Ogfod3 (2-oxoglutarate and iron-dependent oxygenase domain containing 3) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Ogfod3 (2-oxoglutarate and iron-dependent oxygenase domain containing 3) Mus musculus
Analyze
Symbol: Ogfod3
Name: 2-oxoglutarate and iron-dependent oxygenase domain containing 3
RGD ID: 1332449
MGI Page MGI
Description: Predicted to enable dioxygenase activity; ion binding activity; and oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen. Predicted to be located in membrane. Is expressed in central nervous system; genitourinary system; heart; parathyroid gland; and trachea. Orthologous to human OGFOD3 (2-oxoglutarate and iron dependent oxygenase domain containing 3).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 1110031I02Rik; 2-oxoglutarate and iron-dependent oxygenase domain-containing protein 3; PKHD domain-containing transmembrane protein C17orf101 homolog; RP23-349B15.2
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911121,068,419 - 121,095,474 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11121,068,417 - 121,095,537 (-)EnsemblGRCm39 Ensembl
GRCm3811121,177,593 - 121,204,648 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11121,177,591 - 121,204,711 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711121,038,907 - 121,065,962 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611120,993,683 - 121,020,738 (-)NCBIMGSCv36mm8
Celera11132,915,784 - 132,943,487 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1185.04NCBI
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

Cellular Component
membrane  (IEA)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. Mouse MP Annotation Import Pipeline RGD automated import pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10725249   PMID:11042159   PMID:11076861   PMID:12477932   PMID:16141072   PMID:16141073   PMID:16602821   PMID:21677750   PMID:24194600   PMID:27626380  


Genomics

Comparative Map Data
Ogfod3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911121,068,419 - 121,095,474 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11121,068,417 - 121,095,537 (-)EnsemblGRCm39 Ensembl
GRCm3811121,177,593 - 121,204,648 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11121,177,591 - 121,204,711 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711121,038,907 - 121,065,962 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611120,993,683 - 121,020,738 (-)NCBIMGSCv36mm8
Celera11132,915,784 - 132,943,487 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1185.04NCBI
OGFOD3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381782,389,210 - 82,418,586 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1782,389,210 - 82,418,637 (-)EnsemblGRCh38hg38GRCh38
GRCh371780,347,086 - 80,376,462 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361777,943,389 - 77,969,751 (-)NCBINCBI36Build 36hg18NCBI36
Celera1776,938,858 - 76,965,271 (-)NCBICelera
Cytogenetic Map17q25.3NCBI
HuRef1775,745,657 - 75,772,035 (-)NCBIHuRef
CHM1_11780,433,203 - 80,462,717 (-)NCBICHM1_1
T2T-CHM13v2.01783,258,229 - 83,287,516 (-)NCBIT2T-CHM13v2.0
Ogfod3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr810106,950,640 - 106,978,422 (-)NCBIGRCr8
mRatBN7.210106,452,334 - 106,480,632 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10106,452,329 - 106,480,134 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10111,555,004 - 111,582,344 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.010111,018,057 - 111,045,397 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.010106,372,769 - 106,400,559 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.010110,378,533 - 110,406,377 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10110,378,534 - 110,406,377 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010109,965,250 - 109,993,035 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410110,409,024 - 110,436,809 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.110110,423,528 - 110,451,313 (-)NCBI
Celera10104,990,920 - 105,018,520 (-)NCBICelera
Cytogenetic Map10q32.3NCBI
Ogfod3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955506719,873 - 745,036 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955506719,746 - 744,983 (+)NCBIChiLan1.0ChiLan1.0
OGFOD3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21998,931,873 - 98,958,192 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan117103,836,002 - 103,862,252 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01776,803,623 - 76,829,953 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11782,611,177 - 82,636,729 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1782,611,177 - 82,636,729 (-)Ensemblpanpan1.1panPan2
OGFOD3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha9561,064 - 579,542 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.09552,375 - 570,832 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl9551,916 - 570,792 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.19546,929 - 565,405 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.09708,122 - 726,315 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.09782,950 - 801,159 (+)NCBIUU_Cfam_GSD_1.0
Ogfod3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602516,868 - 534,814 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493692333,539 - 57,748 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493692335,272 - 51,240 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
OGFOD3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl12677,179 - 689,926 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.112677,146 - 688,195 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21232,842 - 44,191 (-)NCBISscrofa10.2Sscrofa10.2susScr3
OGFOD3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11674,304,837 - 74,337,948 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1674,303,756 - 74,338,815 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607745,949,227 - 45,973,307 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ogfod3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480111,167,544 - 11,193,248 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480111,159,113 - 11,192,613 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ogfod3
819 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:208
Count of miRNA genes:186
Interacting mature miRNAs:198
Transcripts:ENSMUST00000026169
Prediction methods:Microtar, 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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226789Feml16_mfemur length 16, 10 week (mouse)1187490826121873369Mouse
10044007Hbnr14_mHeligmosomoides bakeri nematode resistance 14 (mouse)Not determined1187502600121502698Mouse
11251723Ewc5_methanol withdrawal and consumption 5 (mouse)1189869251121973369Mouse
1558753Ath19_matherosclerosis 19 (mouse)Not determined1191604608121973369Mouse
1302034Pkccl_mprotein kinase C content in lungs (mouse)Not determined1191604608121973369Mouse
1301095El6_mepilepsy 6 (mouse)Not determined1193229183121973369Mouse
1301958Alcp18_malcohol preference locus 18 (mouse)Not determined1195403965121973369Mouse
1300944Alcp20_malcohol preference locus 20 (mouse)Not determined1195403965121973369Mouse
1300962Cd8mts4_mCD8 memory T cell subset 4 (mouse)Not determined1196137674121973369Mouse
1301057Nidd4_mnon-insulin-dependent diabetes mellitus 4 (mouse)Not determined1196810136121973369Mouse
1301983Berr2_mberghei resistance locus 2 (mouse)Not determined1198352609121973369Mouse
10043976Obq33_mobesity QTL 33 (mouse)Not determined1198500469121973369Mouse
10044001Alcw8_malcohol withdrawal 8 (mouse)Not determined1199254187121973369Mouse
11553867Stmm5_mskin tumor modifier of MSM 5 (mouse)11100058103121973369Mouse
1301012Vispl_mvisual placing (mouse)Not determined11101022590121973369Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000026169   ⟹   ENSMUSP00000026169
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11121,068,417 - 121,095,537 (-)Ensembl
GRCm38.p6 Ensembl11121,177,591 - 121,204,711 (-)Ensembl
RefSeq Acc Id: NM_025402   ⟹   NP_079678
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3911121,068,419 - 121,095,474 (-)NCBI
GRCm3811121,177,593 - 121,204,648 (-)ENTREZGENE
MGSCv3711121,038,907 - 121,065,962 (-)RGD
Celera11132,915,784 - 132,943,487 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_079678   ⟸   NM_025402
- UniProtKB: Q9D136 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000026169   ⟸   ENSMUST00000026169
Protein Domains
Fe2OG dioxygenase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D136-F1-model_v2 AlphaFold Q9D136 1-315 view protein structure

Promoters
RGD ID:8677772
Promoter ID:EPDNEW_M16916
Type:initiation region
Name:Ogfod3_1
Description:Mus musculus 2-oxoglutarate and iron-dependent oxygenase domaincontaining 3 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3811121,204,683 - 121,204,743EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1913429 AgrOrtholog
Ensembl Genes ENSMUSG00000025169 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000026169 ENTREZGENE
  ENSMUST00000026169.7 UniProtKB/Swiss-Prot
Gene3D-CATH q2cbj1_9rhob like domain UniProtKB/Swiss-Prot
InterPro OGFOD3 UniProtKB/Swiss-Prot
  Oxoglu/Fe-dep_dioxygenase UniProtKB/Swiss-Prot
  Pro_4_hyd_alph UniProtKB/Swiss-Prot
  Pro_4_hyd_alph_FE2OG_OXY UniProtKB/Swiss-Prot
KEGG Report mmu:66179 UniProtKB/Swiss-Prot
MGD MGI:1913429 ENTREZGENE
NCBI Gene 66179 ENTREZGENE
PANTHER 2-OXOGLUTARATE AND IRON-DEPENDENT OXYGENASE DOMAIN-CONTAINING PROTEIN 3 UniProtKB/Swiss-Prot
  PTHR14650 UniProtKB/Swiss-Prot
Pfam 2OG-FeII_Oxy_3 UniProtKB/Swiss-Prot
PhenoGen Ogfod3 PhenoGen
PROSITE FE2OG_OXY UniProtKB/Swiss-Prot
SMART P4Hc UniProtKB/Swiss-Prot
UniProt OGFD3_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-11-27 Ogfod3  2-oxoglutarate and iron-dependent oxygenase domain containing 3  1110031I02Rik  RIKEN cDNA 1110031I02 gene  Symbol and/or name change 5135510 APPROVED