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

Gene ID: 299356, updated on 17-Aug-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, Apr 2022]
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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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 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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