Phyh (phytanoyl-CoA 2-hydroxylase) - Rat Genome Database

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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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81778,238,747 - 78,255,645 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1778,238,747 - 78,255,645 (-)EnsemblGRCr8
mRatBN7.21773,329,461 - 73,346,359 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1773,329,082 - 73,346,409 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1776,834,020 - 76,851,123 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01780,658,833 - 80,675,645 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01774,709,804 - 74,727,044 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01777,287,580 - 77,304,482 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1777,287,188 - 77,304,530 (-)Ensemblrn6Rnor6.0
Rnor_5.01778,953,400 - 78,970,299 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41784,418,173 - 84,435,073 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1772,770,062 - 72,786,946 (-)NCBICelera
RGSC_v3.11784,429,005 - 84,445,906 (-)NCBI
Cytogenetic Map17q12.3NCBI
JBrowse:




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)
4,4'-sulfonyldiphenol  (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)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Butylbenzyl phthalate  (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)
GSK-J4  (ISO)
indometacin  (EXP)
ivermectin  (ISO)
L-ethionine  (EXP)
methapyrilene  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
Muraglitazar  (EXP)
N-nitrosodiethylamine  (EXP)
nickel dichloride  (EXP)
nitrates  (ISO)
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
9+0 non-motile cilium  (IEA,ISO)
peroxisome  (IDA,IEA,ISO)

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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1778,238,747 - 78,255,645 (-)EnsemblGRCr8
mRatBN7.21773,329,461 - 73,346,359 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1773,329,082 - 73,346,409 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1776,834,020 - 76,851,123 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01780,658,833 - 80,675,645 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01774,709,804 - 74,727,044 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01777,287,580 - 77,304,482 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1777,287,188 - 77,304,530 (-)Ensemblrn6Rnor6.0
Rnor_5.01778,953,400 - 78,970,299 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41784,418,173 - 84,435,073 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1772,770,062 - 72,786,946 (-)NCBICelera
RGSC_v3.11784,429,005 - 84,445,906 (-)NCBI
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 (-)Ensemblhg38GRCh38
GRCh371013,319,799 - 13,342,064 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361013,359,802 - 13,382,136 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm3824,918,996 - 4,938,743 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl24,919,019 - 4,938,730 (+)Ensemblmm10GRCm38
MGSCv3724,840,042 - 4,859,789 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (-)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha220,243,502 - 20,263,391 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0223,491,323 - 23,512,130 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_Cfam_GSD_1.0
PHYH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1048,404,293 - 48,423,973 (+)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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 1.0HetGla 1.0hetGla2
Phyh
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11411,282,374 - 11,300,737 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Phyh
87 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
152023626Bp403Blood pressure QTL 4033.86arterial blood pressure trait (VT:2000000)172413612784432719Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)174238816487388164Rat
631502Cm26Cardiac mass QTL 263.71heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)177061350286062352Rat
1354588Bvd4Brain ventricular dilatation QTL 45.310.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)175819406487388164Rat
1354654Spl7Serum phospholipid level QTL 75.5blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)173803135483031354Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)175482950393515804Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174096801789341781Rat
1581512Cm55Cardiac mass QTL 552.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172723344583975845Rat
1354629Scl31Serum cholesterol level QTL 314.1blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)173803135483031354Rat
152025238Slep14Serum leptin concentration QTL 144.62blood leptin amount (VT:0005667)172439059584432719Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)173803135483031354Rat
61466Niddm12Non-insulin dependent diabetes mellitus QTL 123.20.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)176515487293515804Rat
1354635Bp245Blood pressure QTL 2456arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)173803135483031354Rat
12904736Cm121Cardiac mass QTL 1210.043heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)174238816487388164Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)174605012691050126Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175560459793006569Rat
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)174265489587654895Rat
1354619Bp242Blood pressure QTL 2426.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)173768787782687877Rat
1300131Bp193Blood pressure QTL 1933.3arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)176855004093515804Rat
7488963Bp369Blood pressure QTL 3690.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)176369714782818564Rat
1300129Rf25Renal function QTL 253.03blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)174106235286062352Rat
152023740Bp406Blood pressure QTL 4066.06arterial blood pressure trait (VT:2000000)172413612784432719Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173219953486201342Rat
152023737Bp405Blood pressure QTL 4055.06arterial blood pressure trait (VT:2000000)2413612784432719Rat
152023736Bp404Blood pressure QTL 4043.78arterial blood pressure trait (VT:2000000)172413612784432719Rat
724528Uae4Urinary albumin excretion QTL 44.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)173604553781045537Rat
2302365Gluco40Glucose level QTL 404.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)176456982086954580Rat

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
GRCr81778,238,595 - 78,238,675 (+)Marker Load Pipeline
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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 91 59 6 355 191 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000024362   ⟹   ENSRNOP00000024362
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1778,238,747 - 78,255,645 (-)Ensembl
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:
Protein Sequences
Protein RefSeqs NP_446126 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF15971 (Get FASTA)   NCBI Sequence Viewer  
  AAH86573 (Get FASTA)   NCBI Sequence Viewer  
  EDL78672 (Get FASTA)   NCBI Sequence Viewer  
  EDL78673 (Get FASTA)   NCBI Sequence Viewer  
  EDL78674 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024362
  ENSRNOP00000024362.3
GenBank Protein P57093 (Get FASTA)   NCBI Sequence Viewer  
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, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000024362 ENTREZGENE
  ENSRNOT00000024362.7 UniProtKB/Swiss-Prot
Gene3D-CATH q2cbj1_9rhob like domain UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7306754 IMAGE-MGC_LOAD
InterPro PhyH UniProtKB/Swiss-Prot
  Phytyl_CoA_dOase UniProtKB/Swiss-Prot
KEGG Report rno:114209 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105364 IMAGE-MGC_LOAD
NCBI Gene 114209 ENTREZGENE
PANTHER PHYTANOYL-COA ALPHA-HYDROXYLASE UniProtKB/Swiss-Prot
  PHYTANOYL-COA DIOXYGENASE, PEROXISOMAL UniProtKB/Swiss-Prot
Pfam PhyH UniProtKB/Swiss-Prot
PhenoGen Phyh PhenoGen
RatGTEx ENSRNOG00000018044 RatGTEx
Superfamily-SCOP Clavaminate synthase-like UniProtKB/Swiss-Prot
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