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ISG20L2 interferon stimulated exonuclease gene 20 like 2 [ Homo sapiens (human) ]

Gene ID: 81875, updated on 3-Nov-2024

Summary

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Official Symbol
ISG20L2provided by HGNC
Official Full Name
interferon stimulated exonuclease gene 20 like 2provided by HGNC
Primary source
HGNC:HGNC:25745
See related
Ensembl:ENSG00000143319 MIM:611930; AllianceGenome:HGNC:25745
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
HSD38
Summary
This gene encodes a 3'-5' exoribonuclease that may be involved in the processing of the 12S pre-rRNA. Pseudogenes have been identified on chromosomes 6 and 11. [provided by RefSeq, Dec 2014]
Expression
Broad expression in testis (RPKM 30.7), lymph node (RPKM 8.1) and 24 other tissues See more
Orthologs
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Genomic context

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See ISG20L2 in Genome Data Viewer
Location:
1q23.1
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (156721891..156728766, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (155858294..155865169, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (156691683..156698558, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156642834-156643494 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156643495-156644156 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156645479-156646139 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:156646801-156647461 Neighboring gene nestin Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156661895-156662812 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:156674429-156674930 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156676520-156677196 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156677875-156678551 Neighboring gene cellular retinoic acid binding protein 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:156682885-156683400 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1434 Neighboring gene methyltransferase like 25B Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:156711011-156711988 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1877 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1878 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156717051-156717748 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156717749-156718446 Neighboring gene mitochondrial ribosomal protein L24 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156718447-156719143 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:156721068-156721842 Neighboring gene heparin binding growth factor Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156729657-156730190 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156730191-156730723 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:156736100-156736726 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:156736727-156737352 Neighboring gene proline rich mitotic checkpoint control factor Neighboring gene Sharpr-MPRA regulatory region 3718

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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

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Related articles in PubMed

  1. Molecular mechanism of human ISG20L2 for the ITS1 cleavage in the processing of 18S precursor ribosomal RNA. Ma Y, et al. Nucleic Acids Res, 2024 Feb 28. PMID 38153123, Free PMC Article
  2. ISG20L2: an RNA nuclease regulating T cell activation. Rodríguez-Galán A, et al. Cell Mol Life Sci, 2023 Aug 30. PMID 37646974, Free PMC Article
  3. ISG20L2, a novel vertebrate nucleolar exoribonuclease involved in ribosome biogenesis. Couté Y, et al. Mol Cell Proteomics, 2008 Mar. PMID 18065403
  4. Proteomic characterization of the human FTSJ3 preribosomal complexes. Simabuco FM, et al. J Proteome Res, 2012 Jun 1. PMID 22540864
  5. Antiviral activities of ISG20 in positive-strand RNA virus infections. Zhou Z, et al. Virology, 2011 Jan 20. PMID 21036379, Free PMC Article

See all (45) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Molecular mechanism of human ISG20L2 for the ITS1 cleavage in the processing of 18S precursor ribosomal RNA.
    Title: Molecular mechanism of human ISG20L2 for the ITS1 cleavage in the processing of 18S precursor ribosomal RNA.
  2. ISG20L2: an RNA nuclease regulating T cell activation.
    Title: ISG20L2: an RNA nuclease regulating T cell activation.
  3. miR-139-3p target genes ISG20L2, RAD54B, KIAA0101, and PIGS were significantly negatively correlated with miR-139-3p expression in patients with hepatocellular carcinoma.
    Title: High miR-139-3p expression predicts a better prognosis for hepatocellular carcinoma: a pooled analysis.
  4. ISG20L2 is a 3' to 5' exoribonuclease involved in ribosome biogenesis at the level of 5.8 S rRNA maturation, more specifically in the processing of the 12 S precursor rRNA.
    Title: ISG20L2, a novel vertebrate nucleolar exoribonuclease involved in ribosome biogenesis.
Submit: New GeneRIF Correction

Phenotypes

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

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of interferon stimulated exonuclease gene 20kDa-like 2 (ISG20L2) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ12671, FLJ18628

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 3'-5'-RNA exonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding HDA PubMed 
enables exonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in RNA processing IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in ribosome biogenesis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nucleolus IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
interferon-stimulated 20 kDa exonuclease-like 2
Names
interferon stimulated exonuclease gene 20kDa like 2

NCBI Reference Sequences (RefSeq)

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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_001303095.1 → NP_001290024.1  interferon-stimulated 20 kDa exonuclease-like 2

    See identical proteins and their annotated locations for NP_001290024.1

    Status: REVIEWED

    Source sequence(s)
    AW294587, BC000575, CV573712, HY144219
    Consensus CDS
    CCDS1153.1
    UniProtKB/Swiss-Prot
    D3DVC6, Q64KA2, Q9H9L3
    Conserved Domains (1) summary
    cd06149
    Location:180 → 336
    ISG20; DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins

  2. NM_001370150.2 → NP_001357079.1  interferon-stimulated 20 kDa exonuclease-like 2

    Status: REVIEWED

    Source sequence(s)
    AL590666
    Consensus CDS
    CCDS1153.1
    UniProtKB/Swiss-Prot
    D3DVC6, Q64KA2, Q9H9L3
    Related
    ENSP00000357202.2, ENST00000368219.2
    Conserved Domains (1) summary
    cd06149
    Location:180 → 336
    ISG20; DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins

  3. NM_001370151.1 → NP_001357080.1  interferon-stimulated 20 kDa exonuclease-like 2

    Status: REVIEWED

    Source sequence(s)
    AL590666
    Consensus CDS
    CCDS1153.1
    UniProtKB/Swiss-Prot
    D3DVC6, Q64KA2, Q9H9L3
    Conserved Domains (1) summary
    cd06149
    Location:180 → 336
    ISG20; DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins

  4. NM_001370152.1 → NP_001357081.1  interferon-stimulated 20 kDa exonuclease-like 2

    Status: REVIEWED

    Source sequence(s)
    AL590666
    Consensus CDS
    CCDS1153.1
    UniProtKB/Swiss-Prot
    D3DVC6, Q64KA2, Q9H9L3
    Conserved Domains (1) summary
    cd06149
    Location:180 → 336
    ISG20; DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    156721891..156728766 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047431338.1 → XP_047287294.1  interferon-stimulated 20 kDa exonuclease-like 2 isoform X1

    UniProtKB/Swiss-Prot
    D3DVC6, Q64KA2, Q9H9L3
    Related
    ENSP00000323424.6, ENST00000313146.11

  2. XM_005245518.5 → XP_005245575.1  interferon-stimulated 20 kDa exonuclease-like 2 isoform X2

    Conserved Domains (1) summary
    cl10012
    Location:33 → 121
    DnaQ_like_exo; DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    155858294..155865169 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054338932.1 → XP_054194907.1  interferon-stimulated 20 kDa exonuclease-like 2 isoform X2

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_030980.1: Suppressed sequence

    Description
    NM_030980.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9H9L3.1 GenPept UniProtKB/Swiss-Prot:Q9H9L3

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