Phyh (phytanoyl-CoA 2-hydroxylase) - 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 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
Advanced Search (OLGA)
Gene: Phyh (phytanoyl-CoA 2-hydroxylase) Rattus norvegicus
Analyze
Symbol: Phyh
Name: phytanoyl-CoA 2-hydroxylase
RGD ID: 620317
Description: Enables phytanoyl-CoA dioxygenase activity. Involved in 2-oxobutyrate catabolic process and fatty acid alpha-oxidation. Located in peroxisome. Biomarker of metabolic dysfunction-associated steatotic liver disease. Human ortholog(s) of this gene implicated in Refsum disease; Zellweger syndrome; orofacial cleft; and peroxisomal disease. Orthologous to human PHYH (phytanoyl-CoA 2-hydroxylase); PARTICIPATES IN phytanic acid degradation pathway; Refsum disease pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,4,7,8-Pentachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: phytanic acid oxidase; phytanoyl-CoA alpha-hydroxylase; phytanoyl-CoA dioxygenase, peroxisomal; phytanoyl-CoA hydroxylase; phytanoyl-CoA hydroxylase (Refsum disease)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81778,238,747 - 78,255,645 (-)NCBIGRCr8
mRatBN7.21773,329,461 - 73,346,359 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1773,329,082 - 73,346,409 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1776,834,020 - 76,851,123 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01780,658,833 - 80,675,645 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01774,709,804 - 74,727,044 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01777,287,580 - 77,304,482 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1777,287,188 - 77,304,530 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01778,953,400 - 78,970,299 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41784,418,173 - 84,435,073 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11784,429,005 - 84,445,906 (-)NCBI
Celera1772,770,062 - 72,786,946 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP)
2,3,4,7,8-Pentachlorodibenzofuran  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-acetamidofluorene  (EXP)
2-methylcholine  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (EXP)
amitriptyline  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzbromarone  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
chlorpromazine  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clarithromycin  (ISO)
clofibrate  (EXP)
clofibric acid  (EXP)
clomipramine  (ISO)
cobalt dichloride  (EXP)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
curcumin  (EXP)
cyclosporin A  (ISO)
dibutyl phthalate  (EXP,ISO)
dicrotophos  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenamidone  (ISO)
folic acid  (ISO)
indometacin  (EXP)
ivermectin  (ISO)
L-ethionine  (EXP)
methapyrilene  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
Muraglitazar  (EXP)
N-nitrosodiethylamine  (EXP)
nickel dichloride  (EXP)
nitrofen  (EXP)
ofloxacin  (ISO)
omeprazole  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
perfluorohexanesulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP)
progesterone  (EXP)
Propiverine  (EXP)
resveratrol  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
sertraline  (ISO)
sodium arsenite  (EXP,ISO)
sotalol  (ISO)
sulfamethoxazole  (ISO)
sulforaphane  (ISO)
tauroursodeoxycholic acid  (EXP)
Tesaglitazar  (EXP)
testosterone  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
thioridazine  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
troglitazone  (EXP)
valdecoxib  (EXP)
valproic acid  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Using Whole Exome Sequencing to Identify Candidate Genes With Rare Variants In Nonsyndromic Cleft Lip and Palate. Aylward A, etal., Genet Epidemiol. 2016 Jul;40(5):432-41. doi: 10.1002/gepi.21972. Epub 2016 May 27.
2. Ataxia with loss of Purkinje cells in a mouse model for Refsum disease. Ferdinandusse S, etal., Proc Natl Acad Sci U S A. 2008 Nov 18;105(46):17712-7. doi: 10.1073/pnas.0806066105. Epub 2008 Nov 11.
3. Further studies on the substrate spectrum of phytanoyl-CoA hydroxylase: implications for Refsum disease? Foulon V, etal., J Lipid Res 2003 Dec;44(12):2349-55. Epub 2003 Aug 16.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Phytanoyl-CoA hydroxylase deficiency. Enzymological and molecular basis of classical Refsum disease. Jansen GA, etal., Adv Exp Med Biol. 1999;466:371-6.
7. Phytanoyl-CoA hydroxylase is present in human liver, located in peroxisomes, and deficient in Zellweger syndrome: direct, unequivocal evidence for the new, revised pathway of phytanic acid alpha-oxidation in humans. Jansen GA, etal., Biochem Biophys Res Commun. 1996 Dec 4;229(1):205-10. doi: 10.1006/bbrc.1996.1781.
8. Phytanoyl-CoA hydroxylase is not only deficient in classical Refsum disease but also in rhizomelic chondrodysplasia punctata. Jansen GA, etal., J Inherit Metab Dis. 1997 Jul;20(3):444-6.
9. Phytanoyl-CoA hydroxylase from rat liver. Protein purification and cDNA cloning with implications for the subcellular localization of phytanic acid alpha-oxidation. Jansen GA, etal., J Lipid Res 1999 Dec;40(12):2244-54.
10. Proteomic analysis of rat liver peroxisome: presence of peroxisome-specific isozyme of Lon protease. Kikuchi M, etal., J Biol Chem. 2004 Jan 2;279(1):421-8. Epub 2003 Oct 15.
11. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
12. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
14. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
15. GOA pipeline RGD automated data pipeline
16. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
18. The subcellular localization of phytanic acid oxidase in rat liver. Skjeldal OH and Stokke O, Biochim Biophys Acta. 1987 Sep 4;921(1):38-42.
19. Isobaric tags for relative and absolute quantitation (iTRAQ)-based proteomics for the investigation of the effect of Hugan Qingzhi on non-alcoholic fatty liver disease in rats. Yao X, etal., J Ethnopharmacol. 2018 Feb 15;212:208-215. doi: 10.1016/j.jep.2017.09.016. Epub 2017 Oct 13.
Additional References at PubMed
PMID:9326939   PMID:9326940   PMID:10744784   PMID:11555634   PMID:12477932   PMID:12915479   PMID:15489334   PMID:16186124   PMID:18614015  


Genomics

Comparative Map Data
Phyh
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81778,238,747 - 78,255,645 (-)NCBIGRCr8
mRatBN7.21773,329,461 - 73,346,359 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1773,329,082 - 73,346,409 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1776,834,020 - 76,851,123 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01780,658,833 - 80,675,645 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01774,709,804 - 74,727,044 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01777,287,580 - 77,304,482 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1777,287,188 - 77,304,530 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01778,953,400 - 78,970,299 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41784,418,173 - 84,435,073 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11784,429,005 - 84,445,906 (-)NCBI
Celera1772,770,062 - 72,786,946 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
PHYH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381013,277,799 - 13,300,064 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1013,277,796 - 13,302,412 (-)EnsemblGRCh38hg38GRCh38
GRCh371013,319,799 - 13,342,064 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361013,359,802 - 13,382,136 (-)NCBINCBI36Build 36hg18NCBI36
Build 341013,359,805 - 13,382,107NCBI
Celera1013,246,935 - 13,269,237 (-)NCBICelera
Cytogenetic Map10p13NCBI
HuRef1013,232,668 - 13,254,996 (-)NCBIHuRef
CHM1_11013,319,709 - 13,342,691 (-)NCBICHM1_1
T2T-CHM13v2.01013,290,862 - 13,313,116 (-)NCBIT2T-CHM13v2.0
Phyh
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3924,923,807 - 4,943,554 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl24,923,830 - 4,943,541 (+)EnsemblGRCm39 Ensembl
GRCm3824,918,996 - 4,938,743 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl24,919,019 - 4,938,730 (+)EnsemblGRCm38mm10GRCm38
MGSCv3724,840,042 - 4,859,789 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3624,836,303 - 4,855,996 (+)NCBIMGSCv36mm8
Celera24,874,084 - 4,893,837 (+)NCBICelera
Cytogenetic Map2A1NCBI
cM Map23.06NCBI
Phyh
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554621,238,622 - 1,250,736 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554621,238,622 - 1,250,731 (-)NCBIChiLan1.0ChiLan1.0
PHYH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2825,798,371 - 25,822,011 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11025,803,696 - 25,826,001 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01013,277,804 - 13,300,115 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11013,250,722 - 13,634,152 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1013,251,223 - 13,636,018 (-)Ensemblpanpan1.1panPan2
LOC478000
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1223,185,901 - 23,206,719 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl223,185,782 - 23,253,497 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha220,243,502 - 20,263,391 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0223,491,323 - 23,512,130 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl223,491,168 - 23,619,903 (+)EnsemblROS_Cfam_1.0 Ensembl
UNSW_CanFamBas_1.0221,525,646 - 21,546,459 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0222,153,837 - 22,174,674 (+)NCBIUU_Cfam_GSD_1.0
PHYH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1048,404,293 - 48,423,973 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11048,404,298 - 48,423,978 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PHYH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1913,309,059 - 13,331,606 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl913,308,951 - 13,331,504 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605118,841,615 - 18,862,691 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Phyh
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248055,801,392 - 5,813,696 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Phyh
109 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:29
Interacting mature miRNAs:34
Transcripts:ENSRNOT00000024362
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
1358295Aocep1Aortic cell protein QTL 16.17e-07thoracic aorta cellular protein amount (VT:0010598)aortic cell percentage174099000585990005Rat
7411575Bw140Body weight QTL 14030.20.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)173747984782479847Rat
631502Cm26Cardiac mass QTL 263.71heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)176570358081153923Rat
1354588Bvd4Brain ventricular dilatation QTL 45.310.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)175349882882479847Rat
7411577Bw141Body weight QTL 1410.001body mass (VT:0001259)body weight gain (CMO:0000420)176261951686533673Rat
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)172840914773409147Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)174992015486533673Rat
724549Niddm56Non-insulin dependent diabetes mellitus QTL 560.03blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)173199078476990784Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174054004180387013Rat
2317045Aia11Adjuvant induced arthritis QTL 114.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)176078142686533673Rat
2317054Aia12Adjuvant induced arthritis QTL 124.24joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)173828150983281509Rat
8694181Bw151Body weight QTL 1514.360.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)172840914773409147Rat
12904736Cm121Cardiac mass QTL 1210.043heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)177177462182479847Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)173455084373951021Rat
2317060Aia26Adjuvant induced arthritis QTL 263.22joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)173828150983281509Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175090909986022412Rat
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)173136839173951021Rat
1300131Bp193Blood pressure QTL 1933.3arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)176364000973951021Rat
7488963Bp369Blood pressure QTL 3690.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)175900564977910000Rat
1300129Rf25Renal function QTL 253.03blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)177100332581153923Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173199078481292925Rat
2302365Gluco40Glucose level QTL 404.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)175724684382046127Rat
2303580Gluco49Glucose level QTL 492blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)175004027186533673Rat

Markers in Region
RH129871  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21773,329,149 - 73,329,343 (+)MAPPERmRatBN7.2
Rnor_6.01777,287,269 - 77,287,462NCBIRnor6.0
Rnor_5.01778,953,089 - 78,953,282UniSTSRnor5.0
RGSC_v3.41784,417,862 - 84,418,055UniSTSRGSC3.4
Celera1772,769,751 - 72,769,944UniSTS
RH 3.4 Map17725.7UniSTS
Cytogenetic Map17q12.3UniSTS
AI256161  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21773,329,308 - 73,329,389 (+)MAPPERmRatBN7.2
Rnor_6.01777,287,428 - 77,287,508NCBIRnor6.0
Rnor_5.01778,953,248 - 78,953,328UniSTSRnor5.0
RGSC_v3.41784,418,021 - 84,418,101UniSTSRGSC3.4
Celera1772,769,910 - 72,769,990UniSTS
Cytogenetic Map17q12.3UniSTS
BE114499  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21773,334,356 - 73,334,526 (+)MAPPERmRatBN7.2
Rnor_6.01777,292,480 - 77,292,649NCBIRnor6.0
Rnor_5.01778,958,298 - 78,958,467UniSTSRnor5.0
RGSC_v3.41784,423,071 - 84,423,240UniSTSRGSC3.4
Celera1772,774,928 - 72,775,097UniSTS
RH 3.4 Map17729.8UniSTS
Cytogenetic Map17q12.3UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000024362   ⟹   ENSRNOP00000024362
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1773,329,082 - 73,346,409 (-)Ensembl
Rnor_6.0 Ensembl1777,287,188 - 77,304,530 (-)Ensembl
RefSeq Acc Id: NM_053674   ⟹   NP_446126
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81778,238,747 - 78,255,645 (-)NCBI
mRatBN7.21773,329,461 - 73,346,359 (-)NCBI
Rnor_6.01777,287,580 - 77,304,482 (-)NCBI
Rnor_5.01778,953,400 - 78,970,299 (-)NCBI
RGSC_v3.41784,418,173 - 84,435,073 (-)RGD
Celera1772,770,062 - 72,786,946 (-)RGD
Sequence:
RefSeq Acc Id: NP_446126   ⟸   NM_053674
- Peptide Label: precursor
- UniProtKB: Q9QY64 (UniProtKB/Swiss-Prot),   P57093 (UniProtKB/Swiss-Prot),   A6JLZ6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000024362   ⟸   ENSRNOT00000024362

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P57093-F1-model_v2 AlphaFold P57093 1-338 view protein structure

Transcriptome

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

Promoters
RGD ID:13700574
Promoter ID:EPDNEW_R11098
Type:multiple initiation site
Name:Phyh_1
Description:phytanoyl-CoA 2-hydroxylase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01777,304,489 - 77,304,549EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620317 AgrOrtholog
BioCyc Gene G2FUF-8687 BioCyc
BioCyc Pathway PWY66-387 [3-methyl-branched fatty acid alpha-oxidation] BioCyc
BioCyc Pathway Image PWY66-387 BioCyc
Ensembl Genes ENSRNOG00000018044 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00055017941 UniProtKB/Swiss-Prot
  ENSRNOG00060009493 UniProtKB/Swiss-Prot
  ENSRNOG00065007769 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000024362.7 UniProtKB/Swiss-Prot
  ENSRNOT00055030387 UniProtKB/Swiss-Prot
  ENSRNOT00060016033 UniProtKB/Swiss-Prot
  ENSRNOT00065012182 UniProtKB/Swiss-Prot
Gene3D-CATH q2cbj1_9rhob like domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7306754 IMAGE-MGC_LOAD
InterPro PhyH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Phytyl_CoA_dOase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:114209 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:105364 IMAGE-MGC_LOAD
NCBI Gene 114209 ENTREZGENE
PANTHER PHYTANOYL-COA ALPHA-HYDROXYLASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PHYTANOYL-COA DIOXYGENASE, PEROXISOMAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PhyH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Phyh PhenoGen
RatGTEx ENSRNOG00000018044 RatGTEx
  ENSRNOG00055017941 RatGTEx
  ENSRNOG00060009493 RatGTEx
  ENSRNOG00065007769 RatGTEx
Superfamily-SCOP Clavaminate synthase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6JLZ6 ENTREZGENE, UniProtKB/TrEMBL
  A6JLZ7_RAT UniProtKB/TrEMBL
  P57093 ENTREZGENE, UniProtKB/Swiss-Prot
  Q9QY64 ENTREZGENE
UniProt Secondary Q9QY64 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-11-06 Phyh  phytanoyl-CoA 2-hydroxylase  Phyh  phytanoyl-CoA hydroxylase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Phyh  phytanoyl-CoA hydroxylase    phytanoyl-CoA hydroxylase (Refsum disease)  Name updated 1299863 APPROVED
2002-08-07 Phyh  phytanoyl-CoA hydroxylase (Refsum disease)      Symbol and Name status set to provisional 70820 PROVISIONAL