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Spart spartin [ Rattus norvegicus (Norway rat) ]

Gene ID: 295053, updated on 18-Apr-2019

Summary

Official Symbol
Spartprovided by RGD
Official Full Name
spartinprovided by RGD
Primary source
RGD:1305900
See related
Ensembl:ENSRNOG00000014155
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
Spg20
Expression
Biased expression in Adrenal (RPKM 137.7), Muscle (RPKM 103.4) and 9 other tissues See more
Orthologs

Genomic context

See Spart in Genome Data Viewer
Location:
2q26
Exon count:
11
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (144522382..144548968)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 2 NC_005101.3 (163938864..163965175)

Chromosome 2 - NC_005101.4Genomic Context describing neighboring genes Neighboring gene serine-rich and transmembrane domain containing 1 Neighboring gene cyclin A1 Neighboring gene coiled-coil domain containing 169 Neighboring gene spermatogenesis and oogenesis specific basic helix-loop-helix 2

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

Pathways from BioSystems

  • Endocytosis, organism-specific biosystem (from KEGG)
    Endocytosis, organism-specific biosystemEndocytosis is a mechanism for cells to remove ligands, nutrients, and plasma membrane (PM) proteins, and lipids from the cell surface, bringing them into the cell interior. Transmembrane proteins en...
  • Endocytosis, conserved biosystem (from KEGG)
    Endocytosis, conserved biosystemEndocytosis is a mechanism for cells to remove ligands, nutrients, and plasma membrane (PM) proteins, and lipids from the cell surface, bringing them into the cell interior. Transmembrane proteins en...

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
ubiquitin protein ligase binding IEA
Inferred from Electronic Annotation
more info
 
ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
PubMed 
Process Evidence Code Pubs
abscission IEA
Inferred from Electronic Annotation
more info
 
abscission ISO
Inferred from Sequence Orthology
more info
PubMed 
adipose tissue development ISO
Inferred from Sequence Orthology
more info
PubMed 
cell division IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell division ISO
Inferred from Sequence Orthology
more info
PubMed 
lipid droplet organization ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of BMP signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of BMP signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of collateral sprouting in absence of injury ISO
Inferred from Sequence Orthology
more info
PubMed 
neuromuscular process ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of mitochondrial membrane potential IEA
Inferred from Electronic Annotation
more info
 
regulation of mitochondrial membrane potential ISO
Inferred from Sequence Orthology
more info
PubMed 
Component Evidence Code Pubs
cytoplasm ISO
Inferred from Sequence Orthology
more info
PubMed 
cytosol IEA
Inferred from Electronic Annotation
more info
 
cytosol ISO
Inferred from Sequence Orthology
more info
 
lipid droplet ISO
Inferred from Sequence Orthology
more info
PubMed 
midbody IEA
Inferred from Electronic Annotation
more info
 
midbody ISO
Inferred from Sequence Orthology
more info
PubMed 
mitochondrial outer membrane IEA
Inferred from Electronic Annotation
more info
 
mitochondrial outer membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane ISO
Inferred from Sequence Orthology
more info
 
synapse ISO
Inferred from Sequence Orthology
more info
PubMed 

General protein information

Preferred Names
spartin
Names
spastic paraplegia 20 (Troyer syndrome) homolog
spastic paraplegia 20, spartin (Troyer syndrome) homolog

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_001106433.2NP_001099903.2  spartin

    See identical proteins and their annotated locations for NP_001099903.2

    Status: VALIDATED

    Source sequence(s)
    AABR07010631, BM387247
    Related
    ENSRNOP00000054787.4, ENSRNOT00000057978.4
    Conserved Domains (2) summary
    cd02679
    Location:1695
    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 ...
    pfam06911
    Location:434619
    Senescence; Senescence-associated protein

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_005101.4 Reference Rnor_6.0 Primary Assembly

    Range
    144522382..144548968
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006232367.3XP_006232429.1  spartin isoform X3

    See identical proteins and their annotated locations for XP_006232429.1

    Conserved Domains (2) summary
    cd02679
    Location:1695
    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 ...
    pfam06911
    Location:434619
    Senescence; Senescence-associated protein
  2. XM_006232365.3XP_006232427.1  spartin isoform X1

    Conserved Domains (2) summary
    cd02679
    Location:27106
    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 ...
    pfam06911
    Location:445630
    Senescence; Senescence-associated protein
  3. XM_006232366.3XP_006232428.1  spartin isoform X2

    Conserved Domains (2) summary
    cd02679
    Location:24103
    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 ...
    pfam06911
    Location:442627
    Senescence; Senescence-associated protein

Alternate Rn_Celera

Genomic

  1. AC_000070.1 Alternate Rn_Celera

    Range
    133776474..133803061
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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