Riox2 (ribosomal oxygenase 2) - Rat Genome Database

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Gene: Riox2 (ribosomal oxygenase 2) Rattus norvegicus
Analyze
Symbol: Riox2
Name: ribosomal oxygenase 2
RGD ID: 708521
Description: Predicted to enable several functions, including histone H3 demethylase activity; identical protein binding activity; and peptidyl-histidine dioxygenase activity. Predicted to be involved in chromatin remodeling; negative regulation of DNA-templated transcription; and ribosome biogenesis. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in nucleolus. Orthologous to human RIOX2 (ribosomal oxygenase 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 4-amino-2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: bifunctional lysine-specific demethylase and histidyl-hydroxylase MINA; histone lysine demethylase MINA; MGC105305; Mina; Mina-53; Mina53; myc induced nuclear antigen; myc-induced nuclear antigen
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Riox2-ps6  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81154,327,311 - 54,353,989 (-)NCBIGRCr8
mRatBN7.21140,861,365 - 40,884,782 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1140,860,774 - 40,884,574 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1149,593,468 - 49,616,503 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01142,264,741 - 42,287,776 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01141,393,410 - 41,416,444 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01143,006,190 - 43,028,722 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1143,006,757 - 43,022,565 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01146,195,689 - 46,218,221 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41141,626,321 - 41,649,489 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11141,683,933 - 41,707,078 (-)NCBI
Celera1140,703,256 - 40,726,307 (-)NCBICelera
Cytogenetic Map11q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. A novel myc target gene, mina53, that is involved in cell proliferation. Tsuneoka M, etal., J Biol Chem 2002 Sep 20;277(38):35450-9. Epub 2002 Jun 28.
Additional References at PubMed
PMID:12477932   PMID:16189514   PMID:19561615   PMID:25416956  


Genomics

Comparative Map Data
Riox2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81154,327,311 - 54,353,989 (-)NCBIGRCr8
mRatBN7.21140,861,365 - 40,884,782 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1140,860,774 - 40,884,574 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1149,593,468 - 49,616,503 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01142,264,741 - 42,287,776 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01141,393,410 - 41,416,444 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01143,006,190 - 43,028,722 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1143,006,757 - 43,022,565 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01146,195,689 - 46,218,221 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41141,626,321 - 41,649,489 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11141,683,933 - 41,707,078 (-)NCBI
Celera1140,703,256 - 40,726,307 (-)NCBICelera
Cytogenetic Map11q12NCBI
RIOX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38397,941,818 - 97,972,431 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl397,941,818 - 97,972,457 (-)EnsemblGRCh38hg38GRCh38
GRCh37397,660,662 - 97,691,275 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36399,143,351 - 99,173,985 (-)NCBINCBI36Build 36hg18NCBI36
Celera396,050,233 - 96,080,866 (-)NCBICelera
Cytogenetic Map3q11.2NCBI
HuRef395,030,556 - 95,061,194 (-)NCBIHuRef
CHM1_1397,623,694 - 97,654,332 (-)NCBICHM1_1
T2T-CHM13v2.03100,645,556 - 100,676,171 (-)NCBIT2T-CHM13v2.0
Riox2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391659,292,116 - 59,312,895 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1659,292,138 - 59,312,824 (+)EnsemblGRCm39 Ensembl
GRCm381659,471,753 - 59,492,532 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1659,471,775 - 59,492,461 (+)EnsemblGRCm38mm10GRCm38
MGSCv371659,471,601 - 59,492,287 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361659,414,324 - 59,434,547 (+)NCBIMGSCv36mm8
Celera1659,823,898 - 59,844,606 (+)NCBICelera
Cytogenetic Map16C1.3NCBI
cM Map1634.83NCBI
Riox2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955407173,594 - 203,086 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955407173,590 - 203,401 (+)NCBIChiLan1.0ChiLan1.0
RIOX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2295,857,563 - 95,886,468 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1395,859,552 - 95,891,253 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0395,014,526 - 95,045,419 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13101,701,691 - 101,729,081 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3101,702,616 - 101,725,023 (-)Ensemblpanpan1.1panPan2
RIOX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1334,967,633 - 4,989,434 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl334,967,629 - 4,989,440 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha335,148,200 - 5,165,312 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0335,077,172 - 5,094,491 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl335,076,539 - 5,099,699 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1334,953,608 - 4,970,298 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0335,013,979 - 5,031,638 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0335,288,298 - 5,305,233 (-)NCBIUU_Cfam_GSD_1.0
Riox2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602152,253,460 - 152,276,928 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366663,229,174 - 3,262,193 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366663,226,800 - 3,262,193 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RIOX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13162,330,585 - 162,357,318 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113162,330,541 - 162,354,420 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RIOX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12282,727,803 - 82,756,503 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2282,727,907 - 82,759,832 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604183,824,968 - 83,852,670 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Riox2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478910,384,472 - 10,438,769 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Riox2
213 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:37
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000002285
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat

Markers in Region
RH133424  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11q12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 20 26 16 18 16 21 16 31
Low 3 23 31 25 1 25 8 11 53 19 10 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002285   ⟹   ENSRNOP00000002285
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1140,860,774 - 40,884,574 (-)Ensembl
Rnor_6.0 Ensembl1143,006,757 - 43,022,565 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100511   ⟹   ENSRNOP00000081634
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1140,860,774 - 40,884,574 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102222   ⟹   ENSRNOP00000076630
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1140,860,774 - 40,884,574 (-)Ensembl
RefSeq Acc Id: NM_153309   ⟹   NP_695221
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81154,330,584 - 54,353,752 (-)NCBI
mRatBN7.21140,861,375 - 40,884,545 (-)NCBI
Rnor_6.01143,006,190 - 43,028,722 (-)NCBI
Rnor_5.01146,195,689 - 46,218,221 (-)NCBI
RGSC_v3.41141,626,321 - 41,649,489 (-)RGD
Celera1140,703,256 - 40,726,307 (-)RGD
Sequence:
RefSeq Acc Id: XM_039088049   ⟹   XP_038943977
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81154,327,311 - 54,353,289 (-)NCBI
mRatBN7.21140,861,365 - 40,884,079 (-)NCBI
RefSeq Acc Id: XM_039088050   ⟹   XP_038943978
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81154,330,751 - 54,353,989 (-)NCBI
mRatBN7.21140,861,365 - 40,884,782 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_695221   ⟸   NM_153309
- UniProtKB: Q8CFC1 (UniProtKB/Swiss-Prot),   A6IQI7 (UniProtKB/TrEMBL),   A0A0A0MXT5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002285   ⟸   ENSRNOT00000002285
RefSeq Acc Id: XP_038943978   ⟸   XM_039088050
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038943977   ⟸   XM_039088049
- Peptide Label: isoform X1
- UniProtKB: Q8CFC1 (UniProtKB/Swiss-Prot),   A6IQI7 (UniProtKB/TrEMBL),   A0A0A0MXT5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000076630   ⟸   ENSRNOT00000102222
RefSeq Acc Id: ENSRNOP00000081634   ⟸   ENSRNOT00000100511
Protein Domains
JmjC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8CFC1-F1-model_v2 AlphaFold Q8CFC1 1-465 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708521 AgrOrtholog
BioCyc Gene G2FUF-21618 BioCyc
Ensembl Genes ENSRNOG00000001680 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055013749 UniProtKB/Swiss-Prot
  ENSRNOG00060017618 UniProtKB/Swiss-Prot
  ENSRNOG00065014249 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000002285.7 UniProtKB/TrEMBL
  ENSRNOT00000100511 ENTREZGENE
  ENSRNOT00000100511.1 UniProtKB/Swiss-Prot
  ENSRNOT00000102222.1 UniProtKB/TrEMBL
  ENSRNOT00055023645 UniProtKB/Swiss-Prot
  ENSRNOT00060030168 UniProtKB/Swiss-Prot
  ENSRNOT00065023516 UniProtKB/Swiss-Prot
Gene3D-CATH 3.90.930.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cupin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  JmjC domain-containing ribosomal oxygenase (ROX), dimer domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7310399 IMAGE-MGC_LOAD
InterPro JmjC_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  JmjC_protein UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ROXA-like_wH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:266670 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:105305 IMAGE-MGC_LOAD
NCBI Gene 266670 ENTREZGENE
PANTHER PTHR13096 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RIBOSOMAL OXYGENASE 1-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Cupin_4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ROXA-like_wH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Riox2 PhenoGen
PROSITE JMJC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001680 RatGTEx
  ENSRNOG00055013749 RatGTEx
  ENSRNOG00060017618 RatGTEx
  ENSRNOG00065014249 RatGTEx
Superfamily-SCOP Clavaminate synthase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0A0MXT5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZJ87_RAT UniProtKB/TrEMBL
  A6IQI7 ENTREZGENE, UniProtKB/TrEMBL
  Q8CFC1 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-01-17 Riox2  ribosomal oxygenase 2  Mina  myc induced nuclear antigen  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 Mina  myc induced nuclear antigen  Mina53  Mina-53  Symbol and Name updated to reflect Human and Mouse nomenclature 625702 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_protein Protein is 53 kDa 1299501