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Sncaip synuclein, alpha interacting protein [ Rattus norvegicus (Norway rat) ]

Gene ID: 307309, updated on 17-Aug-2024

Summary

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Official Symbol
Sncaipprovided by RGD
Official Full Name
synuclein, alpha interacting proteinprovided by RGD
Primary source
RGD:1309283
See related
EnsemblRapid:ENSRNOG00000018254 AllianceGenome:RGD:1309283
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
Syph1
Summary
Predicted to enable identical protein binding activity and ubiquitin protein ligase binding activity. Predicted to be involved in several processes, including dopamine metabolic process; regulation of inclusion body assembly; and regulation of neurotransmitter secretion. Predicted to be located in cytoplasmic ribonucleoprotein granule and nucleoplasm. Orthologous to human SNCAIP (synuclein alpha interacting protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Heart (RPKM 23.6), Kidney (RPKM 20.6) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
18q11
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (48402164..48542246)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (46205846..46343932)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (47739284..47877679)

Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene glycerol kinase-like 1 Neighboring gene uncharacterized LOC134483020 Neighboring gene ancient vomeronasal 1 receptor Neighboring gene NHP2 ribonucleoprotein, pseudogene 4 Neighboring gene uncharacterized LOC134483021

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 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. Interaction with synphilin-1 promotes inclusion formation of alpha-synuclein: mechanistic insights and pathological implication. Xie YY, et al. FASEB J, 2010 Jan. PMID 19762560
  2. Synphilin-1A: an aggregation-prone isoform of synphilin-1 that causes neuronal death and is present in aggregates from alpha-synucleinopathy patients. Eyal A, et al. Proc Natl Acad Sci U S A, 2006 Apr 11. PMID 16595633, Free PMC Article
  3. Parkin mediates nonclassical, proteasomal-independent ubiquitination of synphilin-1: implications for Lewy body formation. Lim KL, et al. J Neurosci, 2005 Feb 23. PMID 15728840, Free PMC Article
  4. Siah-1 facilitates ubiquitination and degradation of synphilin-1. Nagano Y, et al. J Biol Chem, 2003 Dec 19. PMID 14506261
  5. Ubiquitylation of synphilin-1 and alpha-synuclein by SIAH and its presence in cellular inclusions and Lewy bodies imply a role in Parkinson's disease. Liani E, et al. Proc Natl Acad Sci U S A, 2004 Apr 13. PMID 15064394, Free PMC Article

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. synphilin-1A has a novel role as a regulator of SIAH activity, modulating alpha-synuclein, and formation of Lewy body-like inclusions
    Title: Synphilin-1A inhibits seven in absentia homolog (SIAH) and modulates alpha-synuclein monoubiquitylation and inclusion formation.
  2. Our data indicated that synphilin-1 is a synaptic partner of alpha-synuclein, and it may mediate synaptic roles attributed to alpha-synuclein.
    Title: Synphilin-1 is developmentally localized to synaptic terminals, and its association with synaptic vesicles is modulated by alpha-synuclein.
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 identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables ubiquitin protein ligase binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin protein ligase binding ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within dopamine metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in dopamine metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of inclusion body assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of inclusion body assembly ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within regulation of neurotransmitter secretion ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of neurotransmitter secretion ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytoplasmic ribonucleoprotein granule IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasmic ribonucleoprotein granule 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
  

General protein information

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Preferred Names
synphilin-1
Names
synuclein, alpha interacting protein (synphilin)

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_001107379.1 → NP_001100849.1  synphilin-1

    See identical proteins and their annotated locations for NP_001100849.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473971
    UniProtKB/TrEMBL
    A0A8I5ZUU7, A6IX21, D3ZWQ5
    Related
    ENSRNOP00000025119.5, ENSRNOT00000025119.7
    Conserved Domains (5) summary
    cd00204
    Location:344 → 509
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    pfam12796
    Location:390 → 486
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:349 → 404
    Ank_4; Ankyrin repeats (many copies)
    pfam16700
    Location:511 → 554
    SNCAIP_SNCA_bd; Synphilin-1 alpha-Synuclein-binding domain
    sd00045
    Location:348 → 381
    ANK; ANK repeat [structural motif]

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_086036.1 Reference GRCr8

    Range
    48402164..48542246
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006254719.4 → XP_006254781.1  synphilin-1 isoform X1

    See identical proteins and their annotated locations for XP_006254781.1

    UniProtKB/TrEMBL
    A0A8I5ZUU7, A6IX21, D3ZWQ5
    Conserved Domains (5) summary
    cd00204
    Location:344 → 509
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    pfam12796
    Location:390 → 486
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:349 → 404
    Ank_4; Ankyrin repeats (many copies)
    pfam16700
    Location:511 → 554
    SNCAIP_SNCA_bd; Synphilin-1 alpha-Synuclein-binding domain
    sd00045
    Location:348 → 381
    ANK; ANK repeat [structural motif]

  2. XM_039096790.2 → XP_038952718.1  synphilin-1 isoform X2

    UniProtKB/TrEMBL
    A0A0G2JTZ6, A0A8I5ZUU7, A6IX22
    Conserved Domains (3) summary
    sd00045
    Location:348 → 381
    ANK; ANK repeat [structural motif]
    pfam16700
    Location:511 → 554
    SNCAIP_SNCA_bd; Synphilin-1 alpha-Synuclein-binding domain
    pfam12796
    Location:390 → 486
    Ank_2; Ankyrin repeats (3 copies)

  3. XM_063277309.1 → XP_063133379.1  synphilin-1 isoform X3

  4. XM_006254721.5 → XP_006254783.1  synphilin-1 isoform X1

    See identical proteins and their annotated locations for XP_006254783.1

    UniProtKB/TrEMBL
    A0A8I5ZUU7, A6IX21, D3ZWQ5
    Conserved Domains (5) summary
    cd00204
    Location:344 → 509
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    pfam12796
    Location:390 → 486
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:349 → 404
    Ank_4; Ankyrin repeats (many copies)
    pfam16700
    Location:511 → 554
    SNCAIP_SNCA_bd; Synphilin-1 alpha-Synuclein-binding domain
    sd00045
    Location:348 → 381
    ANK; ANK repeat [structural motif]

  5. XM_063277308.1 → XP_063133378.1  synphilin-1 isoform X2

    UniProtKB/TrEMBL
    A0A0G2JTZ6, A0A8I5ZUU7, A6IX22
    Related
    ENSRNOP00000101363.1, ENSRNOT00000140498.1

  6. XM_006254720.5 → XP_006254782.1  synphilin-1 isoform X1

    See identical proteins and their annotated locations for XP_006254782.1

    UniProtKB/TrEMBL
    A0A8I5ZUU7, A6IX21, D3ZWQ5
    Conserved Domains (5) summary
    cd00204
    Location:344 → 509
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    pfam12796
    Location:390 → 486
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:349 → 404
    Ank_4; Ankyrin repeats (many copies)
    pfam16700
    Location:511 → 554
    SNCAIP_SNCA_bd; Synphilin-1 alpha-Synuclein-binding domain
    sd00045
    Location:348 → 381
    ANK; ANK repeat [structural motif]

  7. XM_063277306.1 → XP_063133376.1  synphilin-1 isoform X2

    UniProtKB/TrEMBL
    A0A0G2JTZ6, A0A8I5ZUU7, A6IX22

  8. XM_063277307.1 → XP_063133377.1  synphilin-1 isoform X2

    UniProtKB/TrEMBL
    A0A0G2JTZ6, A0A8I5ZUU7, A6IX22
    Related
    ENSRNOP00000068903.3, ENSRNOT00000082760.3
Nucleotide Protein Strain
Heading Accession and Version

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