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

Summary

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

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_000085.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Regulation of hepatic inclusions and fibrinogen biogenesis by SEL1L-HRD1 ERAD.
Title: Regulation of hepatic inclusions and fibrinogen biogenesis by SEL1L-HRD1 ERAD.
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.
Dysregulated SYVN1 promotes CAV1 protein ubiquitination and accentuates ischemic stroke.
Title: Dysregulated SYVN1 promotes CAV1 protein ubiquitination and accentuates ischemic stroke.
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.
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.
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.
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.
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.
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.
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 (5)
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

C85322 (e-PCR)
- UniSTS:181163

AW211966 (e-PCR)
- UniSTS:181165

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 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

EC 2.3.2.27

NP_083045.4

EC 2.3.2.27

XP_006531913.1

EC 2.3.2.27

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)

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
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

NC_000085.7 Reference GRCm39 C57BL/6J

Range

6096586..6103748

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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