Pah (phenylalanine hydroxylase) - Rat Genome Database

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Gene: Pah (phenylalanine hydroxylase) Rattus norvegicus
Analyze
Symbol: Pah
Name: phenylalanine hydroxylase
RGD ID: 3248
Description: Enables several functions, including identical protein binding activity; iron ion binding activity; and phenylalanine 4-monooxygenase activity. Involved in L-phenylalanine metabolic process; protein hydroxylation; and tyrosine biosynthetic process, by oxidation of phenylalanine. Human ortholog(s) of this gene implicated in intellectual disability and phenylketonuria. Orthologous to human PAH (phenylalanine hydroxylase); PARTICIPATES IN phenylketonuria pathway; tyrosinemia type II pathway; tyrosinemia type III pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: phe-4-monooxygenase; phenylalanine-4-hydroxylase
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2721,933,179 - 21,998,134 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl721,933,179 - 21,998,130 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx723,927,881 - 23,992,835 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0726,090,559 - 26,155,515 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0725,867,639 - 25,932,579 (+)NCBIRnor_WKY
Rnor_6.0728,066,639 - 28,129,772 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl728,066,635 - 28,129,769 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0728,180,707 - 28,245,428 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4724,175,898 - 24,243,592 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1724,196,183 - 24,263,859 (+)NCBI
Celera719,108,301 - 19,168,259 (+)NCBICelera
RH 3.4 Map7119.56RGD
Cytogenetic Map7q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(R)-lipoic acid  (ISO)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-methylcholanthrene  (ISO)
4-hydroxy-TEMPO  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
ammonium chloride  (EXP)
astaxanthin  (ISO)
atazanavir sulfate  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[k]fluoranthene  (ISO)
beta-naphthoflavone  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
carbon nanotube  (ISO)
chenodeoxycholic acid  (ISO)
chrysene  (ISO)
ciprofibrate  (ISO)
clofibric acid  (EXP)
cobalt dichloride  (EXP)
coenzyme Q10  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
deoxycholic acid  (ISO)
dibenz[a,h]anthracene  (ISO)
dorsomorphin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
fenthion  (ISO)
flutamide  (EXP)
glafenine  (EXP)
glycidol  (EXP)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
iodide salt  (EXP)
kojic acid  (ISO)
lipoic acid  (ISO)
lycopene  (ISO)
lysophosphatidylcholine  (ISO)
methapyrilene  (EXP)
methidathion  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-ethylmaleimide  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosomorpholine  (EXP)
naphthalene  (ISO)
nefazodone  (ISO)
nitrofen  (EXP)
O-acetyl-L-carnitine  (ISO)
O-methyleugenol  (ISO)
paracetamol  (EXP,ISO)
perfluorononanoic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
phenanthrene  (ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
S-methylcysteine  (ISO)
SB 431542  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
streptozocin  (EXP)
Sunset Yellow FCF  (ISO)
tartrazine  (ISO)
tauroursodeoxycholic acid  (EXP)
Tesaglitazar  (EXP)
tetrachloromethane  (EXP,ISO)
tetracycline  (ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichloroethene  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Isolation and sequence of a cDNA clone which contains the complete coding region of rat phenylalanine hydroxylase. Structural homology with tyrosine hydroxylase, glucocorticoid regulation, and use of alternate polyadenylation sites. Dahl HH and Mercer JF, J Biol Chem 1986 Mar 25;261(9):4148-53.
2. An amino-acid substitution involved in phenylketonuria is in linkage disequilibrium with DNA haplotype 2. DiLella AG, etal., Nature 1987 May 28-Jun 3;327(6120):333-6.
3. PKU mutation G46S is associated with increased aggregation and degradation of the phenylalanine hydroxylase enzyme. Eiken HG, etal., Hum Mutat. 1996;7(3):228-38.
4. Updated listing of haplotypes at the human phenylalanine hydroxylase (PAH) locus. Eisensmith RC and Woo SL, Am J Hum Genet. 1992 Dec;51(6):1445-8.
5. 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.
6. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
7. Impact of the phenylalanine hydroxylase gene on maternal phenylketonuria outcome. Guttler F, etal., Pediatrics. 2003 Dec;112(6 Pt 2):1530-3.
8. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
9. Structural basis of autoregulation of phenylalanine hydroxylase. Kobe B, etal., Nat Struct Biol. 1999 May;6(5):442-8.
10. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
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. Insights into the catalytic mechanisms of phenylalanine and tryptophan hydroxylase from kinetic isotope effects on aromatic hydroxylation. Pavon JA and Fitzpatrick PF, Biochemistry. 2006 Sep 12;45(36):11030-7.
15. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
16. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
17. Sequence analysis of the rat phenylalanine hydroxylase gene promoter. Rees D, etal., DNA Seq 2001;12(3):191-5.
18. GOA pipeline RGD automated data pipeline
19. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
20. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
21. The PAH gene, phenylketonuria, and a paradigm shift. Scriver CR Hum Mutat. 2007 Apr 18;.
22. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
23. Contrasting effects of N5-substituted tetrahydrobiopterin derivatives on phenylalanine hydroxylase, dihydropteridine reductase and nitric oxide synthase. Werner ER, etal., Biochem J. 2000 Jun 15;348 Pt 3:579-83.
Additional References at PubMed
PMID:2308957   PMID:6098294   PMID:7387651   PMID:9642259   PMID:18477464   PMID:20667834   PMID:20951114   PMID:23296088   PMID:23376485   PMID:23537590   PMID:25453233   PMID:26252467  
PMID:26823465   PMID:26884182   PMID:27145334   PMID:31904090   PMID:33221376  


Genomics

Comparative Map Data
Pah
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2721,933,179 - 21,998,134 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl721,933,179 - 21,998,130 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx723,927,881 - 23,992,835 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0726,090,559 - 26,155,515 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0725,867,639 - 25,932,579 (+)NCBIRnor_WKY
Rnor_6.0728,066,639 - 28,129,772 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl728,066,635 - 28,129,769 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0728,180,707 - 28,245,428 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4724,175,898 - 24,243,592 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1724,196,183 - 24,263,859 (+)NCBI
Celera719,108,301 - 19,168,259 (+)NCBICelera
RH 3.4 Map7119.56RGD
Cytogenetic Map7q13NCBI
PAH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812102,836,889 - 102,958,441 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl12102,836,889 - 102,958,410 (-)EnsemblGRCh38hg38GRCh38
GRCh3712103,230,667 - 103,352,219 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612101,756,234 - 101,835,511 (-)NCBINCBI36Build 36hg18NCBI36
Build 3412101,734,570 - 101,813,848NCBI
Celera12102,896,051 - 102,975,653 (-)NCBICelera
Cytogenetic Map12q23.2NCBI
HuRef12100,291,597 - 100,370,682 (-)NCBIHuRef
CHM1_112103,199,004 - 103,278,175 (-)NCBICHM1_1
T2T-CHM13v2.012102,797,868 - 102,919,265 (-)NCBIT2T-CHM13v2.0
Pah
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391087,357,657 - 87,419,999 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1087,357,657 - 87,419,998 (+)EnsemblGRCm39 Ensembl
GRCm381087,521,795 - 87,584,137 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1087,521,795 - 87,584,136 (+)EnsemblGRCm38mm10GRCm38
MGSCv371086,984,540 - 87,046,882 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361086,951,768 - 87,013,930 (+)NCBIMGSCv36mm8
Celera1089,475,828 - 89,562,695 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1043.64NCBI
Pah
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540537,846,354 - 37,909,457 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540537,848,486 - 37,909,163 (-)NCBIChiLan1.0ChiLan1.0
PAH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.112103,811,761 - 103,891,726 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12103,811,761 - 103,891,726 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v012100,417,267 - 100,496,888 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PAH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11541,590,253 - 41,670,156 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1541,592,876 - 41,670,837 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1541,957,869 - 42,038,236 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01542,245,356 - 42,325,951 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1542,247,178 - 42,350,533 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11541,514,955 - 41,595,406 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01541,612,701 - 41,693,246 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01541,882,259 - 41,962,824 (-)NCBIUU_Cfam_GSD_1.0
Pah
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494518,306,664 - 18,401,497 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493649211,342,566 - 11,412,323 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PAH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl581,385,435 - 81,463,451 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1581,385,401 - 81,460,569 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2585,200,848 - 85,228,826 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PAH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11198,065,869 - 98,140,011 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1198,063,199 - 98,139,285 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037146,870,938 - 146,945,036 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pah
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247505,527,638 - 5,601,964 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247505,527,720 - 5,598,173 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
D7Rat225  
Rat AssemblyChrPosition (strand)SourceJBrowse
RGSC_v3.4724,202,793 - 24,202,995RGDRGSC3.4
RGSC_v3.4724,202,794 - 24,202,995UniSTSRGSC3.4
RGSC_v3.1724,223,064 - 24,223,266RGD
FHH x ACI Map75.9499RGD
FHH x ACI Map75.9499UniSTS
Cytogenetic Map7q13UniSTS
RH127306  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2721,997,836 - 21,998,049 (+)MAPPERmRatBN7.2
Rnor_6.0728,129,475 - 28,129,687NCBIRnor6.0
Rnor_5.0728,245,131 - 28,245,343UniSTSRnor5.0
RGSC_v3.4724,243,295 - 24,243,507UniSTSRGSC3.4
Celera719,167,962 - 19,168,174UniSTS
RH 3.4 Map7120.2UniSTS
Cytogenetic Map7q13UniSTS
RH94480  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2721,997,931 - 21,998,095 (+)MAPPERmRatBN7.2
Rnor_6.0728,129,570 - 28,129,733NCBIRnor6.0
Rnor_5.0728,245,226 - 28,245,389UniSTSRnor5.0
RGSC_v3.4724,243,390 - 24,243,553UniSTSRGSC3.4
Celera719,168,057 - 19,168,220UniSTS
RH 3.4 Map7119.56UniSTS
Cytogenetic Map7q13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71557388960573889Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
2317059Aia15Adjuvant induced arthritis QTL 152.46joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)71700459862004598Rat
10755451Coatc11Coat color QTL 110coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71794435762944357Rat
70207Niddm31Non-insulin dependent diabetes mellitus QTL 313.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)71816950526029351Rat
61369Mcs2Mammary carcinoma susceptibility QTL 23.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)71903280735526300Rat
1354637Scl30Serum cholesterol level QTL 303.7blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)71965431749753746Rat
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)71965431749753746Rat
1354639Spl5Serum phospholipid level QTL 53.9blood LDL phospholipid amount (VT:0010505)blood low density lipoprotein phospholipid level (CMO:0001568)71965431752888450Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)72055570529891047Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:58
Count of miRNA genes:43
Interacting mature miRNAs:54
Transcripts:ENSRNOT00000005844
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.


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 4 4 4
Medium 29 29 29 29 6 1
Low 6 24 8 16 8 7 7 45 2 13 7 7
Below cutoff 2 2 1 1 3 29 2 20 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000005844   ⟹   ENSRNOP00000005844
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl721,933,179 - 21,998,128 (+)Ensembl
Rnor_6.0 Ensembl728,066,635 - 28,129,769 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000100186   ⟹   ENSRNOP00000095431
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl721,933,179 - 21,998,128 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118112   ⟹   ENSRNOP00000085873
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl721,935,914 - 21,998,130 (+)Ensembl
RefSeq Acc Id: NM_012619   ⟹   NP_036751
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2721,933,179 - 21,998,134 (+)NCBI
Rnor_6.0728,066,639 - 28,129,772 (+)NCBI
Rnor_5.0728,180,707 - 28,245,428 (+)NCBI
RGSC_v3.4724,175,898 - 24,243,592 (+)RGD
Celera719,108,301 - 19,168,259 (+)RGD
Sequence:
RefSeq Acc Id: XM_039078417   ⟹   XP_038934345
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2721,956,566 - 21,998,134 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_036751   ⟸   NM_012619
- UniProtKB: Q6AYW2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000005844   ⟸   ENSRNOT00000005844
RefSeq Acc Id: XP_038934345   ⟸   XM_039078417
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000095431   ⟸   ENSRNOT00000100186
RefSeq Acc Id: ENSRNOP00000085873   ⟸   ENSRNOT00000118112
Protein Domains
ACT   BH4_AAA_HYDROXYL_2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P04176-F1-model_v2 AlphaFold P04176 1-453 view protein structure

Transcriptome

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

Promoters
RGD ID:13695119
Promoter ID:EPDNEW_R5644
Type:initiation region
Name:Pah_1
Description:phenylalanine 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_6.0728,066,609 - 28,066,669EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3248 AgrOrtholog
BioCyc Gene G2FUF-34528 BioCyc
BioCyc Pathway PHENYLALANINE-DEG1-PWY [L-phenylalanine degradation I (aerobic)] BioCyc
  PWY-6134 [L-tyrosine biosynthesis IV] BioCyc
Ensembl Genes ENSRNOG00000004302 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000005844 ENTREZGENE
  ENSRNOP00000005844.4 UniProtKB/TrEMBL
  ENSRNOP00000085873.1 UniProtKB/TrEMBL
  ENSRNOP00000095431.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005844 ENTREZGENE
  ENSRNOT00000005844.8 UniProtKB/TrEMBL
  ENSRNOT00000100186.1 UniProtKB/TrEMBL
  ENSRNOT00000118112.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.800.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7131414 IMAGE-MGC_LOAD
InterPro ACT-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ACT_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ArAA_hydroxylase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ArAA_hydroxylase_Fe/CU_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ArAA_hydroxylase_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Aro-AA_hydroxylase_C_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Aromatic-AA_hydroxylase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Euk_PheOH_cat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Phe-4-hydroxylase_tetra UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyrosine_3-monooxygenase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24616 UniProtKB/TrEMBL
MGC_CLONE MGC:93567 IMAGE-MGC_LOAD
NCBI Gene 24616 ENTREZGENE
PANTHER PTHR11473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam ACT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Biopterin_H UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PAH RGD
PhenoGen Pah PhenoGen
PIRSF PIRSF000336 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS FYWHYDRXLASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ACT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BH4_AAA_HYDROXYL_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BH4_AAA_HYDROXYL_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF55021 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56534 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs Phe4hydrox_tetr UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A4T0_RAT UniProtKB/TrEMBL
  A0A8I6ANH3_RAT UniProtKB/TrEMBL
  P04176 ENTREZGENE, UniProtKB/Swiss-Prot
  Q6AYW2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Pah  Phenylalanine hydroxylase      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression enriched in liver; present in kidney 633729
gene_protein 452 amino acids; 51.6 kDa 633729