Cyp4f6 (cytochrome P450, family 4, subfamily f, polypeptide 6) - Rat Genome Database

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Gene: Cyp4f6 (cytochrome P450, family 4, subfamily f, polypeptide 6) Rattus norvegicus
Analyze
Symbol: Cyp4f6
Name: cytochrome P450, family 4, subfamily f, polypeptide 6
RGD ID: 708365
Description: Predicted to enable aromatase activity; heme binding activity; and iron ion binding activity. Involved in leukotriene metabolic process. Predicted to be located in endoplasmic reticulum membrane; PARTICIPATES IN acetylsalicylic acid pharmacodynamics pathway; antipyrine drug pathway; celecoxib pharmacodynamics pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CYPIVF6; cytochrome P450 4F6; MGC93133
RGD Orthologs
Human
Mouse
Bonobo
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8712,680,799 - 12,708,378 (-)NCBIGRCr8
mRatBN7.2712,030,276 - 12,058,020 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl712,030,301 - 12,057,782 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx714,832,231 - 14,859,422 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0716,709,625 - 16,736,822 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0714,581,184 - 14,616,628 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0715,198,950 - 15,225,547 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl715,198,940 - 15,225,410 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0715,357,382 - 15,384,091 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4713,609,104 - 13,636,290 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1713,609,103 - 13,636,290 (-)NCBI
Celera710,124,364 - 10,153,696 (-)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
(R)-linalyl acetate  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-methylcholanthrene  (EXP)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-terpineol  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-terpineol  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
barium sulfate  (EXP)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP)
bisphenol F  (EXP,ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
chlordecone  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
clofibrate  (EXP,ISO)
clofibric acid  (EXP)
dexamethasone  (EXP)
dibutyl phthalate  (EXP)
flutamide  (ISO)
folic acid  (ISO)
gamma-terpinene  (ISO)
indometacin  (EXP)
isotretinoin  (ISO)
L-ethionine  (EXP)
L-methionine  (ISO)
lead diacetate  (ISO)
limonene  (ISO)
linalool  (ISO)
linalyl acetate  (ISO)
lipopolysaccharide  (ISO)
mercury dichloride  (ISO)
N-nitrosodiethylamine  (ISO)
nefazodone  (EXP)
nickel atom  (ISO)
nimesulide  (EXP)
oleic acid  (ISO)
omeprazole  (EXP)
ozone  (ISO)
pentachlorophenol  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP)
pirinixic acid  (EXP,ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
tea tree oil  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
trichloroethene  (EXP)
triptonide  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Leukotriene B4 omega-side chain hydroxylation by CYP4F5 and CYP4F6. Bylund J, etal., Arch Biochem Biophys 2003 Apr 1;412(1):34-41.
2. 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.
3. cDNA cloning of three new forms of rat brain cytochrome P450 belonging to the CYP4F subfamily. Kawashima H and Strobel HW, Biochem Biophys Res Commun 1995 Dec 26;217(3):1137-44.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. GOA pipeline RGD automated data pipeline
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. 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.
Additional References at PubMed
PMID:16182239   PMID:18847377  


Genomics

Comparative Map Data
Cyp4f6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8712,680,799 - 12,708,378 (-)NCBIGRCr8
mRatBN7.2712,030,276 - 12,058,020 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl712,030,301 - 12,057,782 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx714,832,231 - 14,859,422 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0716,709,625 - 16,736,822 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0714,581,184 - 14,616,628 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0715,198,950 - 15,225,547 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl715,198,940 - 15,225,410 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0715,357,382 - 15,384,091 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4713,609,104 - 13,636,290 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1713,609,103 - 13,636,290 (-)NCBI
Celera710,124,364 - 10,153,696 (-)NCBICelera
Cytogenetic Map7q11NCBI
CYP4F8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381915,615,218 - 15,630,639 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1915,615,218 - 15,630,639 (+)EnsemblGRCh38hg38GRCh38
GRCh371915,726,029 - 15,741,449 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361915,587,029 - 15,601,448 (+)NCBINCBI36Build 36hg18NCBI36
Build 341915,587,424 - 15,601,445NCBI
Celera1915,622,900 - 15,637,357 (+)NCBICelera
Cytogenetic Map19p13.12NCBI
HuRef1915,293,944 - 15,308,502 (+)NCBIHuRef
CHM1_11915,725,525 - 15,739,928 (+)NCBICHM1_1
T2T-CHM13v2.01915,740,324 - 15,755,884 (+)NCBIT2T-CHM13v2.0
Cyp4f16
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391732,755,517 - 32,770,772 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1732,755,532 - 32,770,772 (+)EnsemblGRCm39 Ensembl
GRCm381732,536,545 - 32,551,798 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1732,536,558 - 32,551,798 (+)EnsemblGRCm38mm10GRCm38
MGSCv371732,673,574 - 32,688,742 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361732,271,863 - 32,286,978 (+)NCBIMGSCv36mm8
Celera1733,449,422 - 33,464,593 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.59NCBI
CYP4F8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22020,515,399 - 20,532,215 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11919,518,163 - 19,535,069 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01915,134,029 - 15,150,378 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11916,118,830 - 16,133,182 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1916,118,830 - 16,133,182 (+)Ensemblpanpan1.1panPan2
LOC110255237
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl261,889,495 - 61,917,929 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1261,893,963 - 61,917,944 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CYP4F8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1614,211,899 - 14,229,793 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl614,215,337 - 14,229,509 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660745,268,430 - 5,284,422 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Cyp4f6
337 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:86
Count of miRNA genes:81
Interacting mature miRNAs:83
Transcripts:ENSRNOT00000006335, ENSRNOT00000066095
Prediction methods:Miranda, Rnahybrid
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
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

Markers in Region
BF387205  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2712,035,856 - 12,036,022 (+)MAPPERmRatBN7.2
Rnor_6.0715,203,382 - 15,203,547NCBIRnor6.0
Rnor_5.0715,361,819 - 15,361,984UniSTSRnor5.0
RGSC_v3.4713,613,443 - 13,613,608UniSTSRGSC3.4
Celera710,131,067 - 10,131,232UniSTS
RH 3.4 Map766.5UniSTS
Cytogenetic Map7q11UniSTS
RH138059  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2712,051,081 - 12,051,281 (+)MAPPERmRatBN7.2
Rnor_6.0715,218,609 - 15,218,808NCBIRnor6.0
Rnor_5.0715,377,301 - 15,377,500UniSTSRnor5.0
RGSC_v3.4713,629,500 - 13,629,699UniSTSRGSC3.4
Celera710,146,902 - 10,147,101UniSTS
RH 3.4 Map755.8UniSTS
Cytogenetic Map7q11UniSTS


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 26 36 35 1 35 2 16 35 31 9
Low 17 21 6 18 6 8 9 58 9 2 8
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000066095   ⟹   ENSRNOP00000059924
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl712,030,301 - 12,057,782 (-)Ensembl
Rnor_6.0 Ensembl715,198,940 - 15,225,410 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000075589   ⟹   ENSRNOP00000067362
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl715,198,967 - 15,225,309 (-)Ensembl
RefSeq Acc Id: NM_153318   ⟹   NP_695230
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8712,680,799 - 12,708,378 (-)NCBI
mRatBN7.2712,030,294 - 12,057,872 (-)NCBI
Rnor_6.0715,198,968 - 15,225,399 (-)NCBI
Rnor_5.0715,357,382 - 15,384,091 (-)NCBI
RGSC_v3.4713,609,104 - 13,636,290 (-)RGD
Celera710,124,364 - 10,153,696 (-)RGD
Sequence:
RefSeq Acc Id: XM_006241049   ⟹   XP_006241111
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8712,680,799 - 12,708,317 (-)NCBI
mRatBN7.2712,030,276 - 12,057,718 (-)NCBI
Rnor_6.0715,198,950 - 15,225,272 (-)NCBI
Rnor_5.0715,357,382 - 15,384,091 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063263069   ⟹   XP_063119139
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8712,680,799 - 12,702,077 (-)NCBI
Protein Sequences
Protein RefSeqs NP_695230 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241111 (Get FASTA)   NCBI Sequence Viewer  
  XP_063119139 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC52360 (Get FASTA)   NCBI Sequence Viewer  
  AAH78713 (Get FASTA)   NCBI Sequence Viewer  
  EDL89493 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000059924
  ENSRNOP00000059924.4
GenBank Protein P51871 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_695230   ⟸   NM_153318
- UniProtKB: P51871 (UniProtKB/Swiss-Prot),   A6K973 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241111   ⟸   XM_006241049
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QSB3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067362   ⟸   ENSRNOT00000075589
RefSeq Acc Id: ENSRNOP00000059924   ⟸   ENSRNOT00000066095
RefSeq Acc Id: XP_063119139   ⟸   XM_063263069
- Peptide Label: isoform X2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P51871-F1-model_v2 AlphaFold P51871 1-537 view protein structure

Transcriptome

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

Promoters
RGD ID:13695085
Promoter ID:EPDNEW_R5600
Type:initiation region
Name:Cyp4f6_1
Description:cytochrome P450, family 4, subfamily f, polypeptide 6
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_6.0715,225,340 - 15,225,400EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708365 AgrOrtholog
BioCyc Gene G2FUF-34798 BioCyc
Ensembl Genes ENSRNOG00000043233 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000066095.4 UniProtKB/TrEMBL
Gene3D-CATH 1.10.630.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7107801 IMAGE-MGC_LOAD
InterPro Cyt_P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_E_grp-IV UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:266689 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93133 IMAGE-MGC_LOAD
NCBI Gene 266689 ENTREZGENE
PANTHER CYTOCHROME P450 CYP4F13 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CYTOCHROME P450 FAMILY 4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam p450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB CYP4F2 RGD
PhenoGen Cyp4f6 PhenoGen
PRINTS EP450IV UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CYTOCHROME_P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000043233 RatGTEx
Superfamily-SCOP SSF48264 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8L2QSB3 ENTREZGENE, UniProtKB/TrEMBL
  A6K973 ENTREZGENE, UniProtKB/TrEMBL
  CP4F6_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6AZ67_RAT UniProtKB/TrEMBL
UniProt Secondary M0RCN7 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-04-19 Cyp4f6  cytochrome P450, family 4, subfamily f, polypeptide 6  Cyp4f6  cytochrome P450 4F6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-09-30 Cyp4f6        Symbol and Name status set to provisional 70820 PROVISIONAL