG5243
    Location:4 → 339
    HRD1; HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
    pfam13639
    Location:283 → 324
    zf-RING_2; Ring finger domain

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...Open this link in a new tab

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

  1. NC_054378.1 Reference Xenopus_laevis_v10.1 Primary Assembly

    Range
    3582045..3611050 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_018259680.2 → XP_018115169.1  E3 ubiquitin-protein ligase synoviolin B isoform X1

    UniProtKB/TrEMBL
    A0A1L8GD11, A0A974HL29, A0A974HMX5

  2. XM_018259679.2 → XP_018115168.1  E3 ubiquitin-protein ligase synoviolin B isoform X1

    UniProtKB/TrEMBL
    A0A1L8GD11, A0A974HL29, A0A974HMX5
    Related
    ENSXLAP00005031699.1, ENSXLAT00005032471.1
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5XHH7.1 GenPept UniProtKB/Swiss-Prot:Q5XHH7

Gene LinkOut

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