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Sgcd sarcoglycan, delta [ Rattus norvegicus (Norway rat) ]

Gene ID: 497892, updated on 17-Aug-2024

Summary

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Official Symbol
Sgcdprovided by RGD
Official Full Name
sarcoglycan, deltaprovided by RGD
Primary source
RGD:1306638
See related
EnsemblRapid:ENSRNOG00000002372 AllianceGenome:RGD:1306638
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
Predicted to be involved in cardiac muscle tissue development and heart contraction. Predicted to act upstream of or within several processes, including calcium-mediated signaling; cardiac muscle cell contraction; and heart development. Predicted to be located in plasma membrane and sarcoplasmic reticulum. Predicted to be part of sarcoglycan complex. Predicted to be active in sarcolemma. Human ortholog(s) of this gene implicated in autosomal recessive limb-girdle muscular dystrophy type 2F; dilated cardiomyopathy 1L; and muscular dystrophy. Orthologous to human SGCD (sarcoglycan delta). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Muscle (RPKM 260.0), Heart (RPKM 223.6) and 4 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Sgcd in Genome Data Viewer
Location:
10q21
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (31847713..32829554, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (31346480..32328364, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (32062946..32471454, complement)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene T-cell immunoglobulin and mucin domain containing 4 Neighboring gene HCLS1 associated protein X-1, pseudogene 2 Neighboring gene uncharacterized LOC134480686 Neighboring gene uncharacterized LOC134480632 Neighboring gene zinc finger protein 622, pseudogene 1

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. Prevention of cardiomyopathy in delta-sarcoglycan knockout mice after systemic transfer of targeted adeno-associated viral vectors. Goehringer C, et al. Cardiovasc Res, 2009 Jun 1. PMID 19218289
  2. Myocardial Contractile Dysfunction Is Present without Histopathology in a Mouse Model of Limb-Girdle Muscular Dystrophy-2F and Is Prevented after Claudin-5 Virotherapy. Milani-Nejad N, et al. Front Physiol, 2016. PMID 27999547, Free PMC Article
  3. S151A δ-sarcoglycan mutation causes a mild phenotype of cardiomyopathy in mice. Rutschow D, et al. Eur J Hum Genet, 2014 Jan. PMID 23695275, Free PMC Article
  4. Autosomal recessive limb-girdle muscular dystrophy, LGMD2F, is caused by a mutation in the delta-sarcoglycan gene. Nigro V, et al. Nat Genet, 1996 Oct. PMID 8841194
  5. Intracellular Ca2+ transients in delta-sarcoglycan knockout mouse skeletal muscle. Solares-Pérez A, et al. Biochim Biophys Acta, 2010 Mar. PMID 19931597

See all (14) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
acts_upstream_of_or_within calcium ion homeostasis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within calcium-mediated signaling ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cardiac muscle cell contraction ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cardiac muscle cell development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cardiac muscle contraction ISO
Inferred from Sequence Orthology
more info
  
involved_in cardiac muscle tissue development IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within coronary vasculature morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in heart contraction IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within heart process ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within protein-containing complex localization ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
part_of dystroglycan complex ISO
Inferred from Sequence Orthology
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
  
part_of sarcoglycan complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of sarcoglycan complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in sarcolemma IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in sarcolemma ISO
Inferred from Sequence Orthology
more info
  
located_in sarcoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
delta-sarcoglycan
Names
sarcoglycan, delta (dystrophin-associated glycoprotein)

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_001109029.1 → NP_001102499.1  delta-sarcoglycan isoform a

    See identical proteins and their annotated locations for NP_001102499.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473948
    UniProtKB/TrEMBL
    A0A8I6A9M3, A6HDT4
    Related
    ENSRNOP00000088252.1, ENSRNOT00000117010.2
    Conserved Domains (1) summary
    pfam04790
    Location:28 → 242
    Sarcoglycan_1; Sarcoglycan complex subunit protein

  2. NM_001134826.1 → NP_001128298.1  delta-sarcoglycan isoform b

    See identical proteins and their annotated locations for NP_001128298.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473948
    UniProtKB/TrEMBL
    A6HDT5, F1LYS7
    Related
    ENSRNOP00000107338.1, ENSRNOT00000133957.1
    Conserved Domains (1) summary
    pfam04790
    Location:23 → 276
    Sarcoglycan_1; Sarcoglycan complex subunit protein

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_086028.1 Reference GRCr8

    Range
    31847713..32829554 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039086545.2 → XP_038942473.1  delta-sarcoglycan isoform X1

    Related
    ENSRNOP00000003224.8, ENSRNOT00000003224.10
    Conserved Domains (1) summary
    pfam04790
    Location:43 → 296
    Sarcoglycan_1; Sarcoglycan complex subunit protein

  2. XM_039086546.2 → XP_038942474.1  delta-sarcoglycan isoform X1

    Conserved Domains (1) summary
    pfam04790
    Location:43 → 296
    Sarcoglycan_1; Sarcoglycan complex subunit protein

  3. XM_039086547.2 → XP_038942475.1  delta-sarcoglycan isoform X2

    UniProtKB/TrEMBL
    A6HDT5, F1LYS7
    Conserved Domains (1) summary
    pfam04790
    Location:23 → 276
    Sarcoglycan_1; Sarcoglycan complex subunit protein

  4. XM_063269591.1 → XP_063125661.1  delta-sarcoglycan isoform X4

  5. XM_063269589.1 → XP_063125659.1  delta-sarcoglycan isoform X3

    UniProtKB/TrEMBL
    A0A8I6GAN9

  6. XM_063269592.1 → XP_063125662.1  delta-sarcoglycan isoform X5

    UniProtKB/TrEMBL
    A0A8I6GAN9
    Related
    ENSRNOP00000083359.1, ENSRNOT00000104865.2
Nucleotide Protein Strain
Heading Accession and Version

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Chemical Information
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Research Materials