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    Sync syncoilin, intermediate filament protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362606, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Syncprovided by RGD
    Official Full Name
    syncoilin, intermediate filament proteinprovided by RGD
    Primary source
    RGD:1307970
    See related
    EnsemblRapid:ENSRNOG00000008118 AllianceGenome:RGD:1307970
    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
    Summary
    Predicted to be involved in intermediate filament-based process. Predicted to be located in cytoplasm. Predicted to be active in several cellular components, including Z disc; neuromuscular junction; and sarcolemma. Orthologous to human SYNC (syncoilin, intermediate filament protein). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Muscle (RPKM 162.4), Heart (RPKM 116.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sync in Genome Data Viewer
    Location:
    5q36
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (146915715..146940547)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (141631837..141656184)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (147476136..147500193)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene NHS like 3 Neighboring gene large ribosomal subunit protein uL23-like Neighboring gene RB binding protein 4, chromatin remodeling factor Neighboring gene zinc finger and BTB domain containing 8 opposite strand Neighboring gene uncharacterized LOC120103131 Neighboring gene zinc finger and BTB domain containing 8a

    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. Association of syncoilin and desmin: linking intermediate filament proteins to the dystrophin-associated protein complex. Poon E, et al. J Biol Chem, 2002 Feb 1. PMID 11694502
    2. Syncoilin, a novel member of the intermediate filament superfamily that interacts with alpha-dystrobrevin in skeletal muscle. Newey SE, et al. J Biol Chem, 2001 Mar 2. PMID 11053421
    3. The BMP antagonists cerberus-like and noggin do not interact during mouse forebrain development. Borges AC, et al. Int J Dev Biol, 2001 Apr. PMID 11330864
    4. p38α MAPK proximity assay reveals a regulatory mechanism of alternative splicing in cardiomyocytes. Dumont AA, et al. Biochim Biophys Acta Mol Cell Res, 2019 Dec. PMID 31505169
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    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

    Process Evidence Code Pubs
    involved_in intermediate filament-based process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within intermediate filament-based process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Z disc IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Z disc ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intermediate filament IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in neuromuscular junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in neuromuscular junction ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in sarcolemma IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in sarcolemma ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    syncoilin

    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_001108683.1 → NP_001102153.1  syncoilin

      See identical proteins and their annotated locations for NP_001102153.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473968
      UniProtKB/TrEMBL
      A0A8I6ADE8, A6ISI1, D3ZM91
      Related
      ENSRNOP00000080080.2, ENSRNOT00000119345.2
      Conserved Domains (2) summary
      pfam00038
      Location:159 → 445
      Filament; Intermediate filament protein
      pfam07106
      Location:355 → 444
      TBPIP; Tat binding protein 1(TBP-1)-interacting protein (TBPIP)

    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_086023.1 Reference GRCr8

      Range
      146915715..146940547
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039110357.2 → XP_038966285.1  syncoilin isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZSB3
      Conserved Domains (1) summary
      pfam00038
      Location:159 → 402
      Filament; Intermediate filament protein

    2. XM_006238944.5 → XP_006239006.1  syncoilin isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZSB3
      Related
      ENSRNOP00000010730.5, ENSRNOT00000010730.6
      Conserved Domains (2) summary
      pfam00038
      Location:159 → 446
      Filament; Intermediate filament protein
      pfam07106
      Location:355 → 430
      TBPIP; Tat binding protein 1(TBP-1)-interacting protein (TBPIP)

    3. XM_063288024.1 → XP_063144094.1  syncoilin isoform X1

      Related
      ENSRNOP00000105229.1, ENSRNOT00000129140.1

    RNA

    1. XR_010066424.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools