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    RIOX2 ribosomal oxygenase 2 [ Homo sapiens (human) ]

    Gene ID: 84864, updated on 3-Apr-2024

    Summary

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    Official Symbol
    RIOX2provided by HGNC
    Official Full Name
    ribosomal oxygenase 2provided by HGNC
    Primary source
    HGNC:HGNC:19441
    See related
    Ensembl:ENSG00000170854 MIM:612049; AllianceGenome:HGNC:19441
    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
    ROX; MDIG; MINA; NO52; JMJD10; MINA53
    Summary
    MINA is a c-Myc (MYC; MIM 190080) target gene that may play a role in cell proliferation or regulation of cell growth. (Tsuneoka et al., 2002 [PubMed 12091391]; Zhang et al., 2005 [PubMed 15897898]).[supplied by OMIM, May 2008]
    Expression
    Ubiquitous expression in thyroid (RPKM 23.6), skin (RPKM 10.0) and 24 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See RIOX2 in Genome Data Viewer
    Location:
    3q11.2
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (97941818..97972431, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (100645556..100676171, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (97660662..97691275, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ADP ribosylation factor like GTPase 6 Neighboring gene uncharacterized LOC101929298 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14552 Neighboring gene uncharacterized LOC105373994 Neighboring gene crystallin beta-gamma domain containing 3 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:97614773-97615564 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:97628706-97629296 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:97629297-97629886 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20128 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14553 Neighboring gene uncharacterized LOC124909398 Neighboring gene Sharpr-MPRA regulatory region 5379 Neighboring gene gamma-aminobutyric acid type A receptor subunit rho3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20129 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20130

    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
    • 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. MDIG, a 2‑oxoglutarate‑dependent oxygenase, acts as an oncogene and predicts the prognosis of multiple types of cancer. Geng F, et al. Int J Oncol, 2022 Jul. PMID 35583005, Free PMC Article
    2. The bioinformatics analysis of RIOX2 gene in lung adenocarcinoma and squamous cell carcinoma. Sun B, et al. PLoS One, 2021. PMID 34855761, Free PMC Article
    3. Environmentally-induced mdig contributes to the severity of COVID-19 through fostering expression of SARS-CoV-2 receptor NRPs and glycan metabolism. Zhang Q, et al. Theranostics, 2021. PMID 34335974, Free PMC Article
    4. The mineral dust-induced gene, mdig, regulates angiogenesis and lymphangiogenesis in lung adenocarcinoma by modulating the expression of VEGF-A/C/D via EGFR and HIF-1α signaling. Zhou H, et al. Oncol Rep, 2021 May. PMID 33760153
    5. Pathological and Prognostic Indications of the mdig Gene in Human Lung Cancer. Shi J, et al. Cell Physiol Biochem, 2021 Jan 11. PMID 33423409, Free PMC Article

    See all (87) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. MDIG, a 2oxoglutaratedependent oxygenase, acts as an oncogene and predicts the prognosis of multiple types of cancer.
      Title: MDIG, a 2‑oxoglutarate‑dependent oxygenase, acts as an oncogene and predicts the prognosis of multiple types of cancer.
    2. Epigenomic reprogramming via HRP2-MINA dictates response to proteasome inhibitors in multiple myeloma with t(4;14) translocation.
      Title: Epigenomic reprogramming via HRP2-MINA dictates response to proteasome inhibitors in multiple myeloma with t(4;14) translocation.
    3. The unfavorable clinical outcome of COVID-19 in smokers is mediated by H3K4me3, H3K9me3 and H3K27me3 histone marks.
      Title: The unfavorable clinical outcome of COVID-19 in smokers is mediated by H3K4me3, H3K9me3 and H3K27me3 histone marks.
    4. The bioinformatics analysis of RIOX2 gene in lung adenocarcinoma and squamous cell carcinoma.
      Title: The bioinformatics analysis of RIOX2 gene in lung adenocarcinoma and squamous cell carcinoma.
    5. The mineral dust-induced gene, mdig, regulates angiogenesis and lymphangiogenesis in lung adenocarcinoma by modulating the expression of VEGF-A/C/D via EGFR and HIF-1alpha signaling.
      Title: The mineral dust-induced gene, mdig, regulates angiogenesis and lymphangiogenesis in lung adenocarcinoma by modulating the expression of VEGF-A/C/D via EGFR and HIF-1α signaling.
    6. Environmentally-induced mdig contributes to the severity of COVID-19 through fostering expression of SARS-CoV-2 receptor NRPs and glycan metabolism.
      Title: Environmentally-induced mdig contributes to the severity of COVID-19 through fostering expression of SARS-CoV-2 receptor NRPs and glycan metabolism.
    7. Pathological and Prognostic Indications of the mdig Gene in Human Lung Cancer.
      Title: Pathological and Prognostic Indications of the mdig Gene in Human Lung Cancer.
    8. Mdig promotes oncogenic gene expression through antagonizing repressive histone methylation markers.
      Title: Mdig promotes oncogenic gene expression through antagonizing repressive histone methylation markers.
    9. ZNF143-Mediated H3K9 Trimethylation Upregulates CDC6 by Activating MDIG in Hepatocellular Carcinoma.
      Title: ZNF143-Mediated H3K9 Trimethylation Upregulates CDC6 by Activating MDIG in Hepatocellular Carcinoma.
    10. Mina53 may play an important role in the occurrence of hepatocellular carcinoma and participate in the process of tumor growth as well as invasion and metastasis.
      Title: [Significance of expression of Myc-induced nuclear antigen 53 in hepatocellular carcinoma and its relationship with patient prognosis].
    Submit: New GeneRIF Correction See all GeneRIFs (41)

    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

    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

    • FLJ14393, DKFZp762O1912

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables histone H3K36 demethylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone H3K4 demethylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone demethylase activity TAS
    Traceable Author Statement
    more info
    		  
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables peptidyl-histidine dioxygenase activity EXP
    Inferred from Experiment
    more info
    		 PubMed 
    enables peptidyl-histidine dioxygenase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription corepressor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    part_of transcription regulator complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ribosomal oxygenase 2
    Names
    60S ribosomal protein L27a histidine hydroxylase
    MYC induced nuclear antigen
    MYC-induced nuclear antigen 53
    bifunctional lysine-specific demethylase and histidyl-hydroxylase MINA
    histone lysine demethylase MINA
    mineral dust induced gene protein
    myc-induced nuclear antigen, 53 kDa
    nucleolar protein 52
    ribosomal oxygenase MINA
    NP_001035998.1
    NP_001248758.1
    NP_116167.3
    NP_694822.2
    XP_005247895.1
    XP_011511546.1
    XP_047305041.1
    XP_047305042.1
    XP_047305043.1
    XP_054204117.1
    XP_054204118.1
    XP_054204119.1
    XP_054204120.1
    XP_054204121.1

    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_001042533.3 → NP_001035998.1  ribosomal oxygenase 2 isoform a

      See identical proteins and their annotated locations for NP_001035998.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (A). Variants 1 and 2 encode the same protein (isoform A).
      Source sequence(s)
      AC110491, AL550737, AY302110, DA310030
      Consensus CDS
      CCDS43114.1
      UniProtKB/Swiss-Prot
      D3DN35, Q6AHW4, Q6SKS0, Q8IU69, Q8IUF6, Q8IUF7, Q8IUF8, Q96C17, Q96KB0
      UniProtKB/TrEMBL
      A0A6M8YDW1, A0A6M8YDW2
      Related
      ENSP00000328251.6, ENST00000333396.11
      Conserved Domains (1) summary
      pfam08007
      Location:52 → 364
      Cupin_4; Cupin superfamily protein

    2. NM_001261829.2 → NP_001248758.1  ribosomal oxygenase 2 isoform b

      See identical proteins and their annotated locations for NP_001248758.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses alternate splice sites in the 5' UTR and 3' coding region, compared to variant 1, and encodes a shorter protein (isoform B), compared to isoform A. Variants 3 and 4 encode the same protein (isoform B).
      Source sequence(s)
      AC026100, AC110491, AK027299, DA310030
      Consensus CDS
      CCDS2929.1
      UniProtKB/TrEMBL
      A0A6M8YDW2
      Conserved Domains (1) summary
      pfam08007
      Location:52 → 363
      Cupin_4; Cupin superfamily protein

    3. NM_032778.6 → NP_116167.3  ribosomal oxygenase 2 isoform b

      See identical proteins and their annotated locations for NP_116167.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site in the 3' coding region, compared to variant 1, and encodes a shorter protein (isoform B), compared to isoform A. Variants 3 and 4 encode the same protein (isoform B).
      Source sequence(s)
      AB083190, AC026100, AC110491, AL550737, DA310030
      Consensus CDS
      CCDS2929.1
      UniProtKB/TrEMBL
      A0A6M8YDW2
      Related
      ENSP00000353395.4, ENST00000360258.8
      Conserved Domains (1) summary
      pfam08007
      Location:52 → 363
      Cupin_4; Cupin superfamily protein

    4. NM_153182.4 → NP_694822.2  ribosomal oxygenase 2 isoform a

      See identical proteins and their annotated locations for NP_694822.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 5' UTR, compared to variant 1, and encodes isoform A. Variants 1 and 2 encode the same protein (isoform A).
      Source sequence(s)
      AC110491, DA310030, DQ453796
      Consensus CDS
      CCDS43114.1
      UniProtKB/Swiss-Prot
      D3DN35, Q6AHW4, Q6SKS0, Q8IU69, Q8IUF6, Q8IUF7, Q8IUF8, Q96C17, Q96KB0
      UniProtKB/TrEMBL
      A0A6M8YDW1, A0A6M8YDW2
      Related
      ENSP00000377748.2, ENST00000394198.7
      Conserved Domains (1) summary
      pfam08007
      Location:52 → 364
      Cupin_4; Cupin superfamily protein

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      97941818..97972431 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047449085.1 → XP_047305041.1  ribosomal oxygenase 2 isoform X2

    2. XM_005247838.5 → XP_005247895.1  ribosomal oxygenase 2 isoform X1

      See identical proteins and their annotated locations for XP_005247895.1

      UniProtKB/Swiss-Prot
      D3DN35, Q6AHW4, Q6SKS0, Q8IU69, Q8IUF6, Q8IUF7, Q8IUF8, Q96C17, Q96KB0
      UniProtKB/TrEMBL
      A0A6M8YDW1, A0A6M8YDW2
      Conserved Domains (1) summary
      pfam08007
      Location:52 → 364
      Cupin_4; Cupin superfamily protein

    3. XM_011513244.4 → XP_011511546.1  ribosomal oxygenase 2 isoform X5

      Conserved Domains (1) summary
      cl21464
      Location:7 → 133
      cupin_like; Conserved domain found in cupin and related proteins

    4. XM_047449086.1 → XP_047305042.1  ribosomal oxygenase 2 isoform X3

    5. XM_047449087.1 → XP_047305043.1  ribosomal oxygenase 2 isoform X4

      Related
      ENSP00000424955.1, ENST00000514314.5

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      100645556..100676171 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054348142.1 → XP_054204117.1  ribosomal oxygenase 2 isoform X1

      UniProtKB/TrEMBL
      A0A6M8YHF9

    2. XM_054348143.1 → XP_054204118.1  ribosomal oxygenase 2 isoform X2

    3. XM_054348146.1 → XP_054204121.1  ribosomal oxygenase 2 isoform X5

    4. XM_054348144.1 → XP_054204119.1  ribosomal oxygenase 2 isoform X3

    5. XM_054348145.1 → XP_054204120.1  ribosomal oxygenase 2 isoform X4

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8IUF8.1 GenPept UniProtKB/Swiss-Prot:Q8IUF8

    Gene LinkOut

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

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