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    Spast spastin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362700, updated on 18-Apr-2019

    Summary

    Official Symbol
    Spastprovided by RGD
    Official Full Name
    spastinprovided by RGD
    Primary source
    RGD:1308494
    See related
    Ensembl:ENSRNOG00000027136
    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
    Spg4
    Expression
    Biased expression in Thymus (RPKM 91.0), Brain (RPKM 84.2) and 9 other tissues See more
    Orthologs

    Genomic context

    See Spast in Genome Data Viewer
    Location:
    6q13
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (22230067..22282166, complement)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 6 NC_005105.3 (32118321..32168698, complement)

    Chromosome 6 - NC_005105.4Genomic Context describing neighboring genes Neighboring gene NLR family, CARD domain containing 4 Neighboring gene solute carrier family 30 member 6 Neighboring gene uncharacterized LOC103692563 Neighboring gene similar to ribosomal protein L18a Neighboring gene dpy-30 histone methyltransferase complex regulatory subunit

    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

    Bibliography

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    ATPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    alpha-tubulin binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    alpha-tubulin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    beta-tubulin binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    beta-tubulin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    isomerase activity IEA
    Inferred from Electronic Annotation
    more info
     
    microtubule binding IEA
    Inferred from Electronic Annotation
    more info
     
    microtubule binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    microtubule binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    microtubule-severing ATPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    microtubule-severing ATPase activity IEA
    Inferred from Electronic Annotation
    more info
     
    microtubule-severing ATPase activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    microtubule-severing ATPase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    ER to Golgi vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
     
    ER to Golgi vesicle-mediated transport ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    ER to Golgi vesicle-mediated transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    anterograde axonal transport ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    anterograde axonal transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    axonal transport of mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    axonal transport of mitochondrion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    axonogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    cytokinetic process IEA
    Inferred from Electronic Annotation
    more info
     
    cytokinetic process ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cytokinetic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cytoplasmic microtubule organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    exit from mitosis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    exit from mitosis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    membrane fission ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    membrane fission ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    microtubule bundle formation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    microtubule bundle formation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    microtubule severing IEA
    Inferred from Electronic Annotation
    more info
     
    microtubule severing ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    microtubule severing ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    mitotic cytokinesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    mitotic cytokinesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    mitotic spindle disassembly ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    mitotic spindle disassembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    nuclear envelope reassembly ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    nuclear envelope reassembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of cytokinesis IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of cytokinesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of microtubule depolymerization IEA
    Inferred from Electronic Annotation
    more info
     
    protein hexamerization IEA
    Inferred from Electronic Annotation
    more info
     
    protein hexamerization ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    protein hexamerization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    protein homooligomerization ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    protein homooligomerization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    axon cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    centrosome IEA
    Inferred from Electronic Annotation
    more info
     
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cytoplasmic vesicle ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    colocalizes_with endoplasmic reticulum ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    endoplasmic reticulum tubular network ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    endosome IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with endosome ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    colocalizes_with endosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    microtubule IEA
    Inferred from Electronic Annotation
    more info
     
    microtubule cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    colocalizes_with microtubule cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    colocalizes_with microtubule cytoskeleton ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    midbody IEA
    Inferred from Electronic Annotation
    more info
     
    midbody ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    colocalizes_with midbody ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    midbody ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    colocalizes_with midbody ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    nuclear membrane ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    nuclear membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    perinuclear region of cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    spindle IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    spastin
    Names
    spastic paraplegia 4 (autosomal dominant
    spastic paraplegia 4 (autosomal dominant; spastin)
    NP_001102172.2
    XP_008762708.1
    XP_008762709.1
    XP_008762710.1

    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_001108702.2NP_001102172.2  spastin

      See identical proteins and their annotated locations for NP_001102172.2

      Status: VALIDATED

      Source sequence(s)
      AC139392, BC166846
      UniProtKB/Swiss-Prot
      B2RYN7
      Related
      ENSRNOP00000033763.5, ENSRNOT00000039375.5
      Conserved Domains (5) summary
      smart00382
      Location:339475
      AAA; ATPases associated with a variety of cellular activities
      cd02679
      Location:114192
      MIT_spastin; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be ...
      pfam00004
      Location:343473
      AAA; ATPase family associated with various cellular activities (AAA)
      pfam09336
      Location:545577
      Vps4_C; Vps4 C terminal oligomerization domain
      cl21455
      Location:306362
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    RefSeqs of Annotated Genomes: Rattus norvegicus 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 Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005105.4 Reference Rnor_6.0 Primary Assembly

      Range
      22230067..22282166 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008764488.2XP_008762710.1  spastin isoform X3

      Conserved Domains (5) summary
      smart00382
      Location:340476
      AAA; ATPases associated with a variety of cellular activities
      cd02679
      Location:114193
      MIT_spastin; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be ...
      pfam00004
      Location:344474
      AAA; ATPase family associated with various cellular activities (AAA)
      pfam09336
      Location:546578
      Vps4_C; Vps4 C terminal oligomerization domain
      cl21455
      Location:307363
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
    2. XM_008764487.2XP_008762709.1  spastin isoform X2

      Related
      ENSRNOP00000073338.1, ENSRNOT00000079137.1
      Conserved Domains (5) summary
      smart00382
      Location:371507
      AAA; ATPases associated with a variety of cellular activities
      cd02679
      Location:114192
      MIT_spastin; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be ...
      pfam00004
      Location:375505
      AAA; ATPase family associated with various cellular activities (AAA)
      pfam09336
      Location:577609
      Vps4_C; Vps4 C terminal oligomerization domain
      cl21455
      Location:338394
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
    3. XM_008764486.2XP_008762708.1  spastin isoform X1

      Conserved Domains (5) summary
      smart00382
      Location:372508
      AAA; ATPases associated with a variety of cellular activities
      cd02679
      Location:114193
      MIT_spastin; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be ...
      pfam00004
      Location:376506
      AAA; ATPase family associated with various cellular activities (AAA)
      pfam09336
      Location:578610
      Vps4_C; Vps4 C terminal oligomerization domain
      cl21455
      Location:339395
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    Alternate Rn_Celera

    Genomic

    1. AC_000074.1 Alternate Rn_Celera

      Range
      20614184..20664224 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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