Human Gene TUT7 (uc004aow.3)
  Description: Homo sapiens zinc finger, CCHC domain containing 6 (TUT7), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr9:88,954,735-88,969,402 Size: 14,668 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr9:88,954,920-88,968,114 Size: 13,195 Coding Exon Count: 7 

Page IndexSequence and LinksPrimersGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:88,954,735-88,969,402)mRNA (may differ from genome)Protein (412 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblExonPrimerGeneCardsGeneNetworkH-INVLynx
MGIPubMedReactomeTreefamUniProtKBWikipedia

-  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


+  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: 14.26 RPKM in Skin - Sun Exposed (Lower leg)
Total median expression: 252.86 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 -98.50248-0.397 Picture PostScript Text
3' UTR -25.90185-0.140 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
  SCOP Domains:
81301 - Nucleotidyltransferase

ModBase Predicted Comparative 3D Structure on Q5VYS8-5
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 Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AL832193 - Homo sapiens mRNA; cDNA DKFZp686C032 (from clone DKFZp686C032).
CR933644 - Homo sapiens mRNA; cDNA DKFZp686F119 (from clone DKFZp686F119).
AL832026 - Homo sapiens mRNA; cDNA DKFZp451K134 (from clone DKFZp451K134).
CR933643 - Homo sapiens mRNA; cDNA DKFZp686C11112 (from clone DKFZp686C11112).
CR936608 - Homo sapiens mRNA; cDNA DKFZp686I1269 (from clone DKFZp686I1269).
BC144523 - Homo sapiens cDNA clone IMAGE:9053050.
BX641077 - Homo sapiens mRNA; cDNA DKFZp686E246 (from clone DKFZp686E246).
AB587345 - Synthetic construct DNA, clone: pF1KE1080, Homo sapiens ZCCHC6 gene for zinc finger, CCHC domain containing 6, without stop codon, in Flexi system.
AM393021 - Synthetic construct Homo sapiens clone IMAGE:100002464 for hypothetical protein (ZCCHC6 gene).
AM393523 - Synthetic construct Homo sapiens clone IMAGE:100002359 for hypothetical protein (ZCCHC6 gene).
AK055546 - Homo sapiens cDNA FLJ30984 fis, clone HHDPC2000456.
BC111003 - Homo sapiens cDNA clone IMAGE:5745808, containing frame-shift errors.
BC032456 - Homo sapiens zinc finger, CCHC domain containing 6, mRNA (cDNA clone IMAGE:5172299), complete cds.
BC016387 - Homo sapiens zinc finger, CCHC domain containing 6, mRNA (cDNA clone IMAGE:4721899), partial cds.
AK308352 - Homo sapiens cDNA, FLJ98300.

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

Protein Q5VYS8 (Reactome details) participates in the following event(s):

R-HSA-8941312 ZCCHC6, ZCCHC11 are mRNA uridyltransferases
R-HSA-429947 Deadenylation of mRNA
R-HSA-429914 Deadenylation-dependent mRNA decay
R-HSA-8953854 Metabolism of RNA

-  Other Names for This Gene
  Alternate Gene Symbols: BC032456, HS2, KIAA1711, Q5VYS8-5, ZCCHC6
UCSC ID: uc004aow.3
RefSeq Accession: NM_024617
Protein: Q5VYS8-5, splice isoform of Q5VYS8

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC032456.1
exon count: 8CDS single in 3' UTR: no RNA size: 1614
ORF size: 1239CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2663.00frame shift in genome: no % Coverage: 97.83
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: 216# 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.