Human Gene COG2 (ENST00000366669.9_7) from GENCODE V47lift37
  Description: component of oligomeric golgi complex 2, transcript variant 1 (from RefSeq NM_007357.3)
Gencode Transcript: ENST00000366669.9_7
Gencode Gene: ENSG00000135775.14_11
Transcript (Including UTRs)
   Position: hg19 chr1:230,778,227-230,829,728 Size: 51,502 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr1:230,778,353-230,829,139 Size: 50,787 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:230,778,227-230,829,728)mRNA (may differ from genome)Protein (738 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: COG2_HUMAN
DESCRIPTION: RecName: Full=Conserved oligomeric Golgi complex subunit 2; Short=COG complex subunit 2; AltName: Full=Component of oligomeric Golgi complex 2; AltName: Full=Low density lipoprotein receptor defect C-complementing protein;
FUNCTION: Required for normal Golgi morphology and function.
SUBUNIT: Component of the conserved oligomeric Golgi complex which is composed of eight different subunits and is required for normal Golgi morphology and localization.
INTERACTION: Q9H9E3:COG4; NbExp=2; IntAct=EBI-389449, EBI-368382;
SUBCELLULAR LOCATION: Golgi apparatus membrane; Peripheral membrane protein; Cytoplasmic side (Probable).
SIMILARITY: Belongs to the COG2 family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: COG2
Diseases sorted by gene-association score: congenital disorder of glycosylation, type iiq* (1600), lipid metabolism disorder (14), coronary artery disease (11), hypercholesterolemia, familial (10), arteriosclerosis (8), arcus senilis (7), familial hyperlipidemia (7), hyperlipidemia, familial combined (7), night blindness, congenital stationary , 1a, x-linked (6), inherited metabolic disorder (6), carotid artery disease (6), hyperlipoproteinemia, type iii (5), corneal dystrophy, posterior amorphous (5), prediabetes syndrome (4), cholesterol ester storage disease (4), diabetes mellitus, noninsulin-dependent (3), diabetes mellitus, insulin-dependent (3), artery disease (2), myocardial infarction (2), obesity (2), stroke, ischemic (2), acquired metabolic disease (1), glucose metabolism disease (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 12.28 RPKM in Adrenal Gland
Total median expression: 304.96 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -54.60126-0.433 Picture PostScript Text
3' UTR -164.20589-0.279 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR009316 - COG2
IPR024603 - COG_complex_COG2_C
IPR024602 - COG_su2_N

Pfam Domains:
PF06148 - COG (conserved oligomeric Golgi) complex component, COG2
PF12022 - Domain of unknown function (DUF3510)

SCOP Domains:
48371 - ARM repeat

ModBase Predicted Comparative 3D Structure on Q14746
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologGenome BrowserNo ortholog
Gene DetailsGene Details  Gene Details 
Gene SorterGene Sorter  Gene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0008565 protein transporter activity
GO:0044877 macromolecular complex binding

Biological Process:
GO:0006888 ER to Golgi vesicle-mediated transport
GO:0006891 intra-Golgi vesicle-mediated transport
GO:0007030 Golgi organization
GO:0015031 protein transport

Cellular Component:
GO:0000139 Golgi membrane
GO:0005794 Golgi apparatus
GO:0005795 Golgi stack
GO:0005829 cytosol
GO:0016020 membrane
GO:0017119 Golgi transport complex
GO:0032588 trans-Golgi network membrane


-  Descriptions from all associated GenBank mRNAs
  AL832190 - Homo sapiens mRNA; cDNA DKFZp686A202 (from clone DKFZp686A202).
BC014960 - Homo sapiens component of oligomeric golgi complex 2, mRNA (cDNA clone MGC:23019 IMAGE:4876271), complete cds.
AK302791 - Homo sapiens cDNA FLJ50926 complete cds, highly similar to Conserved oligomeric Golgi complex component 2.
Z34975 - Homo sapiens mRNA for Cog2.
AK312678 - Homo sapiens cDNA, FLJ93071, Homo sapiens component of oligomeric golgi complex 2 (COG2), mRNA.
BC051906 - Homo sapiens component of oligomeric golgi complex 2, mRNA (cDNA clone MGC:60373 IMAGE:4541036), complete cds.
DQ895445 - Synthetic construct Homo sapiens clone IMAGE:100009905; FLH184457.01L; RZPDo839G03143D component of oligomeric golgi complex 2 (COG2) gene, encodes complete protein.
KJ893289 - Synthetic construct Homo sapiens clone ccsbBroadEn_02683 COG2 gene, encodes complete protein.
DQ892244 - Synthetic construct clone IMAGE:100004874; FLH184461.01X; RZPDo839G03144D component of oligomeric golgi complex 2 (COG2) gene, encodes complete protein.
EU176335 - Synthetic construct Homo sapiens clone IMAGE:100006550; FLH263525.01X; RZPDo839B08251D component of oligomeric golgi complex 2 (COG2) gene, encodes complete protein.
AK295251 - Homo sapiens cDNA FLJ55945 complete cds, highly similar to Conserved oligomeric Golgi complex component 2.
AK302288 - Homo sapiens cDNA FLJ53111 complete cds, highly similar to Conserved oligomeric Golgi complex component 2.
JD497362 - Sequence 478386 from Patent EP1572962.
CU677137 - Synthetic construct Homo sapiens gateway clone IMAGE:100020432 5' read COG2 mRNA.
S77362 - transcript ch4822 [human, RF1,RF48 stomach cancer cell lines, mRNA, 300 nt].
JD163392 - Sequence 144416 from Patent EP1572962.
JD328594 - Sequence 309618 from Patent EP1572962.
JD360077 - Sequence 341101 from Patent EP1572962.
JD327560 - Sequence 308584 from Patent EP1572962.
JD233381 - Sequence 214405 from Patent EP1572962.
JD549004 - Sequence 530028 from Patent EP1572962.
JD266297 - Sequence 247321 from Patent EP1572962.
JD400215 - Sequence 381239 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q14746 (Reactome details) participates in the following event(s):

R-HSA-6809006 Vesicle is tethered through binding GOLGA2:GORASP1, GOLGB1 and the COG complex
R-HSA-6811433 The COG tethering complex interacts with numerous SNAREs at the Golgi membrane
R-HSA-8847544 The COG complex and CUX1 and GOLGA5 dimers contribute to intra-Golgi vesicle tethering
R-HSA-8849748 The COG complex binds RABs at the Golgi membrane
R-HSA-6811431 RAB6:GTP binds the GARP and COG complexes, t-SNAREs and endosome-derived vesicles
R-HSA-6809011 cis-Golgi t-SNAREs bind YKT6 on tethered vesicle
R-HSA-6807878 COPI-mediated anterograde transport
R-HSA-6811438 Intra-Golgi traffic
R-HSA-6811440 Retrograde transport at the Trans-Golgi-Network
R-HSA-199977 ER to Golgi Anterograde Transport
R-HSA-6811442 Intra-Golgi and retrograde Golgi-to-ER traffic
R-HSA-199991 Membrane Trafficking
R-HSA-948021 Transport to the Golgi and subsequent modification
R-HSA-5653656 Vesicle-mediated transport
R-HSA-446203 Asparagine N-linked glycosylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: COG2_HUMAN, ENST00000366669.1, ENST00000366669.2, ENST00000366669.3, ENST00000366669.4, ENST00000366669.5, ENST00000366669.6, ENST00000366669.7, ENST00000366669.8, LDLC, NM_007357, Q14746, Q86U99, uc318fgx.1, uc318fgx.2
UCSC ID: ENST00000366669.9_7
RefSeq Accession: NM_007357.3
Protein: Q14746 (aka COG2_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene COG2:
cdg (Congenital Disorders of N-Linked Glycosylation and Multiple Pathway Overview)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.