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DXO decapping exoribonuclease [ Homo sapiens (human) ]

Gene ID: 1797, updated on 1-Jun-2020

Summary

Official Symbol
DXOprovided by HGNC
Official Full Name
decapping exoribonucleaseprovided by HGNC
Primary source
HGNC:HGNC:2992
See related
Ensembl:ENSG00000204348 MIM:605996
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NG6; RAI1; DOM3L; DOM3Z
Summary
This gene localizes to the major histocompatibility complex (MHC) class III region on chromosome 6. The function of its protein product is unknown, but its ubiquitous expression and conservation in both simple and complex eukaryotes suggests that this may be a housekeeping gene. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in testis (RPKM 17.8), adrenal (RPKM 16.9) and 25 other tissues See more
Orthologs

Genomic context

See DXO in Genome Data Viewer
Location:
6p21.33
Exon count:
6
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (31969811..31972290, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31937588..31940032, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene complement factor B Neighboring gene negative elongation factor complex member E Neighboring gene microRNA 1236 Neighboring gene Ski2 like RNA helicase Neighboring gene serine/threonine kinase 19 Neighboring gene complement C4A (Rodgers blood group) Neighboring gene CYP21A1P recombination region Neighboring gene cytochrome P450 family 21 subfamily A member 1, pseudogene Neighboring gene tenascin XA (pseudogene)

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
GWAS of blood cell traits identifies novel associated loci and epistatic interactions in Caucasian and African-American children.
NHGRI GWA Catalog
Risk HLA-DQA1 and PLA(2)R1 alleles in idiopathic membranous nephropathy.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
5'-3' exonuclease activity ISS
Inferred from Sequence or Structural Similarity
more info
 
RNA pyrophosphohydrolase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA pyrophosphohydrolase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
mRNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
magnesium ion binding ISS
Inferred from Sequence or Structural Similarity
more info
 
nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
RNA destabilization ISS
Inferred from Sequence or Structural Similarity
more info
 
mRNA catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
mRNA catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
nuclear mRNA surveillance ISS
Inferred from Sequence or Structural Similarity
more info
 
nuclear-transcribed mRNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleic acid phosphodiester bond hydrolysis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleic acid phosphodiester bond hydrolysis ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
decapping and exoribonuclease protein
Names
protein Dom3Z

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001371205.1NP_001358134.1  decapping and exoribonuclease protein isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Both variants 1 and 3 encode the same protein.
    Source sequence(s)
    AL645922
  2. NM_001371206.1NP_001358135.1  decapping and exoribonuclease protein isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 3 encode the same protein.
    Source sequence(s)
    AL645922
    Related
    ENST00000474587.1
  3. NM_005510.4NP_005501.2  decapping and exoribonuclease protein isoform 2

    See identical proteins and their annotated locations for NP_005501.2

    Status: REVIEWED

    Source sequence(s)
    AF059252, BC019083
    Consensus CDS
    CCDS4732.1
    UniProtKB/Swiss-Prot
    O77932
    UniProtKB/TrEMBL
    A0A024RCW8
    Related
    ENSP00000337759.5, ENST00000337523.10
    Conserved Domains (1) summary
    pfam08652
    Location:235302
    RAI1; RAI1 like PD-(D/E)XK nuclease

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    31969811..31972290 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006715005.3XP_006715068.1  decapping and exoribonuclease protein isoform X1

    See identical proteins and their annotated locations for XP_006715068.1

    UniProtKB/Swiss-Prot
    O77932
    UniProtKB/TrEMBL
    A0A024RCW8
    Related
    ENSP00000364498.3, ENST00000375349.7
    Conserved Domains (1) summary
    pfam08652
    Location:235302
    RAI1; RAI1 like PD-(D/E)XK nuclease

RNA

  1. XR_002956264.1 RNA Sequence

  2. XR_002956263.1 RNA Sequence

  3. XR_002956262.1 RNA Sequence

  4. XR_926082.2 RNA Sequence

Reference GRCh38.p13 ALT_REF_LOCI_2

Genomic

  1. NT_113891.3 Reference GRCh38.p13 ALT_REF_LOCI_2

    Range
    3447242..3449565 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_3

Genomic

  1. NT_167245.2 Reference GRCh38.p13 ALT_REF_LOCI_3

    Range
    3217590..3219913 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_5

Genomic

  1. NT_167247.2 Reference GRCh38.p13 ALT_REF_LOCI_5

    Range
    3311851..3314174 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_6

Genomic

  1. NT_167248.2 Reference GRCh38.p13 ALT_REF_LOCI_6

    Range
    3225785..3228108 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_7

Genomic

  1. NT_167249.2 Reference GRCh38.p13 ALT_REF_LOCI_7

    Range
    3271004..3273327 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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