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    SNCAIP synuclein alpha interacting protein [ Sus scrofa (pig) ]

    Gene ID: 100049698, updated on 2-Oct-2018

    Summary

    Gene symbol
    SNCAIP
    Gene description
    synuclein alpha interacting protein
    See related
    Ensembl:ENSSSCG00000014235
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Cetartiodactyla; Suina; Suidae; Sus
    Annotation information
    Annotation category: partial on reference assembly
    Expression
    Broad expression in ovary (RPKM 6.4), lung (RPKM 2.1) and 8 other tissues See more
    Orthologs

    Genomic context

    See SNCAIP in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 2 NC_010444.4 (125889165..125956864)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 2 NC_010444.3 (131097461..131120771)

    Chromosome 2 - NC_010444.4Genomic Context describing neighboring genes Neighboring gene serum response factor binding protein 1 Neighboring gene zinc finger protein 474 Neighboring gene lysyl oxidase Neighboring gene uncharacterized LOC110259455 Neighboring gene sorting nexin 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    • Parkinson's disease, organism-specific biosystem (from KEGG)
      Parkinson's disease, organism-specific biosystemParkinson's disease (PD) is a progressive neurodegenerative movement disorder that results primarily from the death of dopaminergic (DA) neurons in the substantia nigra pars compacta (SNc). Mutations...

    General protein information

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

    NCBI Reference Sequences (RefSeq)

    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_001105053.1NP_001098523.1  synphilin-1 isoform 1

      See identical proteins and their annotated locations for NP_001098523.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform 1).
      Source sequence(s)
      EF154190
      UniProtKB/TrEMBL
      A7WSU6
      Related
      ENSSSCP00000033741.1, ENSSSCT00000063464.1
      Conserved Domains (4) summary
      cd00204
      Location:345510
      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:354487
      Ank_2; Ankyrin repeats (3 copies)
      pfam16700
      Location:512553
      SNCAIP_SNCA_bd; Synphilin-1 alpha-Synuclein-binding domain
      sd00045
      Location:349382
      ANK; ANK repeat [structural motif]
    2. NM_001105054.1NP_001098524.1  synphilin-1 isoform 1a

      See identical proteins and their annotated locations for NP_001098524.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (1a) lacks alternate segments in the 5' coding region, compared to variant 1. The resulting protein (isoform 1a) is shorter when it is compared to isoform 1.
      Source sequence(s)
      EF154191
      UniProtKB/TrEMBL
      A7WSU9
      Conserved Domains (4) summary
      cd00204
      Location:1997
      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 ...
      pfam13637
      Location:4497
      Ank_4; Ankyrin repeats (many copies)
      pfam16700
      Location:99140
      SNCAIP_SNCA_bd; Synphilin-1 alpha-Synuclein-binding domain
      sd00045
      Location:4374
      ANK; ANK repeat [structural motif]

    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

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

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010444.4 Reference Sscrofa11.1 Primary Assembly

      Range
      125889165..125956864
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001098601.1: Suppressed sequence

      Description
      NM_001098601.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
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