Copa COPI coat complex subunit alpha [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Copaprovided by RGD
Official Full Name: COPI coat complex subunit alphaprovided by RGD
Primary source: RGD:1310525
See related: EnsemblRapid:ENSRNOG00000006247 AllianceGenome:RGD:1310525
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 enable mRNA binding activity. Predicted to be involved in Golgi vesicle transport and intracellular protein transport. Predicted to act upstream of or within pancreatic juice secretion; protein localization to axon; and protein localization to cell leading edge. Predicted to be located in several cellular components, including COPI-coated vesicle; Golgi apparatus; and growth cone. Predicted to be part of COPI vesicle coat. Human ortholog(s) of this gene implicated in autoimmune interstitial lung, joint, and kidney disease. Orthologous to human COPA (COPI coat complex subunit alpha). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Kidney (RPKM 371.7), Lung (RPKM 368.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q24

Exon count:: 33

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (87078853..87119256)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (84546483..84586879)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (90467285..90508894)

Chromosome 13 - NC_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables mRNA binding	ISO Inferred from Sequence Orthology more info
enables structural molecule activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in intra-Golgi vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in intracellular protein transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within pancreatic juice secretion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to axon	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to cell leading edge	ISO Inferred from Sequence Orthology more info
involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of COPI vesicle coat	IBA Inferred from Biological aspect of Ancestor more info
part_of COPI vesicle coat	ISO Inferred from Sequence Orthology more info
located_in COPI-coated vesicle	ISO Inferred from Sequence Orthology more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in growth cone	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: coatomer subunit alpha

Names: coatomer protein complex subunit alpha

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_001134540.1 → NP_001128012.1 coatomer subunit alpha

See identical proteins and their annotated locations for NP_001128012.1

Status: PROVISIONAL

Source sequence(s)

CH473985

UniProtKB/TrEMBL

A6JG21, B5DFK1

Related

ENSRNOP00000079759.2, ENSRNOT00000113779.2

Conserved Domains (5) summary

COG2319
Location:99 → 504

WD40; WD40 repeat [General function prediction only]

cd00200
Location:9 → 318

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

pfam04053
Location:339 → 767

Coatomer_WDAD; Coatomer WD associated region

pfam06957
Location:816 → 1218

COPI_C; Coatomer (COPI) alpha subunit C-terminus

sd00039
Location:15 → 49

7WD40; WD40 repeat [structural motif]