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REXO4 REX4 homolog, 3'-5' exonuclease [ Homo sapiens (human) ]

Gene ID: 57109, updated on 29-Mar-2020

Summary

Official Symbol
REXO4provided by HGNC
Official Full Name
REX4 homolog, 3'-5' exonucleaseprovided by HGNC
Primary source
HGNC:HGNC:12820
See related
Ensembl:ENSG00000148300 MIM:602930
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
REX4; XPMC2; XPMC2H
Expression
Ubiquitous expression in ovary (RPKM 10.2), testis (RPKM 9.8) and 25 other tissues See more
Orthologs

Genomic context

See REXO4 in Genome Data Viewer
Location:
9q34.2
Exon count:
11
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 9 NC_000009.12 (133406058..133418172, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (136271182..136283292, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene surfeit 2 Neighboring gene surfeit 4 Neighboring gene serine/threonine kinase like domain containing 1 Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif 13 Neighboring gene calcium channel flower domain containing 1 Neighboring gene solute carrier family 2 member 6

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?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
3'-5' exonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
RNA binding HDA PubMed 
endonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
exonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
single-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
DNA catabolic process, endonucleolytic IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA catabolic process, endonucleolytic IDA
Inferred from Direct Assay
more info
PubMed 
DNA catabolic process, exonucleolytic IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA catabolic process, exonucleolytic IDA
Inferred from Direct Assay
more info
PubMed 
non-recombinational repair IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
non-recombinational repair IDA
Inferred from Direct Assay
more info
PubMed 
rRNA processing IEA
Inferred from Electronic Annotation
more info
 
regulation of transcription, DNA-templated NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
nuclear speck IDA
Inferred from Direct Assay
more info
 
nucleolus 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 NAS
Non-traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
RNA exonuclease 4
Names
REX4, RNA exonuclease 4 homolog
XPMC2 prevents mitotic catastrophe 2 homolog
Xenopus prevents mitotic catastrophe 2 homolog
exonuclease XPMC2

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_001279349.1NP_001266278.1  RNA exonuclease 4 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' coding region and lacks two coding exons, which results in a region containing a frameshift, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AK304547, AL136894, BM984937, BX333016, DC387839
    Consensus CDS
    CCDS65179.1
    UniProtKB/Swiss-Prot
    Q9GZR2
    UniProtKB/TrEMBL
    B4E331
    Related
    ENSP00000361003.2, ENST00000371935.6
    Conserved Domains (1) summary
    cl10012
    Location:114222
    DnaQ_like_exo; DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily
  2. NM_001279350.2NP_001266279.1  RNA exonuclease 4 isoform 3

    See identical proteins and their annotated locations for NP_001266279.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site near the 5' end and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AK304547, AL136894, BC009274
    UniProtKB/Swiss-Prot
    Q9GZR2
    UniProtKB/TrEMBL
    B4E331
    Conserved Domains (1) summary
    cd06144
    Location:107257
    REX4_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins
  3. NM_001279351.1NP_001266280.1  RNA exonuclease 4 isoform 4

    See identical proteins and their annotated locations for NP_001266280.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' exon and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AK295982, AL136894, BC009274, BM984937
    UniProtKB/Swiss-Prot
    Q9GZR2
    UniProtKB/TrEMBL
    B4DJ95
    Conserved Domains (2) summary
    cd06144
    Location:151301
    REX4_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins
    COG0847
    Location:148312
    DnaQ; DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair]
  4. NM_020385.4NP_065118.2  RNA exonuclease 4 isoform 1

    See identical proteins and their annotated locations for NP_065118.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AL136894, BC009274, DC387839
    Consensus CDS
    CCDS6969.1
    UniProtKB/Swiss-Prot
    Q9GZR2
    Related
    ENSP00000361010.3, ENST00000371942.8
    Conserved Domains (1) summary
    cd06144
    Location:244394
    REX4_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins

RNA

  1. NR_103995.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks two alternate internal exons, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.
    Source sequence(s)
    AK310164, AL136894, DC387839
  2. NR_103996.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.
    Source sequence(s)
    BC071691, DC387839

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_000009.12 Reference GRCh38.p13 Primary Assembly

    Range
    133406058..133418172 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024447613.1XP_024303381.1  RNA exonuclease 4 isoform X1

    Conserved Domains (1) summary
    cd06144
    Location:107257
    REX4_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins
  2. XM_024447612.1XP_024303380.1  RNA exonuclease 4 isoform X1

    Conserved Domains (1) summary
    cd06144
    Location:107257
    REX4_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins
  3. XM_024447611.1XP_024303379.1  RNA exonuclease 4 isoform X1

    Conserved Domains (1) summary
    cd06144
    Location:107257
    REX4_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins

RNA

  1. XR_001746354.2 RNA Sequence

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_009646201.1 Reference GRCh38.p13 PATCHES

    Range
    232152..244266 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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