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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
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Genomic context

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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

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