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

    Gene ID: 81875, updated on 10-Dec-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
    mouse all
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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: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 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)

    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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    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_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

    Gene LinkOut

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

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