Cyp4f39 (cytochrome P450, family 4, subfamily f, polypeptide 39) - Rat Genome Database

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Gene: Cyp4f39 (cytochrome P450, family 4, subfamily f, polypeptide 39) Mus musculus
Analyze
Symbol: Cyp4f39
Name: cytochrome P450, family 4, subfamily f, polypeptide 39
RGD ID: 1318775
MGI Page MGI
Description: Predicted to enable monooxygenase activity. Predicted to be involved in ceramide biosynthetic process. Predicted to be active in endoplasmic reticulum membrane. Is expressed in skin. Human ortholog(s) of this gene implicated in autosomal recessive congenital ichthyosis 5. Orthologous to human CYP4F22 (cytochrome P450 family 4 subfamily F member 22).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 4732474A20Rik; cytochrome P450, family 2, subfamily E, polypeptide 2 homolog
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391732,671,670 - 32,712,294 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1732,671,697 - 32,712,294 (+)EnsemblGRCm39 Ensembl
GRCm381732,452,697 - 32,493,320 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1732,452,723 - 32,493,320 (+)EnsemblGRCm38mm10GRCm38
MGSCv371732,589,668 - 32,630,265 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361732,186,858 - 32,228,975 (+)NCBIMGSCv36mm8
Celera1733,365,223 - 33,405,906 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.59NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21873635   PMID:28369476   PMID:31356814   PMID:32252890   PMID:34113821  
PMID:34813948   PMID:37965138   PMID:38355793  


Genomics

Comparative Map Data
Cyp4f39
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391732,671,670 - 32,712,294 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1732,671,697 - 32,712,294 (+)EnsemblGRCm39 Ensembl
GRCm381732,452,697 - 32,493,320 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1732,452,723 - 32,493,320 (+)EnsemblGRCm38mm10GRCm38
MGSCv371732,589,668 - 32,630,265 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361732,186,858 - 32,228,975 (+)NCBIMGSCv36mm8
Celera1733,365,223 - 33,405,906 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.59NCBI
CYP4F22
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381915,508,525 - 15,552,317 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1915,508,525 - 15,552,317 (+)EnsemblGRCh38hg38GRCh38
GRCh371915,619,336 - 15,663,128 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361915,480,336 - 15,524,128 (+)NCBINCBI36Build 36hg18NCBI36
Celera1915,516,166 - 15,559,962 (+)NCBICelera
Cytogenetic Map19p13.12NCBI
HuRef1915,187,100 - 15,231,018 (+)NCBIHuRef
CHM1_11915,618,891 - 15,662,706 (+)NCBICHM1_1
T2T-CHM13v2.01915,633,518 - 15,677,350 (+)NCBIT2T-CHM13v2.0
Cyp4f39
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8712,082,821 - 12,156,076 (+)NCBIGRCr8
mRatBN7.2711,426,806 - 11,505,553 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl711,433,371 - 11,536,181 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx714,251,894 - 14,323,993 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0716,129,316 - 16,201,419 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0714,000,774 - 14,072,946 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0714,435,024 - 14,514,960 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl714,441,476 - 14,515,212 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0714,587,896 - 14,667,766 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4713,036,890 - 13,080,180 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1713,051,713 - 13,080,180 (+)NCBI
Celera79,536,310 - 9,614,458 (+)NCBICelera
Cytogenetic Map7q11NCBI
LOC102004294
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554957,730,826 - 7,763,684 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554957,730,881 - 7,763,684 (-)NCBIChiLan1.0ChiLan1.0
CYP4F22
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22020,421,050 - 20,465,612 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11919,423,808 - 19,468,366 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01915,039,212 - 15,083,771 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11916,024,339 - 16,068,490 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1916,041,583 - 16,068,490 (+)Ensemblpanpan1.1panPan2
CYP4F22
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12046,674,580 - 46,743,183 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2046,458,620 - 46,705,789 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2046,522,329 - 46,590,674 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02047,161,362 - 47,229,749 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12046,396,281 - 46,464,620 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02046,812,935 - 46,881,278 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02047,085,714 - 47,154,773 (-)NCBIUU_Cfam_GSD_1.0
LOC101977389
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118205,438,437 - 205,469,009 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365964,984,831 - 5,006,622 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365964,987,577 - 5,006,459 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CYP4F22
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl262,081,269 - 62,110,899 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1262,078,403 - 62,110,891 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2261,596,927 - 61,626,506 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CYP4F22
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1614,111,406 - 14,153,617 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl614,126,086 - 14,152,447 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660745,345,276 - 5,393,850 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101706763
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249012,597,093 - 2,619,115 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249012,596,387 - 2,619,965 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cyp4f39
1725 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:196
Count of miRNA genes:187
Interacting mature miRNAs:193
Transcripts:ENSMUST00000003413
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10045977Tir9_mtrypanosome infection response 9 (mouse)Not determined172787811943885114Mouse
1302038Radpf1_mradiation pulmonary fibrosis 1 (mouse)Not determined171683545533819843Mouse
1300890Bhr3_mbronchial hyperresponsiveness 3 (mouse)Not determined17397489048866091Mouse
11075105Modc1_mmodifier of Odc1 (mouse)172771579245622654Mouse
1300995Fembrs4_mfemur breaking strength 4 (mouse)Not determined171506165249061760Mouse
15039348Nmrs37_mNAFLD-associated magnetic resonance shift 37 (mouse)172781520961815209Mouse
4141357Mrdq1_mmodifier of retinal degeneration QTL 1 (mouse)Not determined3098790348039703Mouse
1302152Skull25_mskull morphology 25 (mouse)Not determined171681972150819843Mouse
1302028Asbb3_mautoimmune susceptibility in C57BL/6J and BALB/c 3 (mouse)Not determined171087811944878219Mouse
15039354Nmrs36_mNAFLD-associated magnetic resonance shift 36 (mouse)171914502553145025Mouse
4141215Mnic1_mmacronutrient intake, carbohydrate 1 (mouse)Not determined485475245670266Mouse
1300787Cd8mts5_mCD8 memory T cell subset 5 (mouse)Not determined17858491442585149Mouse
13524847Asrq8a_macoustic startle response 8a (mouse)171264696146646961Mouse
1300914Pcir4_mperiosteal circumference 4 (mouse)Not determined171506165249061760Mouse
13452396Leusq3_mleucocytosis susceptibility QTL 3 (mouse)171746220851462345Mouse
13452399Leusq6_mleucocytosis susceptibility QTL 6 (mouse)171746220851462345Mouse
1300535Char3_mP. chabaudi malaria resistance QTL 3 (mouse)Not determined171746220851462345Mouse
4140955Plgr1_mplague resistance locus 1 (mouse)Not determined3103350065033630Mouse
1302070Tbbmd7_mtotal body bone mineral density 7 (mouse)Not determined171506165249061760Mouse
10412214Sxbq3_mSGC/Knj cross B6 QTL 3 (mouse)Not determined171746220851462345Mouse
10412083Sm2_msusceptibility to Schistosoma mansoni infection 2 (mouse)Not determined171702994351030078Mouse
10412204Bbaa29_mB.burgdorferi-associated arthritis 29 (mouse)Not determined172605118560051352Mouse
10043949Pbft7_mpercent body fat 7 (mouse)Not determined17689393640893936Mouse
4141067Hbnr2_mHeligmosomoides bakeri nematode resistance 2 (mouse)Not determined1188597145886119Mouse
12904946Tammq8_mtibialis anterior muscle mass QTL 8 (mouse)171245178746451787Mouse
10412198Sst5_msusceptibility to tuberculosis 5 (mouse)Not determined172507658355712970Mouse
4142342Lfnq4_mlung function QTL 4 (mouse)Not determined1120648439364059Mouse
10412196Bbaa28_mB.burgdorferi-associated arthritis 28 (mouse)Not determined172558491443976235Mouse
1301935Skull24_mskull morphology 24 (mouse)Not determined17858491442585149Mouse
1301331Lbw1_mlupus NZB x NZW 1 (mouse)Not determined171841835752420983Mouse
1301840Ssial4_msusceptibility to sialadenitiss 4 (mouse)Not determined171817541252178214Mouse
1300692Blmpf1_mbleomycin-induced pulmonary fibrosis 1 (mouse)Not determined173206165237644775Mouse
1357789Kdnw3_mkidney weight 3 (mouse)Not determined17485475247885665Mouse
1301338Lmr1_mleishmaniasis resistance 1 (mouse)Not determined171008134086996400Mouse
1300703Uvbi2_mUVB induced immunosuppression 2 (mouse)Not determined172862240662622654Mouse
11038694Pas19_mpulmonary adenoma susceptibility 19 (mouse)172971116434754437Mouse
1301056Pas2_mpulmonary adenoma susceptibility 2 (mouse)Not determined171842214152424327Mouse
1301454Eae5_msusceptibility to experimental allergic encephalomyelitis 5 (mouse)Not determined172461275058612864Mouse
14747010Mancz14_mmandible centroid size 14 (mouse)171199818445998184Mouse
1302005Loco2_mlocomotor activity 2 (mouse)Not determined172688497260885114Mouse
4141272Tfv1_mtotal food volume 1 (mouse)Not determined485475265637357Mouse
1300602Eye2_meye weight 2 (mouse)Not determined172650533741105037Mouse
25394538Skmw84_mskeletal muscle weight 84, TA (mouse)173266042635520036Mouse
10412276Leci2_mleukocyte endothelial cell interactions 2 (mouse)Not determined17334817537348299Mouse
1302140Wta4_mweight adult 4 (mouse)Not determined171681972150819843Mouse
1300706Alan1_malloantigen response 1 (mouse)Not determined17485475246469702Mouse
1558886Lgth9_mbody length 9 (mouse)Not determined171506165249061760Mouse
1558758Kcal2_mkilocalorie 2 (mouse)Not determined172640101252911704Mouse
4142150Stheal11_msoft tissue heal 11 (mouse)Not determined171228621183361768Mouse
11081168Tir7_mtrypanosome infection response 7 (mouse)171412337248123496Mouse
1300589Myaa2_mmodifier of Yaa 2 (mouse)Not determined173013255564132666Mouse

Markers in Region
stSG602247  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv371122,104,309 - 22,104,693UniSTSGRCm37
MGSCv371732,592,836 - 32,593,330UniSTSGRCm37
Celera1733,368,391 - 33,368,881UniSTS
Celera1124,345,530 - 24,345,914UniSTS
Celera252,796,933 - 52,797,216UniSTS
Celera2182,923,330 - 182,924,381UniSTS


Sequence


Ensembl Acc Id: ENSMUST00000003413   ⟹   ENSMUSP00000003413
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1732,687,436 - 32,711,453 (+)Ensembl
GRCm38.p6 Ensembl1732,468,462 - 32,492,479 (+)Ensembl
Ensembl Acc Id: ENSMUST00000235903
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1732,711,132 - 32,712,248 (+)Ensembl
GRCm38.p6 Ensembl1732,492,158 - 32,493,274 (+)Ensembl
Ensembl Acc Id: ENSMUST00000236005
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1732,697,225 - 32,702,392 (+)Ensembl
GRCm38.p6 Ensembl1732,478,251 - 32,483,418 (+)Ensembl
Ensembl Acc Id: ENSMUST00000236307   ⟹   ENSMUSP00000157989
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1732,671,726 - 32,689,872 (+)Ensembl
GRCm38.p6 Ensembl1732,452,752 - 32,470,898 (+)Ensembl
Ensembl Acc Id: ENSMUST00000237491   ⟹   ENSMUSP00000158442
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1732,671,697 - 32,712,294 (+)Ensembl
GRCm38.p6 Ensembl1732,452,723 - 32,493,320 (+)Ensembl
RefSeq Acc Id: NM_177307   ⟹   NP_796281
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391732,671,697 - 32,712,294 (+)NCBI
GRCm381732,452,723 - 32,493,320 (+)NCBI
MGSCv371732,589,668 - 32,630,265 (+)RGD
Celera1733,365,223 - 33,405,906 (+)RGD
cM Map17 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006524423   ⟹   XP_006524486
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391732,671,670 - 32,712,250 (+)NCBI
GRCm381732,452,697 - 32,493,276 (+)NCBI
Sequence:
RefSeq Acc Id: NP_796281   ⟸   NM_177307
- UniProtKB: Q8BGU0 (UniProtKB/TrEMBL),   A6H653 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006524486   ⟸   XM_006524423
- Peptide Label: isoform X1
- UniProtKB: Q8BGU0 (UniProtKB/TrEMBL),   A6H653 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000158442   ⟸   ENSMUST00000237491
Ensembl Acc Id: ENSMUSP00000157989   ⟸   ENSMUST00000236307
Ensembl Acc Id: ENSMUSP00000003413   ⟸   ENSMUST00000003413

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8BGU0-F1-model_v2 AlphaFold Q8BGU0 1-532 view protein structure

Promoters
RGD ID:13675524
Promoter ID:EPDNEW_M21911
Type:initiation region
Name:Cyp4f39_1
Description:Mus musculus cytochrome P450, family 4, subfamily f, polypeptide39 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381732,452,725 - 32,452,785EPDNEW
RGD ID:6847372
Promoter ID:MM_ACW:22419
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   ES_Cell
Transcripts:CYP4F39.DSEP07-UNSPLICED
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361732,629,089 - 32,629,589 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2445210 AgrOrtholog
Ensembl Genes ENSMUSG00000061126 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000003413 ENTREZGENE
  ENSMUST00000003413.7 UniProtKB/TrEMBL
  ENSMUST00000236307.2 UniProtKB/TrEMBL
  ENSMUST00000237491 ENTREZGENE
  ENSMUST00000237491.2 UniProtKB/TrEMBL
Gene3D-CATH 1.10.630.10 UniProtKB/TrEMBL
InterPro Cyt_P450 UniProtKB/TrEMBL
  Cyt_P450_CS UniProtKB/TrEMBL
  Cyt_P450_E_grp-I UniProtKB/TrEMBL
  Cyt_P450_sf UniProtKB/TrEMBL
  Cytochrome_P450_Monoox UniProtKB/TrEMBL
KEGG Report mmu:320997 UniProtKB/TrEMBL
MGD MGI:2445210 ENTREZGENE
NCBI Gene 320997 ENTREZGENE
PANTHER CYTOCHROME P450 4F22 UniProtKB/TrEMBL
  CYTOCHROME P450 FAMILY 4 UniProtKB/TrEMBL
Pfam p450 UniProtKB/TrEMBL
PhenoGen Cyp4f39 PhenoGen
PRINTS EP450I UniProtKB/TrEMBL
  P450 UniProtKB/TrEMBL
PROSITE CYTOCHROME_P450 UniProtKB/TrEMBL
Superfamily-SCOP Cytochrome_P450 UniProtKB/TrEMBL
UniProt A0A494BAE0_MOUSE UniProtKB/TrEMBL
  A6H653 ENTREZGENE, UniProtKB/TrEMBL
  Q8BGU0 ENTREZGENE, UniProtKB/TrEMBL