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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

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    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
    human mouse all
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    Genomic context

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    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

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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. Nesprin-3 regulates endothelial cell morphology, perinuclear cytoskeletal architecture, and flow-induced polarization. Morgan JT, et al. Mol Biol Cell, 2011 Nov. PMID 21937718, Free PMC Article
    2. Cytoskeletal interactions at the nuclear envelope mediated by nesprins. Taranum S, et al. Int J Cell Biol, 2012. PMID 22518138, Free PMC Article
    3. Mammalian sperm head formation involves different polarization of two novel LINC complexes. Göb E, et al. PLoS One, 2010 Aug 10. PMID 20711465, Free PMC Article
    4. Structural requirements for the assembly of LINC complexes and their function in cellular mechanical stiffness. Stewart-Hutchinson PJ, et al. Exp Cell Res, 2008 May 1. PMID 18396275, Free PMC Article
    5. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin filament binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables actin filament binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables cytoskeleton-nuclear membrane anchor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in establishment of protein localization to membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nuclear migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of cell shape ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of meiotic nuclear membrane microtubule tethering complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of meiotic nuclear membrane microtubule tethering complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear envelope ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nuclear outer membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nuclear outer membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    nesprin-3

    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_001106762.2 → NP_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:170 → 401
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:296 → 548
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam10541
      Location:947 → 976
      KASH; Nuclear envelope localization domain
      cl02488
      Location:578 → 742
      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_039112110.2 → XP_038968038.1  nesprin-3 isoform X2

      UniProtKB/TrEMBL
      D3ZD24
      Conserved Domains (3) summary
      PRK03918
      Location:170 → 401
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:296 → 548
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cl02488
      Location:578 → 775
      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_039112108.2 → XP_038968036.1  nesprin-3 isoform X1

      UniProtKB/TrEMBL
      A6JER9
      Conserved Domains (4) summary
      PRK03918
      Location:170 → 401
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:296 → 548
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam10541
      Location:980 → 1009
      KASH; Nuclear envelope localization domain
      cl02488
      Location:578 → 775
      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_063261793.1 → XP_063117863.1  nesprin-3 isoform X1

      UniProtKB/TrEMBL
      A6JER9

    4. XM_039112106.2 → XP_038968034.1  nesprin-3 isoform X1

      UniProtKB/TrEMBL
      A6JER9
      Related
      ENSRNOP00000098794.1, ENSRNOT00000151994.1
      Conserved Domains (4) summary
      PRK03918
      Location:170 → 401
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:296 → 548
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam10541
      Location:980 → 1009
      KASH; Nuclear envelope localization domain
      cl02488
      Location:578 → 775
      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_039112111.2 → XP_038968039.1  nesprin-3 isoform X4

      UniProtKB/TrEMBL
      A0A8I6GLX3, A6JER9
      Related
      ENSRNOP00000097111.1, ENSRNOT00000117087.2
      Conserved Domains (4) summary
      PRK03918
      Location:83 → 314
      PRK03918; DNA double-strand break repair ATPase Rad50
      TIGR02168
      Location:209 → 461
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam10541
      Location:860 → 889
      KASH; Nuclear envelope localization domain
      cl02488
      Location:491 → 655
      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_063261794.1 → XP_063117864.1  nesprin-3 isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version

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