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COG5 component of oligomeric golgi complex 5 [ Homo sapiens (human) ]

Gene ID: 10466, updated on 17-Jun-2019

Summary

Official Symbol
COG5provided by HGNC
Official Full Name
component of oligomeric golgi complex 5provided by HGNC
Primary source
HGNC:HGNC:14857
See related
Ensembl:ENSG00000164597 MIM:606821
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CDG2I; GTC90; GOLTC1
Summary
The protein encoded by this gene is one of eight proteins (Cog1-8) which form a Golgi-localized complex (COG) required for normal Golgi morphology and function. The encoded protein is organized with conserved oligomeric Golgi complex components 6, 7 and 8 into a sub-complex referred to as lobe B. Alternative splicing results in multiple transcript variants. Mutations in this gene result in congenital disorder of glycosylation type 2I.[provided by RefSeq, Jan 2011]
Expression
Ubiquitous expression in thyroid (RPKM 12.7), prostate (RPKM 10.2) and 25 other tissues See more
Orthologs

Genomic context

See COG5 in Genome Data Viewer
Location:
7q22.3
Exon count:
23
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (107201744..107564514, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (106842189..107204959, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma Neighboring gene uncharacterized LOC105375441 Neighboring gene protein kinase cAMP-dependent type II regulatory subunit beta Neighboring gene HMG-box transcription factor 1 Neighboring gene ribosomal protein L37a pseudogene 6 Neighboring gene G protein-coupled receptor 22 Neighboring gene dihydrouridine synthase 4 like Neighboring gene B cell receptor associated protein 29 Neighboring gene WBP1L pseudogene 2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A genome-wide association study identifies an osteoarthritis susceptibility locus on chromosome 7q22.
NHGRI GWA Catalog

Pathways from BioSystems

  • Asparagine N-linked glycosylation, organism-specific biosystem (from REACTOME)
    Asparagine N-linked glycosylation, organism-specific biosystemN-linked glycosylation is the most important form of post-translational modification for proteins synthesized and folded in the Endoplasmic Reticulum (Stanley et al. 2009). An early study in 1999 rev...
  • COPI-mediated anterograde transport, organism-specific biosystem (from REACTOME)
    COPI-mediated anterograde transport, organism-specific biosystemThe ERGIC (ER-to-Golgi intermediate compartment, also known as vesicular-tubular clusters, VTCs) is a stable, biochemically distinct compartment located adjacent to ER exit sites (Ben-Tekaya et al, 2...
  • ER to Golgi Anterograde Transport, organism-specific biosystem (from REACTOME)
    ER to Golgi Anterograde Transport, organism-specific biosystemSecretory cargo destined to be secreted or to arrive at the plasma membrane (PM) leaves the ER via distinct exit sites. This cargo is destined for the Golgi apparatus for further processing.
  • Intra-Golgi and retrograde Golgi-to-ER traffic, organism-specific biosystem (from REACTOME)
    Intra-Golgi and retrograde Golgi-to-ER traffic, organism-specific biosystemThe mammalian Golgi complex, a central hub of both anterograde and retrograde trafficking, is a ribbon of stacked cisterna with biochemically distinct compartments (reviewed in Glick and Nakano, 2009...
  • Intra-Golgi traffic, organism-specific biosystem (from REACTOME)
    Intra-Golgi traffic, organism-specific biosystemThe mammalian Golgi consists of at least three biochemically distinct cisternae, cis-, medial- and trans (reviewed in Szul and Sztul, 2011; Day et al, 2013). The structure and function of the Golgi a...
  • Membrane Trafficking, organism-specific biosystem (from REACTOME)
    Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
  • Metabolism of proteins, organism-specific biosystem (from REACTOME)
    Metabolism of proteins, organism-specific biosystemProtein metabolism comprises the pathways of translation, post-translational modification and protein folding.
  • Post-translational protein modification, organism-specific biosystem (from REACTOME)
    Post-translational protein modification, organism-specific biosystemAfter translation, many newly formed proteins undergo further covalent modifications that alter their functional properties and that are essentially irreversible under physiological conditions in the...
  • Retrograde transport at the Trans-Golgi-Network, organism-specific biosystem (from REACTOME)
    Retrograde transport at the Trans-Golgi-Network, organism-specific biosystemThe trans-Golgi network is the docking site for retrograde cargo from the endolysosomal system and the plasma membrane. Typical cargo includes recycling resident TGN proteins such as TGOLN2 (also kn...
  • Transport to the Golgi and subsequent modification, organism-specific biosystem (from REACTOME)
    Transport to the Golgi and subsequent modification, organism-specific biosystemAt least two mechanisms of transport of proteins from the ER to the Golgi have been described. One is a general flow requiring no export signals (Wieland et al, 1987; Martinez-Menarguez et al, 1999)....
  • Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
    Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ41732, FLJ44289

Gene Ontology Provided by GOA

Function Evidence Code Pubs
molecular_function ND
No biological Data available
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
ER to Golgi vesicle-mediated transport TAS
Traceable Author Statement
more info
 
intra-Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
intra-Golgi vesicle-mediated transport NAS
Non-traceable Author Statement
more info
PubMed 
protein transport IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
PubMed 
Golgi membrane TAS
Traceable Author Statement
more info
 
Golgi transport complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Golgi transport complex IDA
Inferred from Direct Assay
more info
PubMed 
Golgi transport complex NAS
Non-traceable Author Statement
more info
PubMed 
cytosol IEA
Inferred from Electronic Annotation
more info
 
membrane HDA PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
trans-Golgi network membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
conserved oligomeric Golgi complex subunit 5
Names
13S golgi transport complex 1 90 kDa subunit
COG complex subunit 5
conserved oligomeric Golgi complex protein 5

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_028095.2 RefSeqGene

    Range
    5001..367771
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001161520.1NP_001154992.1  conserved oligomeric Golgi complex subunit 5 isoform 3

    See identical proteins and their annotated locations for NP_001154992.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR and lacks a portion of the 3' coding region, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC002381, AC004492, AK314270, BC068540
    Consensus CDS
    CCDS55152.1
    UniProtKB/Swiss-Prot
    Q9UP83
    Related
    ENSP00000377228.2, ENST00000393603.6
    Conserved Domains (2) summary
    pfam10392
    Location:66189
    COG5; Golgi transport complex subunit 5
    cl00549
    Location:702780
    ABC_membrane; ABC transporter transmembrane region
  2. NM_006348.3NP_006339.3  conserved oligomeric Golgi complex subunit 5 isoform 1

    See identical proteins and their annotated locations for NP_006339.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC002381, AC004492, AK314270, BC068540
    Consensus CDS
    CCDS5742.1
    UniProtKB/Swiss-Prot
    Q9UP83
    Related
    ENSP00000297135.3, ENST00000297135.7
    Conserved Domains (2) summary
    pfam10392
    Location:66189
    COG5; Golgi transport complex subunit 5
    cl00549
    Location:702780
    ABC_membrane; ABC transporter transmembrane region
  3. NM_181733.2NP_859422.2  conserved oligomeric Golgi complex subunit 5 isoform 2

    See identical proteins and their annotated locations for NP_859422.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC002381, AC004492, AF058718, AK314270, BC068540
    Consensus CDS
    CCDS5743.1
    UniProtKB/Swiss-Prot
    Q9UP83
    Related
    ENSP00000334703.2, ENST00000347053.7
    Conserved Domains (2) summary
    pfam10392
    Location:66189
    COG5; Golgi transport complex subunit 5
    cl00549
    Location:681759
    ABC_membrane; ABC transporter transmembrane region

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    107201744..107564514 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024446634.1XP_024302402.1  conserved oligomeric Golgi complex subunit 5 isoform X1

    Conserved Domains (1) summary
    pfam10392
    Location:66189
    COG5; Golgi transport complex subunit 5

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_017852930.1 Reference GRCh38.p13 PATCHES

    Range
    47266..410169 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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