Human Gene COMMD2 (ENST00000473414.6_7) from GENCODE V47lift37
  Description: COMM domain containing 2, transcript variant 2 (from RefSeq NR_135149.2)
Gencode Transcript: ENST00000473414.6_7
Gencode Gene: ENSG00000114744.9_9
Transcript (Including UTRs)
   Position: hg19 chr3:149,456,259-149,470,276 Size: 14,018 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr3:149,459,308-149,470,231 Size: 10,924 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:149,456,259-149,470,276)mRNA (may differ from genome)Protein (199 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: COMD2_HUMAN
DESCRIPTION: RecName: Full=COMM domain-containing protein 2;
FUNCTION: May down-regulate activation of NF-kappa-B.
SUBUNIT: Interacts (via COMM domain) with COMMD1 (via COMM domain).
TISSUE SPECIFICITY: Ubiquitous.
SIMILARITY: Contains 1 COMM domain.
SEQUENCE CAUTION: Sequence=AAD39913.1; Type=Frameshift; Positions=111, 160, 174, 188;

-  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


-  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: 9.38 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 298.95 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 -9.3045-0.207 Picture PostScript Text
3' UTR -782.273049-0.257 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
IPR017920 - COMM
IPR009886 - HCaRG

Pfam Domains:
PF07258 - COMM domain

ModBase Predicted Comparative 3D Structure on Q86X83
FrontTopSide
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 orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated

Cellular Component:
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK055223 - Homo sapiens cDNA FLJ30661 fis, clone DFNES2000526.
BC001228 - Homo sapiens COMM domain containing 2, mRNA (cDNA clone IMAGE:3462310).
BC046131 - Homo sapiens COMM domain containing 2, mRNA (cDNA clone MGC:57611 IMAGE:4443942), complete cds.
BC022206 - Homo sapiens COMM domain containing 2, mRNA (cDNA clone IMAGE:5095501).
AF125096 - Homo sapiens HSPC042 protein mRNA, complete cds.
AF059618 - Homo sapiens clone 008b08 My004 protein mRNA, complete cds.
JD558420 - Sequence 539444 from Patent EP1572962.
JD091813 - Sequence 72837 from Patent EP1572962.
JD372961 - Sequence 353985 from Patent EP1572962.
JD476051 - Sequence 457075 from Patent EP1572962.
JD344131 - Sequence 325155 from Patent EP1572962.
JD249600 - Sequence 230624 from Patent EP1572962.
JD148194 - Sequence 129218 from Patent EP1572962.
JD463721 - Sequence 444745 from Patent EP1572962.
JD478465 - Sequence 459489 from Patent EP1572962.
JD543129 - Sequence 524153 from Patent EP1572962.
JD249599 - Sequence 230623 from Patent EP1572962.
JD543128 - Sequence 524152 from Patent EP1572962.
JD376067 - Sequence 357091 from Patent EP1572962.
JD237948 - Sequence 218972 from Patent EP1572962.
JD502961 - Sequence 483985 from Patent EP1572962.
JD369906 - Sequence 350930 from Patent EP1572962.
AY542158 - Homo sapiens COMMD2 mRNA, complete cds.
HQ448624 - Synthetic construct Homo sapiens clone IMAGE:100072063; CCSB011669_02 COMM domain containing 2 (COMMD2) gene, encodes complete protein.
KJ898830 - Synthetic construct Homo sapiens clone ccsbBroadEn_08224 COMMD2 gene, encodes complete protein.
JD363988 - Sequence 345012 from Patent EP1572962.
BC093077 - Homo sapiens COMM domain containing 2, mRNA (cDNA clone MGC:111223 IMAGE:30372667), complete cds.
JD137850 - Sequence 118874 from Patent EP1572962.
CU692308 - Synthetic construct Homo sapiens gateway clone IMAGE:100021303 5' read COMMD2 mRNA.
JD380752 - Sequence 361776 from Patent EP1572962.
JD061912 - Sequence 42936 from Patent EP1572962.
JD351971 - Sequence 332995 from Patent EP1572962.

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

Protein Q86X83 (Reactome details) participates in the following event(s):

R-HSA-8955285 COMMDs displace CAND1 from CRL4 E3 ubiquitin ligase complex
R-HSA-8955289 COMMDs displace CAND1 from cytosolic CRL E3 ubiquitin ligase complexes
R-HSA-8956045 COP9 signalosome deneddylates nuclear CRL4 E3 ubiquitin ligase complex
R-HSA-8952638 AcM-UBE2M transfers NEDD8 to CRL4 E3 ubiquitin ligase complex
R-HSA-8952639 NEDD8:AcM-UBE2M binds CRL4 E3 ubiquitin ligase complex
R-HSA-8952044 AcM-UBE2F transfers NEDD8 to CRL5 E3 ubiquitin ligase complex
R-HSA-8952618 AcM-UBE2M transfers NEDD8 to CRL1 E3 ubiquitin ligase complex
R-HSA-8952039 NEDD8:AcM-UBE2F binds CRL5 E3 ubiquitin ligase complex
R-HSA-8952620 NEDD8:AcM-UBE2M binds CRL1 E3 ubiquitin ligase complex
R-HSA-8956200 MyrG-DCUN1D3 binds CRL1 E3 ubiquitin ligase complex
R-HSA-8956099 VHL:EloB,C:NEDD8-CUL2:RBX1 complex binds UBXN7
R-HSA-8956103 VHL:EloB,C:NEDD8-CUL2:RBX1 complex binds hydroxyprolyl-HIF-alpha
R-HSA-8956040 COP9 signalosome deneddylates cytosolic CRL E3 ubiquitin ligase complexes
R-HSA-8956106 VHL:EloB,C:NEDD8-CUL2:RBX1 complex ubiquitinylates HIF-alpha
R-HSA-8951664 Neddylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: COMD2_HUMAN, ENST00000473414.1, ENST00000473414.2, ENST00000473414.3, ENST00000473414.4, ENST00000473414.5, HSPC042, My004, NR_135149, Q561V4, Q86X83, Q9H3L5, Q9Y5V1, uc321qzs.1, uc321qzs.2
UCSC ID: ENST00000473414.6_7
RefSeq Accession: NM_016094.4
Protein: Q86X83 (aka COMD2_HUMAN or COM2_HUMAN)

-  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.