U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

REXO5 RNA exonuclease 5 [ Homo sapiens (human) ]

Gene ID: 81691, updated on 5-Mar-2024

Summary

Go to the top of the page Help
Official Symbol
REXO5provided by HGNC
Official Full Name
RNA exonuclease 5provided by HGNC
Primary source
HGNC:HGNC:24661
See related
Ensembl:ENSG00000005189 AllianceGenome:HGNC:24661
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
NEF-sp
Summary
Predicted to enable exonuclease activity. Predicted to be involved in nucleic acid phosphodiester bond hydrolysis. Located in nucleolus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward testis (RPKM 183.5) See more
Orthologs
mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
16p12.3
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (20806425..20849665)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (20737356..20780580)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (20817849..20860987)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene acyl-CoA synthetase medium chain family member 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10535 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10536 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10537 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10538 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10539 Neighboring gene THUMP domain containing 1 Neighboring gene RNA, U6 small nuclear 944, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:20816990-20817935 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10541 Neighboring gene uncharacterized LOC105371121 Neighboring gene ERI1 exoribonuclease family member 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:20878222-20878722 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr16:20876915-20878114 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10543 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10544 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7246 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10545 Neighboring gene defective in cullin neddylation 1 domain containing 3 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:20911499-20912284 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10546 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:20912285-20913070 Neighboring gene LYR motif containing 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:20982344-20983543 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:20985044-20985544 Neighboring gene dynein axonemal heavy chain 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7247 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:21059143-21059715 Neighboring gene uncharacterized LOC107984888 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10547

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Characterization of the mammalian RNA exonuclease 5/NEF-sp as a testis-specific nuclear 3' → 5' exoribonuclease. Silva S, et al. RNA, 2017 Sep. PMID 28539487, Free PMC Article
  2. The Conserved RNA Exonuclease Rexo5 Is Required for 3' End Maturation of 28S rRNA, 5S rRNA, and snoRNAs. Gerstberger S, et al. Cell Rep, 2017 Oct 17. PMID 29045842, Free PMC Article
  3. Genome duplications and other features in 12 Mb of DNA sequence from human chromosome 16p and 16q. Loftus BJ, et al. Genomics, 1999 Sep 15. PMID 10493829
  4. Systematic identification of cancer cell vulnerabilities to natural killer cell-mediated immune surveillance. Pech MF, et al. Elife, 2019 Aug 27. PMID 31452512, Free PMC Article
  5. A High-Density Map for Navigating the Human Polycomb Complexome. Hauri S, et al. Cell Rep, 2016 Oct 4. PMID 27705803

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

Go to the top of the page Help

Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Markers

Homology

Clone Names

  • DKFZp434J0315

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables exonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in extracellular exosome HDA PubMed 
located_in nucleolus IDA
Inferred from Direct Assay
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

Go to the top of the page Help
Preferred Names
RNA exonuclease 5
Names
exonuclease NEF-sp
putative RNA exonuclease NEF-sp

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001144924.2 → NP_001138396.1  RNA exonuclease 5 isoform 2

    See identical proteins and their annotated locations for NP_001138396.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    AC004381, AL136763, BC068503
    Consensus CDS
    CCDS45437.1
    UniProtKB/Swiss-Prot
    Q96IC2
    Related
    ENSP00000261378.8, ENST00000348433.10
    Conserved Domains (3) summary
    cd06145
    Location:229 → 377
    REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
    COG0847
    Location:258 → 394
    DnaQ; DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair]
    cl17169
    Location:571 → 641
    RRM_SF; RNA recognition motif (RRM) superfamily

  2. NM_001199053.2 → NP_001185982.1  RNA exonuclease 5 isoform 1

    See identical proteins and their annotated locations for NP_001185982.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 and 3 both encode the same isoform (1).
    Source sequence(s)
    AC004381, AK314458, BC007646, DB059505
    Consensus CDS
    CCDS10591.1
    UniProtKB/Swiss-Prot
    B2RB19, O60364, Q96IC2, Q96MB1, Q9BXH9, Q9H0K2, Q9NSM2
    Related
    ENSP00000457616.1, ENST00000564274.5
    Conserved Domains (3) summary
    cd06145
    Location:229 → 377
    REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
    cd12273
    Location:506 → 576
    RRM1_NEFsp; RNA recognition motif 1 in vertebrate putative RNA exonuclease NEF-sp
    cl17169
    Location:602 → 672
    RRM_SF; RNA recognition motif (RRM) superfamily

  3. NM_030941.3 → NP_112203.2  RNA exonuclease 5 isoform 1

    See identical proteins and their annotated locations for NP_112203.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). Variants 1 and 3 both encode the same isoform (1).
    Source sequence(s)
    AC004381, BC007646
    Consensus CDS
    CCDS10591.1
    UniProtKB/Swiss-Prot
    B2RB19, O60364, Q96IC2, Q96MB1, Q9BXH9, Q9H0K2, Q9NSM2
    Related
    ENSP00000261377.6, ENST00000261377.11
    Conserved Domains (3) summary
    cd06145
    Location:229 → 377
    REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
    cd12273
    Location:506 → 576
    RRM1_NEFsp; RNA recognition motif 1 in vertebrate putative RNA exonuclease NEF-sp
    cl17169
    Location:602 → 672
    RRM_SF; RNA recognition motif (RRM) superfamily

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    20806425..20849665
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011545963.3 → XP_011544265.1  RNA exonuclease 5 isoform X1

    See identical proteins and their annotated locations for XP_011544265.1

    UniProtKB/Swiss-Prot
    B2RB19, O60364, Q96IC2, Q96MB1, Q9BXH9, Q9H0K2, Q9NSM2
    Conserved Domains (3) summary
    cd06145
    Location:229 → 377
    REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
    cd12273
    Location:506 → 576
    RRM1_NEFsp; RNA recognition motif 1 in vertebrate putative RNA exonuclease NEF-sp
    cl17169
    Location:602 → 672
    RRM_SF; RNA recognition motif (RRM) superfamily

  2. XM_047434726.1 → XP_047290682.1  RNA exonuclease 5 isoform X2

  3. XM_005255604.3 → XP_005255661.1  RNA exonuclease 5 isoform X1

    See identical proteins and their annotated locations for XP_005255661.1

    UniProtKB/Swiss-Prot
    B2RB19, O60364, Q96IC2, Q96MB1, Q9BXH9, Q9H0K2, Q9NSM2
    Conserved Domains (3) summary
    cd06145
    Location:229 → 377
    REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
    cd12273
    Location:506 → 576
    RRM1_NEFsp; RNA recognition motif 1 in vertebrate putative RNA exonuclease NEF-sp
    cl17169
    Location:602 → 672
    RRM_SF; RNA recognition motif (RRM) superfamily

  4. XM_017023739.3 → XP_016879228.1  RNA exonuclease 5 isoform X2

    UniProtKB/Swiss-Prot
    Q96IC2
    Conserved Domains (3) summary
    cd06145
    Location:229 → 377
    REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
    COG0847
    Location:258 → 394
    DnaQ; DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair]
    cl17169
    Location:571 → 641
    RRM_SF; RNA recognition motif (RRM) superfamily

  5. XM_011545964.3 → XP_011544266.1  RNA exonuclease 5 isoform X3

    Conserved Domains (4) summary
    cd06145
    Location:229 → 377
    REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
    COG0847
    Location:258 → 394
    DnaQ; DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair]
    cd12273
    Location:471 → 541
    RRM1_NEFsp; RNA recognition motif 1 in vertebrate putative RNA exonuclease NEF-sp
    cd12274
    Location:567 → 637
    RRM2_NEFsp; RNA recognition motif 2 in vertebrate putative RNA exonuclease NEF-sp

  6. XM_011545965.3 → XP_011544267.1  RNA exonuclease 5 isoform X4

    Conserved Domains (3) summary
    cd06145
    Location:229 → 377
    REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
    COG0847
    Location:258 → 394
    DnaQ; DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair]
    cl17169
    Location:536 → 606
    RRM_SF; RNA recognition motif (RRM) superfamily

  7. XM_047434727.1 → XP_047290683.1  RNA exonuclease 5 isoform X5

  8. XM_047434725.1 → XP_047290681.1  RNA exonuclease 5 isoform X1

    UniProtKB/Swiss-Prot
    B2RB19, O60364, Q96IC2, Q96MB1, Q9BXH9, Q9H0K2, Q9NSM2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    20737356..20780580
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054314063.1 → XP_054170038.1  RNA exonuclease 5 isoform X1

    UniProtKB/Swiss-Prot
    B2RB19, O60364, Q96IC2, Q96MB1, Q9BXH9, Q9H0K2, Q9NSM2

  2. XM_054314062.1 → XP_054170037.1  RNA exonuclease 5 isoform X1

    UniProtKB/Swiss-Prot
    B2RB19, O60364, Q96IC2, Q96MB1, Q9BXH9, Q9H0K2, Q9NSM2

  3. XM_054314066.1 → XP_054170041.1  RNA exonuclease 5 isoform X2

  4. XM_054314065.1 → XP_054170040.1  RNA exonuclease 5 isoform X2

  5. XM_054314067.1 → XP_054170042.1  RNA exonuclease 5 isoform X3

  6. XM_054314068.1 → XP_054170043.1  RNA exonuclease 5 isoform X4

  7. XM_054314069.1 → XP_054170044.1  RNA exonuclease 5 isoform X5

  8. XM_054314064.1 → XP_054170039.1  RNA exonuclease 5 isoform X1

    UniProtKB/Swiss-Prot
    B2RB19, O60364, Q96IC2, Q96MB1, Q9BXH9, Q9H0K2, Q9NSM2
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96IC2.1 GenPept UniProtKB/Swiss-Prot:Q96IC2

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous