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    Syne3 spectrin repeat containing, nuclear envelope family member 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 299356, updated on 9-Dec-2024

    Summary

    Official Symbol
    Syne3provided by RGD
    Official Full Name
    spectrin repeat containing, nuclear envelope family member 3provided by RGD
    Primary source
    RGD:1304563
    See related
    EnsemblRapid:ENSRNOG00000005287 AllianceGenome:RGD:1304563
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1304563
    Summary
    Predicted to enable actin filament binding activity and cytoskeleton-nuclear membrane anchor activity. Predicted to be involved in several processes, including establishment of protein localization to membrane; nuclear migration; and regulation of cell shape. Predicted to be located in nuclear membrane. Predicted to be part of meiotic nuclear membrane microtubule tethering complex. Predicted to be active in cytoplasm and nuclear outer membrane. Orthologous to human SYNE3 (spectrin repeat containing nuclear envelope family member 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 78.8), Thymus (RPKM 74.1) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Syne3 in Genome Data Viewer
    Location:
    6q32
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (129637644..129729542, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (123872895..123964773, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (128639036..128716061, complement)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene calmin Neighboring gene uncharacterized LOC134479254 Neighboring gene uncharacterized LOC102555497 Neighboring gene uncharacterized LOC120103609 Neighboring gene uncharacterized LOC120103610 Neighboring gene uncharacterized LOC134479255 Neighboring gene ribosomal protein L6, pseudogene 1 Neighboring gene small Cajal body-specific RNA 13

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin filament binding  
    enables actin filament binding  
    enables cytoskeleton-nuclear membrane anchor activity  
    Process Evidence Code Pubs
    involved_in cytoskeleton organization  
    involved_in establishment of protein localization to membrane  
    involved_in nuclear migration  
    involved_in regulation of cell shape  
    Component Evidence Code Pubs
    is_active_in cytoplasm  
    part_of meiotic nuclear membrane microtubule tethering complex  
    part_of meiotic nuclear membrane microtubule tethering complex  
    located_in nuclear envelope  
    located_in nuclear membrane  
    is_active_in nuclear outer membrane  
    located_in nuclear outer membrane  

    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_001106762.2NP_001100232.2  nesprin-3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      A0A0G2K4T9, A6JER9
      Related
      ENSRNOP00000036723.8, ENSRNOT00000035826.8
      Conserved Domains (4) summary
      PRK03918
      Location:170401
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:296548
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam10541
      Location:947976
      KASH; Nuclear envelope localization domain
      cl02488
      Location:578742
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

    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_086024.1 Reference GRCr8

      Range
      129637644..129729542 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039112110.2XP_038968038.1  nesprin-3 isoform X2

      UniProtKB/TrEMBL
      D3ZD24
      Conserved Domains (3) summary
      PRK03918
      Location:170401
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:296548
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cl02488
      Location:578775
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    2. XM_039112108.2XP_038968036.1  nesprin-3 isoform X1

      UniProtKB/TrEMBL
      A6JER9
      Conserved Domains (4) summary
      PRK03918
      Location:170401
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:296548
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam10541
      Location:9801009
      KASH; Nuclear envelope localization domain
      cl02488
      Location:578775
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    3. XM_063261793.1XP_063117863.1  nesprin-3 isoform X1

      UniProtKB/TrEMBL
      A6JER9
    4. XM_039112106.2XP_038968034.1  nesprin-3 isoform X1

      UniProtKB/TrEMBL
      A6JER9
      Related
      ENSRNOP00000098794.1, ENSRNOT00000151994.1
      Conserved Domains (4) summary
      PRK03918
      Location:170401
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:296548
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam10541
      Location:9801009
      KASH; Nuclear envelope localization domain
      cl02488
      Location:578775
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    5. XM_039112111.2XP_038968039.1  nesprin-3 isoform X4

      UniProtKB/TrEMBL
      A0A8I6GLX3, A6JER9
      Related
      ENSRNOP00000097111.1, ENSRNOT00000117087.2
      Conserved Domains (4) summary
      PRK03918
      Location:83314
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:209461
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam10541
      Location:860889
      KASH; Nuclear envelope localization domain
      cl02488
      Location:491655
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    6. XM_063261794.1XP_063117864.1  nesprin-3 isoform X3

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