Human Gene COMMD4 (ENST00000267935.13_4) from GENCODE V47lift37

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Description: COMM domain containing 4, transcript variant 1 (from RefSeq NM_017828.5)
Gencode Transcript: ENST00000267935.13_4
Gencode Gene: ENSG00000140365.16_9
Transcript (Including UTRs)
Position: hg19 chr15:75,628,404-75,632,614 Size: 4,211 Total Exon Count: 8 Strand: +
Coding Region
Position: hg19 chr15:75,628,431-75,632,346 Size: 3,916 Coding Exon Count: 8

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations
mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr15:75,628,404-75,632,614)			mRNA (may differ from genome)		Protein (199 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	OMIM	PubMed	Reactome	UniProtKB
Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: COMD4_HUMAN DESCRIPTION: RecName: Full=COMM domain-containing protein 4; FUNCTION: Down-regulates activation of NF-kappa-B. SUBUNIT: Interacts (via COMM domain) with COMMD1 (via COMM domain). INTERACTION: Q8N668:COMMD1; NbExp=2; IntAct=EBI-1550064, EBI-1550112; TISSUE SPECIFICITY: Ubiquitous. SIMILARITY: Contains 1 COMM domain.

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 D013749 Tetrachlorodibenzodioxin D002994 Clofibrate D019327 Copper Sulfate D003375 Coumestrol D012643 Selenium D014635 Valproic Acid C006780 bisphenol A C018021 cobaltous chloride C029892 cupric chloride

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 34.57 RPKM in Testis Total median expression: 608.53 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-7.00	27	-0.259	Picture	PostScript	Text
3' UTR	-91.70	268	-0.342	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 Q9H0A8


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD

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:0005634 nucleus GO:0005737 cytoplasm

Descriptions from all associated GenBank mRNAs


	LF208511 - JP 2014500723-A/16014: Polycomb-Associated Non-Coding RNAs. AK225716 - Homo sapiens mRNA for COMM domain containing 4 variant, clone: TST00263. BC033744 - Homo sapiens COMM domain containing 4, mRNA (cDNA clone IMAGE:5193590). AK000459 - Homo sapiens cDNA FLJ20452 fis, clone KAT05695. AK293708 - Homo sapiens cDNA FLJ58451 complete cds, moderately similar to COMM domain-containing protein 4. AK314740 - Homo sapiens cDNA, FLJ95602, Homo sapiens COMM domain containing 4 (COMMD4), mRNA. AK124968 - Homo sapiens cDNA FLJ42978 fis, clone BRTHA2004821. AK057145 - Homo sapiens cDNA FLJ32583 fis, clone SPLEN2000348. BC069195 - Homo sapiens COMM domain containing 4, mRNA (cDNA clone IMAGE:3546129). BC068998 - Homo sapiens COMM domain containing 4, mRNA (cDNA clone MGC:78431 IMAGE:6586373), complete cds. AL136872 - Homo sapiens mRNA; cDNA DKFZp434A155 (from clone DKFZp434A155). MA444088 - JP 2018138019-A/16014: Polycomb-Associated Non-Coding RNAs. KJ894095 - Synthetic construct Homo sapiens clone ccsbBroadEn_03489 COMMD4 gene, encodes complete protein. AY542160 - Homo sapiens COMMD4 mRNA, complete cds. CR533452 - Homo sapiens full open reading frame cDNA clone RZPDo834B0117D for gene COMMD4, COMM domain containing 4; complete cds, incl. stopcodon. BC040944 - Homo sapiens COMM domain containing 4, mRNA (cDNA clone IMAGE:5211626), partial cds. BC000837 - Homo sapiens COMM domain containing 4, mRNA (cDNA clone IMAGE:3456702), partial cds. DQ572221 - Homo sapiens piRNA piR-40333, complete sequence. LF377196 - JP 2014500723-A/184699: Polycomb-Associated Non-Coding RNAs. JD426005 - Sequence 407029 from Patent EP1572962. JD195153 - Sequence 176177 from Patent EP1572962. JD246745 - Sequence 227769 from Patent EP1572962. JD153980 - Sequence 135004 from Patent EP1572962. JD146115 - Sequence 127139 from Patent EP1572962. JD393198 - Sequence 374222 from Patent EP1572962. JD152644 - Sequence 133668 from Patent EP1572962. JD440398 - Sequence 421422 from Patent EP1572962. JD543071 - Sequence 524095 from Patent EP1572962. JD166826 - Sequence 147850 from Patent EP1572962. JD383253 - Sequence 364277 from Patent EP1572962. MA612773 - JP 2018138019-A/184699: Polycomb-Associated Non-Coding RNAs.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein Q9H0A8 (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: B2RBN4, COMD4_HUMAN, ENST00000267935.1, ENST00000267935.10, ENST00000267935.11, ENST00000267935.12, ENST00000267935.2, ENST00000267935.3, ENST00000267935.4, ENST00000267935.5, ENST00000267935.6, ENST00000267935.7, ENST00000267935.8, ENST00000267935.9, H3BUL2, NM_017828, Q7L637, Q9H0A8, Q9NX43, uc317ily.1, uc317ily.2 UCSC ID: ENST00000267935.13_4 RefSeq Accession: NM_017828.5 Protein: Q9H0A8 (aka COMD4_HUMAN or COM4_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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