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

    Gene ID: 307309, updated on 9-Dec-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 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, Dec 2024]
    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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    See Sncaip in Genome Data Viewer
    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
    • 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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    NEW Try the new Transcript table

    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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