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Sgce sarcoglycan, epsilon [ Rattus norvegicus (Norway rat) ]

Gene ID: 432360, updated on 2-Nov-2024

Summary

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Symbol
Sgceprovided by RGD
Full Name
sarcoglycan, epsilonprovided by RGD
Primary source
RGD:1303201
See related
EnsemblRapid:ENSRNOG00000046905 AllianceGenome:RGD:1303201
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Involved in kidney development and skeletal muscle tissue development. Predicted to be located in Golgi apparatus and dendrite membrane. Predicted to be part of sarcoglycan complex. Human ortholog(s) of this gene implicated in myoclonic dystonia 11. Orthologous to human SGCE (sarcoglycan epsilon). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Lung (RPKM 150.6), Heart (RPKM 119.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Sgce in Genome Data Viewer
Location:
4q21
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (33738066..33808907, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (32771477..32842238, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (29726140..29769902, complement)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102552043 Neighboring gene CAS1 domain containing 1 Neighboring gene paternally expressed 10 Neighboring gene U4 spliceosomal RNA

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. Cloning, developmental regulation and neural localization of rat epsilon-sarcoglycan. Xiao J, et al. Brain Res Mol Brain Res, 2003 Nov 26. PMID 14625080
  2. Preliminary study on sarcoglycan sub-complex in rat cerebral and cerebellar cortex. Vermiglio G, et al. Ital J Anat Embryol, 2012. PMID 22894000
  3. SGCE missense mutations that cause myoclonus-dystonia syndrome impair epsilon-sarcoglycan trafficking to the plasma membrane: modulation by ubiquitination and torsinA. Esapa CT, et al. Hum Mol Genet, 2007 Feb 1. PMID 17200151
  4. Expression of the dystrophin-glycoprotein complex is a marker for human airway smooth muscle phenotype maturation. Sharma P, et al. Am J Physiol Lung Cell Mol Physiol, 2008 Jan. PMID 17993586
  5. Identification of a prognostic 5-Gene expression signature for gastric cancer. Hou JY, et al. J Cancer Res Clin Oncol, 2017 Apr. PMID 28035468

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. In cerebellar neurons and glial cells alpha-, beta-, gamma-, delta-, and epsilon-sarcoglycans are all expressed.
    Title: Preliminary study on sarcoglycan sub-complex in rat cerebral and cerebellar cortex.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in kidney development IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in skeletal muscle tissue development IEP
Inferred from Expression Pattern
more info
 PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
  
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
  
located_in Golgi apparatus ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
located_in dendrite IEA
Inferred from Electronic Annotation
more info
  
located_in dendrite membrane IEA
Inferred from Electronic Annotation
more info
  
located_in dendrite membrane ISO
Inferred from Sequence Orthology
more info
  
located_in dendrite membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of dystrophin-associated glycoprotein complex ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of sarcoglycan complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of sarcoglycan complex IEA
Inferred from Electronic Annotation
more info
  
part_of sarcoglycan complex ISO
Inferred from Sequence Orthology
more info
  
located_in sarcolemma IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
epsilon-sarcoglycan
Names
epsilon-SG

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_001002023.2 → NP_001002023.1  epsilon-sarcoglycan

    See identical proteins and their annotated locations for NP_001002023.1

    Status: PROVISIONAL

    Source sequence(s)
    BC089947
    UniProtKB/Swiss-Prot
    Q6YAT4
    UniProtKB/TrEMBL
    A0A8I6GCG9
    Conserved Domains (1) summary
    pfam05510
    Location:34 → 419
    Sarcoglycan_2; Sarcoglycan alpha/epsilon

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_086022.1 Reference GRCr8

    Range
    33738066..33808907 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039107995.2 → XP_038963923.1  epsilon-sarcoglycan isoform X5

    UniProtKB/TrEMBL
    A0A8I6GCG9
    Related
    ENSRNOP00000091800.2, ENSRNOT00000100248.2
    Conserved Domains (1) summary
    pfam05510
    Location:34 → 410
    Sarcoglycan_2; Sarcoglycan alpha/epsilon

  2. XM_063286431.1 → XP_063142501.1  epsilon-sarcoglycan isoform X11

  3. XM_039107994.2 → XP_038963922.1  epsilon-sarcoglycan isoform X4

    UniProtKB/TrEMBL
    A0A8I6AA37, A0A8I6GCG9
    Related
    ENSRNOP00000089367.1, ENSRNOT00000108812.2
    Conserved Domains (1) summary
    pfam05510
    Location:34 → 419
    Sarcoglycan_2; Sarcoglycan alpha/epsilon

  4. XM_039107993.2 → XP_038963921.1  epsilon-sarcoglycan isoform X8

    UniProtKB/TrEMBL
    A0A8I6AGU2, A0A8I6GCG9
    Related
    ENSRNOP00000064432.4, ENSRNOT00000074177.4
    Conserved Domains (1) summary
    pfam05510
    Location:79 → 446
    Sarcoglycan_2; Sarcoglycan alpha/epsilon

  5. XM_039107992.2 → XP_038963920.1  epsilon-sarcoglycan isoform X6

    UniProtKB/TrEMBL
    A0A8I6GCG9, M0R4Y0
    Conserved Domains (1) summary
    pfam05510
    Location:79 → 455
    Sarcoglycan_2; Sarcoglycan alpha/epsilon

  6. XM_039107998.2 → XP_038963926.1  epsilon-sarcoglycan isoform X10

    UniProtKB/TrEMBL
    A0A8I6GCG9
    Conserved Domains (1) summary
    pfam05510
    Location:33 → 369
    Sarcoglycan_2; Sarcoglycan alpha/epsilon

  7. XM_039107997.2 → XP_038963925.1  epsilon-sarcoglycan isoform X9

    UniProtKB/TrEMBL
    A0A8I6GCG9
    Conserved Domains (1) summary
    pfam05510
    Location:33 → 378
    Sarcoglycan_2; Sarcoglycan alpha/epsilon

  8. XM_039107990.2 → XP_038963918.1  epsilon-sarcoglycan isoform X2

    UniProtKB/TrEMBL
    A0A8I6GCG9
    Conserved Domains (1) summary
    pfam05510
    Location:79 → 446
    Sarcoglycan_2; Sarcoglycan alpha/epsilon

  9. XM_039107988.2 → XP_038963916.1  epsilon-sarcoglycan isoform X1

    UniProtKB/TrEMBL
    A0A8I6GCG9
    Conserved Domains (1) summary
    pfam05510
    Location:79 → 455
    Sarcoglycan_2; Sarcoglycan alpha/epsilon

  10. XM_063286433.1 → XP_063142503.1  epsilon-sarcoglycan isoform X13

  11. XM_063286432.1 → XP_063142502.1  epsilon-sarcoglycan isoform X12

    UniProtKB/TrEMBL
    A0A8I6AKU0
    Related
    ENSRNOP00000094451.1, ENSRNOT00000103566.2

  12. XM_063286430.1 → XP_063142500.1  epsilon-sarcoglycan isoform X7

    Related
    ENSRNOP00000085107.2, ENSRNOT00000119838.2

  13. XM_039107991.2 → XP_038963919.1  epsilon-sarcoglycan isoform X3

    UniProtKB/TrEMBL
    A0A8I6GCG9
    Conserved Domains (1) summary
    pfam05510
    Location:79 → 455
    Sarcoglycan_2; Sarcoglycan alpha/epsilon
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6YAT4.1 GenPept UniProtKB/Swiss-Prot:Q6YAT4

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