Human Gene CNOT11 (ENST00000289382.8_4) from GENCODE V47lift37
  Description: CCR4-NOT transcription complex subunit 11 (from RefSeq NM_017546.5)
Gencode Transcript: ENST00000289382.8_4
Gencode Gene: ENSG00000158435.8_7
Transcript (Including UTRs)
   Position: hg19 chr2:101,869,348-101,886,778 Size: 17,431 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr2:101,869,427-101,885,875 Size: 16,449 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:101,869,348-101,886,778)mRNA (may differ from genome)Protein (510 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CB029_HUMAN
DESCRIPTION: RecName: Full=UPF0760 protein C2orf29;
SIMILARITY: Belongs to the UPF0760 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


-  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: 40.47 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 844.83 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -31.5079-0.399 Picture PostScript Text
3' UTR -230.00903-0.255 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
IPR019312 - DUF2363

Pfam Domains:
PF10155 - CCR4-NOT transcription complex subunit 11

ModBase Predicted Comparative 3D Structure on Q9UKZ1
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 orthologGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0005515 protein binding

Biological Process:
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006417 regulation of translation
GO:0006977 DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
GO:0008283 cell proliferation
GO:0031047 gene silencing by RNA

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0030014 CCR4-NOT complex


-  Descriptions from all associated GenBank mRNAs
  AF103798 - Homo sapiens clone C40 unknown mRNA.
BC064421 - Homo sapiens chromosome 2 open reading frame 29, mRNA (cDNA clone MGC:74475 IMAGE:5752134), complete cds.
KJ899151 - Synthetic construct Homo sapiens clone ccsbBroadEn_08545 C2orf29 gene, encodes complete protein.
BC018664 - Homo sapiens chromosome 2 open reading frame 29, mRNA (cDNA clone IMAGE:2959635), partial cds.
U56429 - Human HeLa mRNA isolated as a false positive in a two-hybrid-screen.
AK024221 - Homo sapiens cDNA FLJ14159 fis, clone NT2RM2001360, highly similar to Homo sapiens clone C40 unknown mRNA.
JD441348 - Sequence 422372 from Patent EP1572962.
JD023825 - Sequence 4849 from Patent EP1572962.
JD022996 - Sequence 4020 from Patent EP1572962.
JD111404 - Sequence 92428 from Patent EP1572962.
JD029416 - Sequence 10440 from Patent EP1572962.

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

Protein Q9UKZ1 (Reactome details) participates in the following event(s):

R-HSA-6798044 BTG2 binds CCR4-NOT complex
R-HSA-429955 CCR4-NOT complex deadenylates mRNA
R-HSA-6804115 TP53 regulates transcription of additional cell cycle genes whose exact role in the p53 pathway remain uncertain
R-HSA-6791312 TP53 Regulates Transcription of Cell Cycle Genes
R-HSA-429947 Deadenylation of mRNA
R-HSA-3700989 Transcriptional Regulation by TP53
R-HSA-429914 Deadenylation-dependent mRNA decay
R-HSA-212436 Generic Transcription Pathway
R-HSA-8953854 Metabolism of RNA
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: C2orf29, C40, CNO11_HUMAN, ENST00000289382.1, ENST00000289382.2, ENST00000289382.3, ENST00000289382.4, ENST00000289382.5, ENST00000289382.6, ENST00000289382.7, NM_017546, Q6P2M9, Q8N681, Q9UKZ1, uc317krw.1, uc317krw.2
UCSC ID: ENST00000289382.8_4
RefSeq Accession: NM_017546.5
Protein: Q9UKZ1 (aka CB029_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.