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

Summary

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, Dec 2024]
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

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_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

gamma-sarcoglycans show a typical spot-like staining pattern in the cerebellar cortex, as well as in the cerebral cortex.
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

AU046953 (e-PCR)
- UniSTS:110984

D10Rat35 (e-PCR)
- UniSTS:118176

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)

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
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

NC_086028.1 Reference GRCr8

Range

31847713..32829554 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Conserved Domains (1) summary

pfam04790
Location:43 → 296

Sarcoglycan_1; Sarcoglycan complex subunit protein
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
XM_063269591.1 → XP_063125661.1 delta-sarcoglycan isoform X4
XM_063269589.1 → XP_063125659.1 delta-sarcoglycan isoform X3

UniProtKB/TrEMBL

A0A8I6GAN9
XM_063269592.1 → XP_063125662.1 delta-sarcoglycan isoform X5

UniProtKB/TrEMBL

A0A8I6GAN9

Related

ENSRNOP00000083359.1, ENSRNOT00000104865.2