Stbd1 starch binding domain 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Stbd1provided by RGD
Official Full Name: starch binding domain 1provided by RGD
Primary source: RGD:1311800
See related: EnsemblRapid:ENSRNOG00000002218 AllianceGenome:RGD:1311800
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
Also known as: RGD1311800
Summary: Predicted to enable cargo receptor activity; enzyme binding activity; and glycogen binding activity. Predicted to be involved in glycophagy; intracellular transport; and substrate localization to autophagosome. Predicted to act upstream of or within vesicle-mediated transport. Predicted to be located in T-tubule; endoplasmic reticulum; and perinuclear region of cytoplasm. Predicted to be active in membrane. Orthologous to human STBD1 (starch binding domain 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Muscle (RPKM 437.5), Liver (RPKM 261.5) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14p22

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (15754769..15758174, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (15470452..15473857, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (16976355..16979760, complement)

Chromosome 14 - NC_086032.1 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?

Stbd1 is involved in glycogen metabolism by binding to glycogen and anchoring it to membranes, thereby affecting its cellular localization and its intracellular trafficking to lysosomes.
Title: Starch binding domain-containing protein 1/genethonin 1 is a novel participant in glycogen metabolism.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cargo receptor activity	ISO Inferred from Sequence Orthology more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables glycogen binding	IEA Inferred from Electronic Annotation more info
enables glycogen binding	ISO Inferred from Sequence Orthology more info
enables glycogen binding	ISS Inferred from Sequence or Structural Similarity more info
enables polysaccharide binding	ISO Inferred from Sequence Orthology more info
enables starch binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in glycogen catabolic process	ISO Inferred from Sequence Orthology more info
involved_in glycogen catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in glycophagy	ISO Inferred from Sequence Orthology more info
involved_in glycophagy	ISS Inferred from Sequence or Structural Similarity more info
involved_in intracellular transport	ISO Inferred from Sequence Orthology more info
involved_in substrate localization to autophagosome	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in T-tubule	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in phagophore assembly site membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: starch-binding domain-containing protein 1

Names: genethonin-1; glycophagy cargo receptor stbd1

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_001013988.1 → NP_001014010.1 starch-binding domain-containing protein 1

See identical proteins and their annotated locations for NP_001014010.1

Status: PROVISIONAL

Source sequence(s)

BC089867

UniProtKB/Swiss-Prot

Q5FVN1

UniProtKB/TrEMBL

A6KK65

Related

ENSRNOP00000078314.1, ENSRNOT00000119917.2

Conserved Domains (1) summary

cd05813
Location:239 → 333

CBM20_genethonin_1; Genethonin-1, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Genethonin-1 is a human skeletal muscle protein with no known function. It contains a C-terminal CBM20 domain. The CBM20 domain is found in a large number of starch ...