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    COG2 component of oligomeric golgi complex 2 [ Homo sapiens (human) ]

    Gene ID: 22796, updated on 3-Dec-2024

    Summary

    Official Symbol
    COG2provided by HGNC
    Official Full Name
    component of oligomeric golgi complex 2provided by HGNC
    Primary source
    HGNC:HGNC:6546
    See related
    Ensembl:ENSG00000135775 MIM:606974; AllianceGenome:HGNC:6546
    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
    LDLC; CDG2Q
    Summary
    This gene encodes a subunit of the conserved oligomeric Golgi complex that is required for maintaining normal structure and activity of the Golgi complex. The encoded protein specifically interacts with the USO1 vesicle docking protein and may be necessary for normal Golgi ribbon formation and trafficking of Golgi enzymes. Mutations of this gene are associated with abnormal glycosylation within the Golgi apparatus. Alternative splicing results in multiple transcript variants.[provided by RefSeq, Feb 2009]
    Expression
    Ubiquitous expression in adrenal (RPKM 11.3), colon (RPKM 11.0) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See COG2 in Genome Data Viewer
    Location:
    1q42.2
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (230642481..230693982)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (230022982..230074527)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (230778227..230829728)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein S24 pseudogene 4 Neighboring gene uncharacterized LOC124904545 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1941 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2719 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1942 Neighboring gene uncharacterized LOC107985358 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:230844373-230845194 Neighboring gene Sharpr-MPRA regulatory region 2465 Neighboring gene angiotensinogen Neighboring gene VISTA enhancer hs2133 Neighboring gene calpain 9 Neighboring gene uncharacterized LOC107985359 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:230914014-230914159 Neighboring gene NANOG hESC enhancer GRCh37_chr1:230919761-230920350

    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 Functions

    What's a GeneRIF?

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of component of oligomeric golgi complex 2 (COG2) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-containing complex binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in Golgi organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in Golgi organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in glycosylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in intra-Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in intra-Golgi vesicle-mediated transport IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in retrograde transport, vesicle recycling within Golgi IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in Golgi membrane NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in Golgi membrane TAS
    Traceable Author Statement
    more info
     
    located_in Golgi stack IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of Golgi transport complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of Golgi transport complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of Golgi transport complex IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    part_of Golgi transport complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in trans-Golgi network membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    conserved oligomeric Golgi complex subunit 2
    Names
    COG complex subunit 2
    brefeldin A-sensitive, peripheral Golgi protein
    conserved oligomeric Golgi complex protein 2
    low density lipoprotein receptor defect C complementing
    low density lipoprotein receptor defect C-complementing protein

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001145036.2NP_001138508.1  conserved oligomeric Golgi complex subunit 2 isoform 2

      See identical proteins and their annotated locations for NP_001138508.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the coding region compared to variant 1. This results in a shorter isoform (2) compared to isoform 1.
      Source sequence(s)
      AL158214, BC051906, DB449302, DC349417
      Consensus CDS
      CCDS44329.1
      UniProtKB/TrEMBL
      B7Z2Y2
      Related
      ENSP00000355628.3, ENST00000366668.7
      Conserved Domains (2) summary
      pfam06148
      Location:15147
      COG2; COG (conserved oligomeric Golgi) complex component, COG2
      pfam12022
      Location:573698
      DUF3510; Domain of unknown function (DUF3510)
    2. NM_007357.3NP_031383.1  conserved oligomeric Golgi complex subunit 2 isoform 1

      See identical proteins and their annotated locations for NP_031383.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AK312678, AL158214, BC051906, DB449302, DC349417
      Consensus CDS
      CCDS1584.1
      UniProtKB/Swiss-Prot
      Q14746, Q86U99
      UniProtKB/TrEMBL
      B1ALW7, B7Z2Y2
      Related
      ENSP00000355629.4, ENST00000366669.9
      Conserved Domains (2) summary
      pfam06148
      Location:15147
      COG2; COG (conserved oligomeric Golgi) complex component, COG2
      pfam12022
      Location:574699
      DUF3510; Domain of unknown function (DUF3510)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      230642481..230693982
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047449445.1XP_047305401.1  conserved oligomeric Golgi complex subunit 2 isoform X1

      UniProtKB/TrEMBL
      B7Z819

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      230022982..230074527
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054335140.1XP_054191115.1  conserved oligomeric Golgi complex subunit 2 isoform X1

      UniProtKB/TrEMBL
      B7Z819