Human Gene CNOT4 (uc011kpy.2) Description and Page Index
  Description: Homo sapiens CCR4-NOT transcription complex, subunit 4 (CNOT4), transcript variant 6, mRNA.
RefSeq Summary (NM_001190850): The protein encoded by this gene is a subunit of the CCR4-NOT complex, a global transcriptional regulator. The encoded protein interacts with CNOT1 and has E3 ubiquitin ligase activity. Several transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Jul 2010].
Transcript (Including UTRs)
   Position: hg19 chr7:135,046,547-135,194,875 Size: 148,329 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr7:135,047,637-135,123,079 Size: 75,443 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:135,046,547-135,194,875)mRNA (may differ from genome)Protein (713 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIOMIMPubMed
Stanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: F8VQP3_HUMAN
DESCRIPTION: SubName: Full=CCR4-NOT transcription complex subunit 4;
SIMILARITY: Contains 1 RING-type zinc finger.
SIMILARITY: Contains 1 RRM (RNA recognition motif) domain.
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CNOT4
CDC HuGE Published Literature: CNOT4

-  MalaCards Disease Associations
  MalaCards Gene Search: CNOT4
Diseases sorted by gene-association score: adenoiditis (11)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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: 6.01 RPKM in Testis
Total median expression: 183.62 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
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -115.80331-0.350 Picture PostScript Text
3' UTR -249.231090-0.229 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
IPR012677 - Nucleotide-bd_a/b_plait
IPR000504 - RRM_dom
IPR000571 - Znf_CCCH
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD

Pfam Domains:
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF13920 - Zinc finger, C3HC4 type (RING finger)
PF14570 - RING/Ubox like zinc-binding domain
PF14608 - RNA-binding, Nab2-type zinc finger

SCOP Domains:
54928 - RNA-binding domain, RBD
57850 - RING/U-box

ModBase Predicted Comparative 3D Structure on F8VQP3
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  AK074493 - Homo sapiens cDNA FLJ90012 fis, clone HEMBA1000462, highly similar to CCR4-NOT transcription complex subunit 4 (EC 6.3.2.-).
U71267 - Human potential transcriptional repressor NOT4Hp (NOT4H) mRNA, complete cds.
AK300365 - Homo sapiens cDNA FLJ61661 complete cds, highly similar to Rattus norvegicus CCR4-NOT transcription complex, subunit 4 (Cnot4), mRNA.
AK314540 - Homo sapiens cDNA, FLJ95362.
BC035590 - Homo sapiens CCR4-NOT transcription complex, subunit 4, mRNA (cDNA clone MGC:45148 IMAGE:5576434), complete cds.
AL389980 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 2005259.
U71268 - Human potential transcriptional repressor NOT4Hp (NOT4H) mRNA, complete cds.
AK074671 - Homo sapiens cDNA FLJ90190 fis, clone MAMMA1001094, highly similar to Human potential transcriptional repressor NOT4Hp (NOT4H) mRNA.
AF091094 - Homo sapiens clone 243 unknown mRNA, complete sequence.
JD229685 - Sequence 210709 from Patent EP1572962.
JD431703 - Sequence 412727 from Patent EP1572962.
JD133925 - Sequence 114949 from Patent EP1572962.
JD503219 - Sequence 484243 from Patent EP1572962.
JD280104 - Sequence 261128 from Patent EP1572962.
JD236962 - Sequence 217986 from Patent EP1572962.
JD562700 - Sequence 543724 from Patent EP1572962.
JD187997 - Sequence 169021 from Patent EP1572962.
JD301223 - Sequence 282247 from Patent EP1572962.
JD365345 - Sequence 346369 from Patent EP1572962.
JD392068 - Sequence 373092 from Patent EP1572962.
JD359106 - Sequence 340130 from Patent EP1572962.
JD205387 - Sequence 186411 from Patent EP1572962.
AB385213 - Synthetic construct DNA, clone: pF1KB9414, Homo sapiens CNOT4 gene for CCR4-NOT transcription complex subunit 4, complete cds, without stop codon, in Flexi system.
AF180475 - Homo sapiens Not4-Np (NOT4-N) mRNA, complete cds.
KJ897255 - Synthetic construct Homo sapiens clone ccsbBroadEn_06649 CNOT4 gene, encodes complete protein.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa03018 - RNA degradation

-  Other Names for This Gene
  Alternate Gene Symbols: F8VQP3, F8VQP3_HUMAN, NM_001190850, NP_001177779
UCSC ID: uc011kpy.2
RefSeq Accession: NM_001190850
Protein: F8VQP3 CCDS: CCDS55165.1, CCDS55167.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001190850.1
exon count: 12CDS single in 3' UTR: no RNA size: 3563
ORF size: 2142CDS single in intron: no Alignment % ID: 99.97
txCdsPredict score: 4442.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.