Fmo4 (flavin containing dimethylaniline monoxygenase 4)

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Gene: Fmo4 (flavin containing dimethylaniline monoxygenase 4) Rattus norvegicus

Analyze

Symbol:

Fmo4

Name:

flavin containing dimethylaniline monoxygenase 4

RGD ID:

628601

Description:

Predicted to enable monooxygenase activity. Predicted to act upstream of or within drug catabolic process. Predicted to be located in endoplasmic reticulum membrane. Predicted to be integral component of membrane. Orthologous to human FMO4 (flavin containing dimethylaniline monoxygenase 4); PARTICIPATES IN phase I biotransformation pathway via cytochrome P450; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; acetamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

dimethylaniline monooxygenase [N-oxide-forming] 4; dimethylaniline oxidase 4; flavin containing monooxygenase 4; FMO 4; hepatic flavin-containing monooxygenase 4; MGC93155

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	FMO4 (flavin containing dimethylaniline monoxygenase 4)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Fmo4 (flavin containing monooxygenase 4)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Fmo4 (flavin containing dimethylaniline monoxygenase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	FMO4 (flavin containing dimethylaniline monoxygenase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	FMO4 (flavin containing dimethylaniline monoxygenase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Fmo4 (flavin containing dimethylaniline monoxygenase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	FMO4 (flavin containing dimethylaniline monoxygenase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	FMO4 (flavin containing dimethylaniline monoxygenase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	FMO4 (flavin containing dimethylaniline monoxygenase 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Fmo4 (flavin containing monooxygenase 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	si:dkey-239i20.4	Alliance	DIOPT (OMA\|OrthoFinder\|PhylomeDB)
Danio rerio (zebrafish):	fmo5 (flavin containing monooxygenase 5)	Alliance	DIOPT (OMA\|OrthoFinder\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	FMO1	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoInspector)
Drosophila melanogaster (fruit fly):	Fmo-1	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoInspector)
Drosophila melanogaster (fruit fly):	Fmo-2	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoInspector)
Caenorhabditis elegans (roundworm):	fmo-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	fmo-3	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	fmo-5	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	fmo-4	Alliance	DIOPT (Hieranoid\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	13	75,154,683 - 75,172,932 (-)	NCBI
Rnor_6.0 Ensembl	13	80,685,325 - 80,703,615 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	13	80,685,385 - 80,703,575 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	13	85,580,299 - 85,598,234 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	78,476,211 - 78,494,458 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	13	78,490,398 - 78,508,646 (-)	NCBI
Celera	13	74,892,262 - 74,910,106 (-)	NCBI		Celera
Cytogenetic Map	13	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

1q24 Deletion Syndrome (ISO)

gastrointestinal stromal tumor (ISO)

parathyroid carcinoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,1-dichloroethene (ISO)

1,2-dimethylhydrazine (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

acetamide (EXP)

acrylamide (ISO)

aflatoxin B1 (ISO)

ammonium chloride (EXP)

benzo[a]pyrene (ISO)

beta-D-glucan (ISO)

bisphenol A (EXP,ISO)

buta-1,3-diene (ISO)

calcitriol (ISO)

chloroprene (ISO)

cholic acid (ISO)

chromium(6+) (ISO)

cisplatin (ISO)

cobalt dichloride (EXP)

copper atom (EXP)

copper(0) (EXP)

cyclosporin A (ISO)

cytarabine (ISO)

dexamethasone (ISO)

dichloroacetic acid (ISO)

doxorubicin (ISO)

entinostat (ISO)

fenvalerate (EXP)

folic acid (ISO)

Heliotrine (ISO)

indometacin (ISO)

lipopolysaccharide (ISO)

monocrotaline (ISO)

nickel atom (ISO)

paracetamol (ISO)

perfluorononanoic acid (ISO)

phenobarbital (ISO)

phenytoin (ISO)

pirinixic acid (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

propanal (ISO)

resveratrol (EXP)

rifampicin (ISO)

senecionine (ISO)

Senkirkine (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sodium dichromate (EXP)

streptozocin (EXP)

sunitinib (ISO)

tamoxifen (ISO)

testosterone (ISO)

tetrachloromethane (EXP)

thioacetamide (EXP)

valproic acid (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

xenobiotic catabolic process (ISO)

Cellular Component

endoplasmic reticulum membrane (IEA)

integral component of membrane (IEA)

Molecular Function

flavin adenine dinucleotide binding (IEA)

monooxygenase activity (IBA,NAS)

N,N-dimethylaniline monooxygenase activity (IEA)

NADP binding (IEA)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

phase I biotransformation pathway via cytochrome P450 (IEA)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	GOA data from the GO Consortium
3.	Lattard V, etal., Mol Pharmacol 2003 Jan;63(1):253-61.
4.	McCombie RR, etal., Genomics 1996 Jun 15;34(3):426-9.
5.	MGD data from the GO Consortium
6.	Pipeline to import KEGG annotations from KEGG into RGD
7.	RGD automated data pipeline
8.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9.	RGD automated import pipeline for gene-chemical interactions
10.	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:15489334	PMID:19262426	PMID:19307449

Genomics

Comparative Map Data

Fmo4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	13	75,154,683 - 75,172,932 (-)	NCBI
Rnor_6.0 Ensembl	13	80,685,325 - 80,703,615 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	13	80,685,385 - 80,703,575 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	13	85,580,299 - 85,598,234 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	78,476,211 - 78,494,458 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	13	78,490,398 - 78,508,646 (-)	NCBI
Celera	13	74,892,262 - 74,910,106 (-)	NCBI		Celera
Cytogenetic Map	13	q22	NCBI

FMO4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	1	171,314,183 - 171,342,084 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	1	171,314,131 - 171,342,084 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	1	171,283,322 - 171,311,223 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	169,550,110 - 169,577,847 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	1	168,015,143 - 168,042,880	NCBI
Celera	1	144,392,833 - 144,420,570 (+)	NCBI
Cytogenetic Map	1	q24.3	NCBI
HuRef	1	142,506,623 - 142,533,609 (+)	NCBI		HuRef
CHM1_1	1	172,705,588 - 172,733,342 (+)	NCBI		CHM1_1

Fmo4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	162,620,757 - 162,643,788 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	1	162,620,757 - 162,641,541 (-)	Ensembl
GRCm38	1	162,793,188 - 162,816,072 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	162,793,188 - 162,813,972 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	164,724,014 - 164,742,680 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	1	164,630,558 - 164,649,224 (-)	NCBI			mm8
Celera	1	165,240,967 - 165,259,585 (-)	NCBI		Celera
Cytogenetic Map	1	H2.1	NCBI
cM Map	1	70.34	NCBI

Fmo4
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955406	11,967,003 - 11,988,887 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955406	11,967,045 - 11,987,105 (+)	NCBI	ChiLan1.0	ChiLan1.0

FMO4
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	1	150,520,375 - 150,548,270 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	150,520,375 - 150,548,270 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	146,806,413 - 146,834,315 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

FMO4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	7	27,529,034 - 27,596,467 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	7	27,568,438 - 27,596,350 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	7	27,049,840 - 27,117,469 (-)	NCBI
ROS_Cfam_1.0	7	27,329,955 - 27,397,773 (-)	NCBI
UMICH_Zoey_3.1	7	27,181,116 - 27,248,502 (-)	NCBI
UNSW_CanFamBas_1.0	7	27,215,669 - 27,283,013 (-)	NCBI
UU_Cfam_GSD_1.0	7	27,457,952 - 27,525,372 (-)	NCBI

Fmo4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024409344	97,890,880 - 97,920,616 (-)	NCBI
SpeTri2.0	NW_004936481	15,737,491 - 15,767,344 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

FMO4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	9	63,908,867 - 63,934,983 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	9	63,908,846 - 63,934,985 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	9	70,202,685 - 70,224,674 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

FMO4
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	25	57,729,381 - 57,755,940 (-)	NCBI
ChlSab1.1 Ensembl	25	57,728,614 - 57,755,259 (-)	Ensembl
Vero_WHO_p1.0	NW_023666055	59,371,043 - 59,396,968 (-)	NCBI

Position Markers

RH130865

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	75,154,835 - 75,155,024 (+)	MAPPER
Rnor_6.0	13	80,685,538 - 80,685,726	NCBI	Rnor6.0
Rnor_5.0	13	85,580,452 - 85,580,640	UniSTS	Rnor5.0
RGSC_v3.4	13	78,476,363 - 78,476,551	UniSTS	RGSC3.4
Celera	13	74,892,414 - 74,892,602	UniSTS
Cytogenetic Map	13	q22	UniSTS

BI293319

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	75,169,107 - 75,169,207 (+)	MAPPER
Rnor_6.0	13	80,699,809 - 80,699,908	NCBI	Rnor6.0
Rnor_5.0	13	85,594,468 - 85,594,567	UniSTS	Rnor5.0
RGSC_v3.4	13	78,490,692 - 78,490,791	UniSTS	RGSC3.4
Celera	13	74,906,340 - 74,906,439	UniSTS
RH 3.4 Map	13	473.5	UniSTS
Cytogenetic Map	13	q22	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	1	107975663	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	1	107975663	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	1	107975663	Rat
1581554	Pur11	Proteinuria QTL 11			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	13	9016906	82995569	Rat
1581573	Uae36	Urinary albumin excretion QTL 36			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	13	9016906	82995569	Rat
1581570	Eae17	Experimental allergic encephalomyelitis QTL 17	4.1		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	13	12193394	108478121	Rat
7207885	Glom27	Glomerulus QTL 27	3.9		kidney glomerulus integrity trait (VT:0010546)	kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)	13	24502279	108770533	Rat
1354621	Rf47	Renal function QTL 47	3.7		kidney renin amount (VT:0010559)	kidney renin level (CMO:0002166)	13	35301263	107975663	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	36147533	99968921	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	36147533	99968921	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	36147533	99968921	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	13	36147533	99968921	Rat
2303563	Bw89	Body weight QTL 89	6		body mass (VT:0001259)	body weight (CMO:0000012)	13	37346348	82346348	Rat
61340	Bp25	Blood pressure QTL 25	4.2	0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	39372927	84372927	Rat
10755495	Bp387	Blood pressure QTL 387	3.78		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	39501300	93652524	Rat
4889861	Pur29	Proteinuria QTL 29	13.8	0.005	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	42310744	86833540	Rat
1331750	Bp220	Blood pressure QTL 220	2.98		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	42310744	87310744	Rat
70220	Bp55	Blood pressure QTL 55	5.75		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	13	42508345	87508345	Rat
61349	Bp31	Blood pressure QTL 31	5.75		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	13	42508345	87508345	Rat
1549897	Stresp12	Stress response QTL 12	3.35		stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	13	43575717	88575717	Rat
619615	Bp80	Blood pressure QTL 80		0.0354	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	45676629	90676629	Rat
12879441	Bp396	Blood pressure QTL 396			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	51080989	96080989	Rat
1298066	Bp159	Blood pressure QTL 159		0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	51569248	96569248	Rat
71119	Thym2	Thymus enlargement QTL 2	3.8		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	13	51577824	90675199	Rat
1641901	Alcrsp6	Alcohol response QTL 6			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	13	57903612	102903612	Rat
1354655	Bp241	Blood pressure QTL 241	3.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	62975663	107975663	Rat
724564	Uae11	Urinary albumin excretion QTL 11	5.7		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	13	64501351	82995671	Rat
738026	Lnnr5	Liver neoplastic nodule remodeling QTL 5	3.29		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	65008245	91629354	Rat
12879475	Bp400	Blood pressure QTL 400			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	66971778	111971778	Rat
2293687	Bss26	Bone structure and strength QTL 26	4.6	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	13	71230858	114033958	Rat
2293702	Bss34	Bone structure and strength QTL 34	4.61	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	13	71230858	114033958	Rat
7387280	Uae43	Urinary albumin excretion QTL 43	5.69	0.4174	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	13	72583716	114033958	Rat
8655951	Rf63	Renal function QTL 63	12.2		blood urea nitrogen amount (VT:0005265)	plasma urea nitrogen level (CMO:0000586)	13	74568378	82995671	Rat
1300166	Kidm6	Kidney mass QTL 6	3.93		kidney mass (VT:0002707)	single kidney wet weight to body weight ratio (CMO:0000622)	13	74568378	92916783	Rat
1331783	Bp221	Blood pressure QTL 221	3.72886		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	74568378	92916783	Rat
8655945	Rf61	Renal function QTL 61	3.6		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	13	74568378	92916783	Rat
10755455	Coatc13	Coat color QTL 13		0	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	7	77694986	114033958	Rat
11530006	Niddm72	Non-insulin dependent diabetes mellitus QTL 72		0.001	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	13	79567081	86833540	Rat
8655959	Pur32	Proteinuria QTL 32	8.4		total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	79567081	103613733	Rat
738027	Lnnr6	Liver neoplastic nodule remodeling QTL 6	3.3		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	80403559	91629354	Rat
2293341	Glom15	Glomerulus QTL 15	9.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	13	80403559	108770687	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	199
Count of miRNA genes:	110
Interacting mature miRNAs:	121
Transcripts:	ENSRNOT00000004577, ENSRNOT00000004599
Prediction methods:	Microtar, 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
Medium	1		8	8		8				25	4	2
Low	2	43	49	33	19	33	8	11	68	10	34	9	8
Below cutoff									6		3

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_144561	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_144562	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006250144	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090332	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090333	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AF458416	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF458417	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC081721	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473958	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000244	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000004577 ⟹ ENSRNOP00000004577

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	13	80,685,628 - 80,702,315 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000004599 ⟹ ENSRNOP00000004599

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	13	80,685,325 - 80,703,615 (-)	Ensembl

RefSeq Acc Id:

NM_144561 ⟹ NP_653147

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	75,154,684 - 75,172,874 (-)	NCBI
Rnor_6.0	13	80,685,386 - 80,703,575 (-)	NCBI
Rnor_5.0	13	85,580,299 - 85,598,234 (-)	NCBI
RGSC_v3.4	13	78,476,211 - 78,494,458 (-)	RGD
Celera	13	74,892,262 - 74,910,106 (-)	RGD

Sequence:

show sequence

ATAGCAGAAGAAGCAACGGGCTTTTGTGTTGAACTGAGAGTTTGAGCAAAGTCAACAAAGTCAG
TAGCACTCTGTTTCCTCCTTAGGACAAGGCTCTGAGACCGAAACTTCTTCCTGTTGTTTTATAA
AACAAACTCCACCTTTGACCTCTCACCTTTGGCTTCTCACCTGCTCTATGCTTGCAAGACAGGG
CACGGCGGAGATCCGACAACTTCAGACCTTCACCCAGAAATTCAAGTTGTTCTTCTCGGTGAAG
GCCGTTTGTCCCTGGTTGAATGCCACCCAGGTGTTGACAACCCAAGGGAATCCACAGAGCGCAC
CATGGCCAAGAAAGTGGCAGTGATTGGAGCTGGAGTGAGTGGCCTGTCCTCAATCAAGTGCTGC
TTGGACGAGAACCTGGAGCCTACCTGTTTTGAGAGGAGTAGTGACTTCGGCGGACTGTGGAAGT
TTGCTGAAGCATCTGAGGATGGAATGACCAGGGTTTACAGGTCACTAGTGACAAATGTCTGCAA
GGAAATGTCATGTTACAGTGACTTCCCATTCCACGAAGATTACCCCAATTTCATGAGCCATGAG
AAATTCTGGGACTATCTCAGAGAATTTGCTGAGCACTTCGGCCTCCTGAAATATATTCGGTTTA
AGACTACTGTGCGGAGTGTAACTAAGCGTCCAGACTTCTCTGAAACTGGCCAATGGGAAGTTGT
CACAGAGACAGAGGGCAAACAGGACAGAGCTGTATTTGATGCTGTTATGGTTTGCACTGGGCAA
TTCCTGAGCCCACGTTTACCTCTGGAGTCCTTCCCTGGAATCCATAAGTTTAAAGGACAGATCC
TACACAGCCAAGAGTACAGGATTCCAGATGCCTTTCGGGGCAAGCGCATCCTGGTGGTTGGTCT
TGGAAACACTGGCGGGGATGTCGCAGTGGAGCTCAGTGGAATAGCAGCACAGGTGTTTCTCAGC
ACTAGGACTGGTGCCTGGGTTCGCAGCCGCTCCTCAGTTGGTGGCTACCCTTTGAATATGATGC
AGACAAGATGGCGCAACTTCCTCGCACGAGTTCTGCCCTCCCGCTTTGTAAGCTGGAATCAAGA
GAGGCAAATGAATAAAATATTTAACCATGAGAACTATGGATTAAGCATTGCAAAAGGGAAAAAA
CCAAAATTTATTGTGAATGATGAACTACCAACTTGTATCCTCTGTGGGAAAATCACCATGAAAA
CCAGCGTGAAGGATTTTACAGAATCCTCTATCGTCTTTGAAGATGGGACAATAGAAGCCAACAT
TGATGTAGTGATCTTCACTACAGGATATGAATTTTCTTTTCCCTTTTTTGAAGAGCCTCTCAAA
AGCCTTTGCACAAAGAAGGTCATACTATACAAGCGAGTGTTTCCCCCAAATTTGGAGAGATCAA
CATTAGCCATCATTGGCCTGATCAGCCTTACTGGGTCTATCTTAGTGGGCACAGAGTTCCAAGC
ACGGTGGGCCACGAGAGTATTCAAAGGGCTCTGTAATATACCTCCATCTCAGAAACTGATGGCC
GAAGCCATTAAAAAGGAAGAGCTCATTAAAAGGGGTGTGATTAAAGATACCAGCCAAGACAAAC
TCGACTTCATTTCCTACATGGATGAGCTCACTCAGTGCATAGGCGCGAAGCCCAATATTCCACT
TCTGTTCCTTAAGGACCCAAGATTGGCGTGGGAAGTTTTCTTTGGACCATGTACCCCTTACCAA
TATCGCCTAATGGGCCCTGGAAGATGGGACGGAGCCAGAAATGCCATCCTGACCCAGTGGGACA
GGACTGTGAAACCACTAAAGACTCGAACTGTTCCTAAGTCCCAGGAGCCTGCCTCCCTCTCACG
TTACTTAAAAACTTGGGGGGCACCTGTCCTGATTGTCTCTCTTTTACTTATCTACAAGTCTTCA
CTGTTTCTTGAACTGGTGCAAAGTAAGCTGCAAGGAAGGTTTTCCCCTTCCCGAATACTGTGGT
ACATCCCCCAGAACTCATGAGTTGGTCTCCAGTTTGGCAATGGAGGAAGTTATCTGGGACATCC
CTTAAACAGACTAGTGCTGCTCTCAAACACTGGATCAGTCTCCATAGGGCAGGTTGTCATAAAG
CAAGGCTGCCTCTTATCGCTTTTTCATGCATTTATTTGTGCCCTTTGACCTTTCTACTATGTAA
TGACATAGTACAAACCTCTCACCAGAAGCTGCCACTGTGTCCTTGAGCCCTCCAGCCTCCAGAA
TCATGAACAAAATAAACTTCATTTACCCATTTTATGTTAAAAAAAAAAAAAAAAAAAAAAAAAA
AAA

hide sequence

RefSeq Acc Id:

NM_144562 ⟹ NP_653148

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	75,154,926 - 75,171,614 (-)	NCBI
Rnor_6.0	13	80,685,628 - 80,702,315 (-)	NCBI
Rnor_5.0	13	85,580,299 - 85,598,234 (-)	NCBI
RGSC_v3.4	13	78,476,211 - 78,494,458 (-)	RGD
Celera	13	74,892,504 - 74,908,846 (-)	NCBI

Sequence:

show sequence

GACAACTTCAGACCTTCACCCAGAAATTCAAGTTGTTCTTCTCGGTGAAGGCCGTTTGTCCCTG
GTTGAATGCCACCCAGGTGTTGACAACCCAAGGGAATCCACAGAGCGCACCATGGCCAAGAAAG
TGGCAGTGATTGGAGCTGGAGTGAGTGGCCTGTCCTCAATCAAGTGCTGCTTGGACGAGAACCT
GGAGCCTACCTGTTTTGAGAGGAGTAGTGACTTCGGCGGACTGTGGAAGTTTGCTACTACTGTG
CGGAGTGTAACTAAGCGTCCAGACTTCTCTGAAACTGGCCAATGGGAAGTTGTCACAGAGACAG
AGGGCAAACAGGACAGAGCTGTATTTGATGCTGTTATGGTTTGCACTGGGCAATTCCTGAGCCC
ACGTTTACCTCTGGAGTCCTTCCCTGGAATCCATAAGTTTAAAGGACAGATCCTACACAGCCAA
GAGTACAGGATTCCAGATGCCTTTCGGGGCAAGCGCATCCTGGTGGTTGGTCTTGGAAACACTG
GCGGGGATGTCGCAGTGGAGCTCAGTGGAATAGCAGCACAGGTGTTTCTCAGCACTAGGACTGG
TGCCTGGGTTCGCAGCCGCTCCTCAGTTGGTGGCTACCCTTTGAATATGATGCAGACAAGATGG
CGCAACTTCCTCGCACGAGTTCTGCCCTCCCGCTTTGTAAGCTGGAATCAAGAGAGGCAAATGA
ATAAAATATTTAACCATGAGAACTATGGATTAAGCATTGCAAAAGGGAAAAAACCAAAATTTAT
TGTGAATGATGAACTACCAACTTGTATCCTCTGTGGGAAAATCACCATGAAAACCAGCGTGAAG
GATTTTACAGAATCCTCTATCGTCTTTGAAGATGGGACAATAGAAGCCAACATTGATGTAGTGA
TCTTCACTACAGGATATGAATTTTCTTTTCCCTTTTTTGAAGAGCCTCTCAAAAGCCTTTGCAC
AAAGAAGGTCATACTATACAAGCGAGTGTTTCCCCCAAATTTGGAGAGATCAACATTAGCCATC
ATTGGCCTGATCAGCCTTACTGGGTCTATCTTAGTGGGCACAGAGTTCCAAGCACGGTGGGCCA
CGAGAGTATTCAAAGGGCTCTGTAATATACCTCCATCTCAGAAACTGATGGCCGAAGCCATTAA
AAAGGAAGAGCTCATTAAAAGGGGTGTGATTAAAGATACCAGCCAAGACAAACTCGACTTCATT
TCCTACATGGATGAGCTCACTCAGTGCATAGGCGCGAAGCCCAATATTCCACTTCTGTTCCTTA
AGGACCCAAGATTGGCGTGGGAAGTTTTCTTTGGACCATGTACCCCTTACCAATATCGCCTAAT
GGGCCCTGGAAGATGGGACGGAGCCAGAAATGCCATCCTGACCCAGTGGGACAGGACTGTGAAA
CCACTAAAGACTCGAACTGTTCCTAAGTCCCAGGAGCCTGCCTCCCTCTCACGTTACTTAAAAA
CTTGGGGGGCACCTGTCCTGATTGTCTCTCTTTTACTTATCTACAAGTCTTCACTGTTTCTTGA
ACTGGTGCAAAGTAAGCTGCAAGGAAGGTTTTCCCCTTCCCGAATACTGTGGTACATCCCCCAG
AACTCATGAGTTGGTCTCCAGTTTGGCAATGGAGGAAGTT

hide sequence

RefSeq Acc Id:

XM_039090332 ⟹ XP_038946260

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	75,154,683 - 75,172,932 (-)	NCBI

RefSeq Acc Id:

XM_039090333 ⟹ XP_038946261

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	75,154,683 - 75,167,429 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_653147	(Get FASTA)	NCBI Sequence Viewer
	NP_653148	(Get FASTA)	NCBI Sequence Viewer
	XP_038946260	(Get FASTA)	NCBI Sequence Viewer
	XP_038946261	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH81721	(Get FASTA)	NCBI Sequence Viewer
	AAM46764	(Get FASTA)	NCBI Sequence Viewer
	AAM46765	(Get FASTA)	NCBI Sequence Viewer
	EDM09395	(Get FASTA)	NCBI Sequence Viewer
	EDM09396	(Get FASTA)	NCBI Sequence Viewer
	Q8K4B7	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_653147 ⟸ NM_144561

- Peptide Label:

long isoform

- Sequence:

show sequence

MAKKVAVIGAGVSGLSSIKCCLDENLEPTCFERSSDFGGLWKFAEASEDGMTRVYRSLVTNVCK
EMSCYSDFPFHEDYPNFMSHEKFWDYLREFAEHFGLLKYIRFKTTVRSVTKRPDFSETGQWEVV
TETEGKQDRAVFDAVMVCTGQFLSPRLPLESFPGIHKFKGQILHSQEYRIPDAFRGKRILVVGL
GNTGGDVAVELSGIAAQVFLSTRTGAWVRSRSSVGGYPLNMMQTRWRNFLARVLPSRFVSWNQE
RQMNKIFNHENYGLSIAKGKKPKFIVNDELPTCILCGKITMKTSVKDFTESSIVFEDGTIEANI
DVVIFTTGYEFSFPFFEEPLKSLCTKKVILYKRVFPPNLERSTLAIIGLISLTGSILVGTEFQA
RWATRVFKGLCNIPPSQKLMAEAIKKEELIKRGVIKDTSQDKLDFISYMDELTQCIGAKPNIPL
LFLKDPRLAWEVFFGPCTPYQYRLMGPGRWDGARNAILTQWDRTVKPLKTRTVPKSQEPASLSR
YLKTWGAPVLIVSLLLIYKSSLFLELVQSKLQGRFSPSRILWYIPQNS

hide sequence

RefSeq Acc Id:

NP_653148 ⟸ NM_144562

- Peptide Label:

short isoform

- Sequence:

show sequence

MAKKVAVIGAGVSGLSSIKCCLDENLEPTCFERSSDFGGLWKFATTVRSVTKRPDFSETGQWEV
VTETEGKQDRAVFDAVMVCTGQFLSPRLPLESFPGIHKFKGQILHSQEYRIPDAFRGKRILVVG
LGNTGGDVAVELSGIAAQVFLSTRTGAWVRSRSSVGGYPLNMMQTRWRNFLARVLPSRFVSWNQ
ERQMNKIFNHENYGLSIAKGKKPKFIVNDELPTCILCGKITMKTSVKDFTESSIVFEDGTIEAN
IDVVIFTTGYEFSFPFFEEPLKSLCTKKVILYKRVFPPNLERSTLAIIGLISLTGSILVGTEFQ
ARWATRVFKGLCNIPPSQKLMAEAIKKEELIKRGVIKDTSQDKLDFISYMDELTQCIGAKPNIP
LLFLKDPRLAWEVFFGPCTPYQYRLMGPGRWDGARNAILTQWDRTVKPLKTRTVPKSQEPASLS
RYLKTWGAPVLIVSLLLIYKSSLFLELVQSKLQGRFSPSRILWYIPQNS

hide sequence

RefSeq Acc Id:

ENSRNOP00000004599 ⟸ ENSRNOT00000004599

RefSeq Acc Id:

ENSRNOP00000004577 ⟸ ENSRNOT00000004577

RefSeq Acc Id:	XP_038946260 ⟸ XM_039090332
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038946261 ⟸ XM_039090333
- Peptide Label:	isoform X2

Transcriptome

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

Promoters

RGD ID:

13698942

Promoter ID:

EPDNEW_R9467

Type:

multiple initiation site

Name:

Fmo4_1

Description:

flavin containing monooxygenase 4

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	13	80,703,573 - 80,703,633	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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CSV

TAB

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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CSV

TAB

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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CSV

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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CSV

TAB

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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CSV

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

Visual

CSV

TAB

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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CSV

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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CSV

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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CSV

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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CSV

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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CSV

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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CSV

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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CSV

TAB

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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TAB

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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CSV

TAB

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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CSV

TAB

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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CSV

TAB

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:628601	AgrOrtholog
Ensembl Genes	ENSRNOG00000003400	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000004577	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000004599	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000004577	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000004599	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	3.50.50.60	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7107835	IMAGE-MGC_LOAD
InterPro	FAD/NAD-bd_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Flavin_mOase	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Flavin_mOase-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Flavin_mOase_4	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:246247	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:93155	IMAGE-MGC_LOAD
NCBI Gene	246247	ENTREZGENE
Pfam	FMO-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Fmo4	PhenoGen
PIRSF	FMO	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS	FMOXYGENASE	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	FMOXYGENASE4	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF51905	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	FMO4_RAT	UniProtKB/Swiss-Prot
	G3V6F2_RAT	UniProtKB/TrEMBL
	Q8K4B6_RAT	UniProtKB/TrEMBL
	Q8K4B7	ENTREZGENE
UniProt Secondary	Q66HR6	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2019-05-09	Fmo4	flavin containing dimethylaniline monoxygenase 4	Fmo4	flavin containing monooxygenase 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2003-02-27	Fmo4	flavin containing monooxygenase 4			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_domains	contains NADPH- and FAD-binding sites and a hydrophilic carboxyl terminus	632720
gene_expression	mRNA expressed in kidney, intestine, liver and brain	632720
gene_protein	560 amino acids with a predicted molecular mass of 63.4 kDa	632720

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Annotations - KEGG (archival)