Human Gene DXO (ENST00000337523.10_7) from GENCODE V47lift37
  Description: decapping exoribonuclease, transcript variant 2 (from RefSeq NM_005510.4)
Gencode Transcript: ENST00000337523.10_7
Gencode Gene: ENSG00000204348.10_11
Transcript (Including UTRs)
   Position: hg19 chr6:31,937,592-31,939,915 Size: 2,324 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr6:31,937,654-31,939,452 Size: 1,799 Coding Exon Count: 6 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:31,937,592-31,939,915)mRNA (may differ from genome)Protein (396 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
MalacardsMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: DOM3Z_HUMAN
DESCRIPTION: RecName: Full=Protein Dom3Z; AltName: Full=Dom-3 homolog Z;
FUNCTION: May possess pyrophosphohydrolase activity towards 5' triphosphorylated RNA (By similarity).
TISSUE SPECIFICITY: Ubiquitously expressed.
SIMILARITY: Belongs to the Dom3Z family.
SEQUENCE CAUTION: Sequence=AAB67983.1; Type=Erroneous gene model prediction; Sequence=CAB89306.1; Type=Erroneous gene model prediction;

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: DXO
Diseases sorted by gene-association score: retinal degeneration, late-onset, autosomal dominant (9), gyrate atrophy of choroid and retina with or without ornithinemia (7), choroid disease (5)

+  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: 78.44 RPKM in Testis
Total median expression: 881.13 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 -82.80216-0.383 Picture PostScript Text
3' UTR -10.9062-0.176 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
IPR013961 - RAI1

Pfam Domains:
PF08652 - RAI1 like PD-(D/E)XK nuclease

SCOP Domains:
51197 - Clavaminate synthase-like

ModBase Predicted Comparative 3D Structure on O77932
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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0000287 magnesium ion binding
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0004518 nuclease activity
GO:0004527 exonuclease activity
GO:0008409 5'-3' exonuclease activity
GO:0016787 hydrolase activity
GO:0034353 RNA pyrophosphohydrolase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006402 mRNA catabolic process
GO:0050779 RNA destabilization
GO:0071028 nuclear mRNA surveillance
GO:0090305 nucleic acid phosphodiester bond hydrolysis

Cellular Component:
GO:0005634 nucleus
GO:0005829 cytosol
GO:0005886 plasma membrane


-  Descriptions from all associated GenBank mRNAs
  MN293986 - Homo sapiens IG c1509_light_IGLV1-51_IGLJ2 mRNA, partial cds.
AF059252 - Homo sapiens clone 1 HLA class III protein Dom3z (DOM3Z) mRNA, complete cds.
BC030235 - Homo sapiens dom-3 homolog Z (C. elegans), mRNA (cDNA clone IMAGE:4157458), with apparent retained intron.
BC058885 - Homo sapiens dom-3 homolog Z (C. elegans), mRNA (cDNA clone IMAGE:4420970), with apparent retained intron.
BC071651 - Homo sapiens dom-3 homolog Z (C. elegans), mRNA (cDNA clone IMAGE:5244572), with apparent retained intron.
BC019083 - Homo sapiens dom-3 homolog Z (C. elegans), mRNA (cDNA clone MGC:29502 IMAGE:4647012), complete cds.
BC009344 - Homo sapiens dom-3 homolog Z (C. elegans), mRNA (cDNA clone MGC:16748 IMAGE:4130758), complete cds.
BC050618 - Homo sapiens dom-3 homolog Z (C. elegans), mRNA (cDNA clone IMAGE:6007233), partial cds.
DQ893041 - Synthetic construct clone IMAGE:100005671; FLH192930.01X; RZPDo839A1178D dom-3 homolog Z (C. elegans) (DOM3Z) gene, encodes complete protein.
KJ891062 - Synthetic construct Homo sapiens clone ccsbBroadEn_00456 DOM3Z gene, encodes complete protein.
DQ896284 - Synthetic construct Homo sapiens clone IMAGE:100010744; FLH192926.01L; RZPDo839A1168D dom-3 homolog Z (C. elegans) (DOM3Z) gene, encodes complete protein.
CU679305 - Synthetic construct Homo sapiens gateway clone IMAGE:100018211 5' read DOM3Z mRNA.
AK310107 - Homo sapiens cDNA, FLJ17149.
CU687124 - Synthetic construct Homo sapiens gateway clone IMAGE:100022778 5' read DOM3Z mRNA.
KJ905730 - Synthetic construct Homo sapiens clone ccsbBroadEn_15400 DOM3Z gene, encodes complete protein.
AF059253 - Homo sapiens clone 2 HLA class III protein Dom3z (DOM3Z) mRNA, partial cds.
AF059254 - Homo sapiens clone 3 HLA class III protein Dom3z (DOM3Z) mRNA, partial cds.
JD261130 - Sequence 242154 from Patent EP1572962.
JD349171 - Sequence 330195 from Patent EP1572962.
JD110454 - Sequence 91478 from Patent EP1572962.
JD477197 - Sequence 458221 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A2CER3, B0UZ80, DOM3L, DOM3Z , DXO , DXO_HUMAN, ENST00000337523.1, ENST00000337523.2, ENST00000337523.3, ENST00000337523.4, ENST00000337523.5, ENST00000337523.6, ENST00000337523.7, ENST00000337523.8, ENST00000337523.9, NG6, NM_005510, O15004, O77932, O78127, O78128, Q5ST60, Q6IPZ2, Q9NPK4, uc317uud.1, uc317uud.2
UCSC ID: ENST00000337523.10_7
RefSeq Accession: NM_005510.4
Protein: O77932 (aka DOM3Z_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.