Human Gene FMO4 (uc001gho.3)
  Description: Homo sapiens flavin containing monooxygenase 4 (FMO4), mRNA.
RefSeq Summary (NM_002022): Metabolic N-oxidation of diet-derived amino-trimethylamine (TMA) is mediated by flavin-containing monooxygenase and is subject to an inherited FMO3 polymorphism in man. This results in a small subpopulation with reduced TMA N-oxidation capacity and causes fish odor syndrome (Trimethylaminuria). Three forms of the enzyme are encoded by genes clustered in the 1q23-q25 region. Flavin-containing monooxygenases are NADPH-dependent flavoenzymes that catalyzes the oxidation of soft nucleophilic heteroatom centers in drugs, pesticides, and xenobiotics. [provided by RefSeq, Jan 2015].
Transcript (Including UTRs)
   Position: hg19 chr1:171,283,486-171,311,223 Size: 27,738 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr1:171,288,965-171,310,978 Size: 22,014 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:171,283,486-171,311,223)mRNA (may differ from genome)Protein (558 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMalacards
MGIneXtProtOMIMPubMedTreefamUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: FMO4_HUMAN
DESCRIPTION: RecName: Full=Dimethylaniline monooxygenase [N-oxide-forming] 4; EC=1.14.13.8; AltName: Full=Dimethylaniline oxidase 4; AltName: Full=Hepatic flavin-containing monooxygenase 4; Short=FMO 4;
FUNCTION: This protein is involved in the oxidative metabolism of a variety of xenobiotics such as drugs and pesticides.
CATALYTIC ACTIVITY: N,N-dimethylaniline + NADPH + O(2) = N,N- dimethylaniline N-oxide + NADP(+) + H(2)O.
COFACTOR: FAD.
SUBCELLULAR LOCATION: Microsome membrane. Endoplasmic reticulum membrane.
TISSUE SPECIFICITY: Liver.
SIMILARITY: Belongs to the FMO family.
CAUTION: Was originally (PubMed:1417778) termed FMO2.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/fmo4/";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): FMO4
CDC HuGE Published Literature: FMO4

-  MalaCards Disease Associations
  MalaCards Gene Search: FMO4
Diseases sorted by gene-association score: trimethylaminuria (16)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.12 RPKM in Liver
Total median expression: 101.81 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -57.04217-0.263 Picture PostScript Text
3' UTR -28.12245-0.115 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR012143 - DiMe-aniline_mOase
IPR000960 - Flavin_mOase
IPR020946 - Flavin_mOase-like
IPR002256 - Flavin_mOase_4

Pfam Domains:
PF00743 - Flavin-binding monooxygenase-like
PF07992 - Pyridine nucleotide-disulphide oxidoreductase
PF13434 - L-lysine 6-monooxygenase (NADPH-requiring)
PF13738 - Pyridine nucleotide-disulphide oxidoreductase

SCOP Domains:
51735 - NAD(P)-binding Rossmann-fold domains
51905 - FAD/NAD(P)-binding domain
51971 - Nucleotide-binding domain
51984 - MurCD N-terminal domain

ModBase Predicted Comparative 3D Structure on P31512
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004497 monooxygenase activity
GO:0004499 N,N-dimethylaniline monooxygenase activity
GO:0016491 oxidoreductase activity
GO:0050660 flavin adenine dinucleotide binding
GO:0050661 NADP binding

Biological Process:
GO:0042737 drug catabolic process
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031090 organelle membrane
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  BC002780 - Homo sapiens flavin containing monooxygenase 4, mRNA (cDNA clone MGC:3785 IMAGE:3618884), complete cds.
Z11737 - H.sapiens mRNA for flavin-containing monooxygenase 4.
KJ901035 - Synthetic construct Homo sapiens clone ccsbBroadEn_10429 FMO4 gene, encodes complete protein.
JD175504 - Sequence 156528 from Patent EP1572962.
JD348921 - Sequence 329945 from Patent EP1572962.
JD184798 - Sequence 165822 from Patent EP1572962.
JD062537 - Sequence 43561 from Patent EP1572962.
JD083698 - Sequence 64722 from Patent EP1572962.
DQ890684 - Synthetic construct clone IMAGE:100003314; FLH165094.01X; RZPDo839F11158D flavin containing monooxygenase 4 (FMO4) gene, encodes complete protein.
DQ893866 - Synthetic construct Homo sapiens clone IMAGE:100008326; FLH165090.01L; RZPDo839F11157D flavin containing monooxygenase 4 (FMO4) gene, encodes complete protein.
CU678192 - Synthetic construct Homo sapiens gateway clone IMAGE:100019867 5' read FMO4 mRNA.
BT007444 - Homo sapiens flavin containing monooxygenase 4 mRNA, complete cds.
JD358288 - Sequence 339312 from Patent EP1572962.
JD510708 - Sequence 491732 from Patent EP1572962.
JD281867 - Sequence 262891 from Patent EP1572962.
JD111557 - Sequence 92581 from Patent EP1572962.
JD391860 - Sequence 372884 from Patent EP1572962.
JD224474 - Sequence 205498 from Patent EP1572962.
JD099044 - Sequence 80068 from Patent EP1572962.
JD114461 - Sequence 95485 from Patent EP1572962.
JD377134 - Sequence 358158 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00982 - Drug metabolism - cytochrome P450

BioCyc Knowledge Library
PWY66-201 - nicotine degradation II

-  Other Names for This Gene
  Alternate Gene Symbols: FMO2, FMO4_HUMAN, NM_002022, NP_002013, P31512, Q53XR0
UCSC ID: uc001gho.3
RefSeq Accession: NM_002022
Protein: P31512 (aka FMO4_HUMAN)
CCDS: CCDS1295.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_002022.1
exon count: 10CDS single in 3' UTR: no RNA size: 2148
ORF size: 1677CDS single in intron: no Alignment % ID: 99.95
txCdsPredict score: 3545.00frame shift in genome: no % Coverage: 99.58
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.