Cyp4f4 (cytochrome P450, family 4, subfamily f, polypeptide 4) - Rat Genome Database

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Gene: Cyp4f4 (cytochrome P450, family 4, subfamily f, polypeptide 4) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Cyp4f4
Name: cytochrome P450, family 4, subfamily f, polypeptide 4
RGD ID: 708363
Description: Enables arachidonic acid monooxygenase activity; heme binding activity; and leukotriene-B4 20-monooxygenase activity. Involved in icosanoid catabolic process; omega-hydroxylase P450 pathway; and response to 3-methylcholanthrene. Predicted to be located in endoplasmic reticulum membrane. Biomarker of hypertrophic cardiomyopathy. Orthologous to human CYP4F11 (cytochrome P450 family 4 subfamily F member 11); PARTICIPATES IN arachidonic acid metabolic pathway; INTERACTS WITH (+)-schisandrin B; 1-benzylpiperazine; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CYPIVF4; cytochrome P450 4F4; leukotriene-B4 20-monooxygenase
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8712,367,711 - 12,384,010 (+)NCBIGRCr8
mRatBN7.2711,717,208 - 11,733,507 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl711,717,208 - 11,733,506 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx714,527,006 - 14,543,308 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0716,404,445 - 16,420,747 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0714,284,640 - 14,300,959 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0714,891,062 - 14,907,250 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl714,891,001 - 14,907,305 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0715,045,084 - 15,061,272 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4713,293,080 - 13,309,416 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1713,293,079 - 13,309,415 (+)NCBI
Celera79,816,959 - 9,833,227 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 3-methylcholanthrene and benzo(a)pyrene modulate cardiac cytochrome P450 gene expression and arachidonic acid metabolism in male Sprague Dawley rats. Aboutabl ME, etal., Br J Pharmacol. 2009 Dec;158(7):1808-19. doi: 10.1111/j.1476-5381.2009.00461.x.
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. Protein expression, characterization, and regulation of CYP4F4 and CYP4F5 cloned from rat brain. Kawashima H, etal., Arch Biochem Biophys. 1997 Nov 1;347(1):148-54. doi: 10.1006/abbi.1997.0342.
5. Covalent attachment of the heme prosthetic group in the CYP4F cytochrome P450 family. LeBrun LA, etal., Biochemistry. 2002 May 7;41(18):5931-7.
6. Development of cardiac hypertrophy by sunitinib in vivo and in vitro rat cardiomyocytes is influenced by the aryl hydrocarbon receptor signaling pathway. Maayah ZH, etal., Arch Toxicol. 2014 Mar;88(3):725-38. doi: 10.1007/s00204-013-1159-5. Epub 2013 Nov 19.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. GOA pipeline RGD automated data pipeline
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Catalytic activity and isoform-specific inhibition of rat cytochrome p450 4F enzymes. Xu F, etal., J Pharmacol Exp Ther. 2004 Mar;308(3):887-95. Epub 2003 Nov 21.
Additional References at PubMed
PMID:16182239  


Genomics

Variants

.
Variants in Cyp4f4
69 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:33
Count of miRNA genes:33
Interacting mature miRNAs:33
Transcripts:ENSRNOT00000041034
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
D7Uwm5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2711,716,588 - 11,716,821 (+)MAPPERmRatBN7.2
Rnor_6.0714,890,443 - 14,890,675NCBIRnor6.0
Rnor_5.0715,044,465 - 15,044,697UniSTSRnor5.0
RGSC_v3.4713,292,461 - 13,292,693UniSTSRGSC3.4
RGSC_v3.1713,292,460 - 13,292,693RGD
Celera79,816,340 - 9,816,572UniSTS
Cytogenetic Map7q11UniSTS
RH130999  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2711,733,137 - 11,733,353 (+)MAPPERmRatBN7.2
Rnor_6.0714,906,881 - 14,907,096NCBIRnor6.0
Rnor_5.0715,060,903 - 15,061,118UniSTSRnor5.0
RGSC_v3.4713,309,047 - 13,309,262UniSTSRGSC3.4
Celera79,832,858 - 9,833,073UniSTS
RH 3.4 Map763.7UniSTS
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 27 27 27 1
Low 6 17 10 10 74 14 34 1
Below cutoff 1 16 13 4 13 4 5 5 12 6 10 5

Sequence


RefSeq Acc Id: ENSRNOT00000041034   ⟹   ENSRNOP00000039545
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl711,717,208 - 11,733,506 (+)Ensembl
Rnor_6.0 Ensembl714,891,001 - 14,907,305 (+)Ensembl
RefSeq Acc Id: NM_173123   ⟹   NP_775146
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8712,367,711 - 12,384,010 (+)NCBI
mRatBN7.2711,717,208 - 11,733,507 (+)NCBI
Rnor_6.0714,891,062 - 14,907,250 (+)NCBI
Rnor_5.0715,045,084 - 15,061,272 (+)NCBI
RGSC_v3.4713,293,080 - 13,309,416 (+)RGD
Celera79,816,959 - 9,833,227 (+)RGD
Sequence:
RefSeq Acc Id: XM_063263076   ⟹   XP_063119146
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8712,371,003 - 12,384,010 (+)NCBI
Protein Sequences
Protein RefSeqs NP_775146 (Get FASTA)   NCBI Sequence Viewer  
  XP_063119146 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC52358 (Get FASTA)   NCBI Sequence Viewer  
  EDL89477 (Get FASTA)   NCBI Sequence Viewer  
  EDL89478 (Get FASTA)   NCBI Sequence Viewer  
  EDL89479 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000039545
  ENSRNOP00000039545.4
GenBank Protein P51869 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_775146   ⟸   NM_173123
- UniProtKB: P51869 (UniProtKB/Swiss-Prot),   A6K957 (UniProtKB/TrEMBL),   A0A8L2ULC7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000039545   ⟸   ENSRNOT00000041034
RefSeq Acc Id: XP_063119146   ⟸   XM_063263076
- Peptide Label: isoform X1
- UniProtKB: A6K958 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P51869-F1-model_v2 AlphaFold P51869 1-522 view protein structure

Transcriptome

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

Promoters
RGD ID:13695074
Promoter ID:EPDNEW_R5598
Type:initiation region
Name:Cyp4f4_1
Description:cytochrome P450, family 4, subfamily f, polypeptide 4
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_6.0714,891,045 - 14,891,105EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708363 AgrOrtholog
BioCyc Gene G2FUF-34815 BioCyc
Ensembl Genes ENSRNOG00000032895 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000041034 ENTREZGENE
  ENSRNOT00000041034.5 UniProtKB/TrEMBL
Gene3D-CATH 1.10.630.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Cyt_P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_E_grp-I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:286904 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 286904 ENTREZGENE
PANTHER CYTOCHROME P450 4F2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CYTOCHROME P450 FAMILY 4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam p450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cyp4f4 PhenoGen
PRINTS EP450I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CYTOCHROME_P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000032895 RatGTEx
Superfamily-SCOP SSF48264 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8L2ULC7 ENTREZGENE, UniProtKB/TrEMBL
  A6K957 ENTREZGENE, UniProtKB/TrEMBL
  A6K958 ENTREZGENE, UniProtKB/TrEMBL
  A6K959_RAT UniProtKB/TrEMBL
  CP4F4_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-11-17 Cyp4f4  cytochrome P450, family 4, subfamily f, polypeptide 4    cytochrome P450 4F4  Name updated 1299863 APPROVED
2005-09-30 Cyp4f4        Symbol and Name status set to provisional 70820 PROVISIONAL