Flot1 (flotillin 1) - Rat Genome Database

Name: Flot1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Flot1 (flotillin 1) Rattus norvegicus

Analyze

Symbol:

Flot1

Name:

flotillin 1

RGD ID:

70991

Description:

Exhibits ionotropic glutamate receptor binding activity and protease binding activity. Predicted to be involved in several processes, including positive regulation of cell-cell adhesion; positive regulation of cellular component organization; and protein localization to membrane. Localizes to several cellular components, including GABA-ergic synapse; flotillin complex; and glutamatergic synapse. Predicted to colocalize with COP9 signalosome and cortical actin cytoskeleton. Orthologous to human FLOT1 (flotillin 1); PARTICIPATES IN insulin signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

flotillin-1; Rareg; REG-2; reggie-2

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

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):	FLOT1 (flotillin 1)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Flot1 (flotillin 1)	HGNC	Treefam, OrthoMCL, NCBI, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Flot1 (flotillin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	FLOT1 (flotillin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	FLOT1 (flotillin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Flot1 (flotillin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	FLOT1 (flotillin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	FLOT1 (flotillin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Flot1 (flotillin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Flot1 (flotillin 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Homo sapiens (human):	FLOT1 (flotillin 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	flot1a (flotillin 1a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	flot1b (flotillin 1b)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	Flo1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)

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
Rnor_6.0	20	3,427,890 - 3,438,418 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	3,427,880 - 3,438,396 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	5,524,708 - 5,535,232 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	20	3,065,792 - 3,076,166 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	20	3,066,008 - 3,169,167 (-)	NCBI
Celera	20	343,778 - 353,887 (-)	NCBI		Celera
Cytogenetic Map	20	p12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Q fever (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1-dichloroethene (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP,ISO)

17beta-estradiol (ISO)

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

2,3,7,8-Tetrachlorodibenzofuran (ISO)

2,6-dinitrotoluene (EXP)

3,3',4,4',5-pentachlorobiphenyl (EXP)

3,4-methylenedioxymethamphetamine (ISO)

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

4,4'-diaminodiphenylmethane (ISO)

4-amino-2,6-dinitrotoluene (EXP)

4-hydroxyphenyl retinamide (ISO)

8-Br-cAMP (ISO)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

atrazine (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

calciol (ISO)

carbon nanotube (ISO)

cisplatin (ISO)

clofibrate (ISO)

cobalt dichloride (EXP,ISO)

copper(II) sulfate (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

dibutyl phthalate (ISO)

doxorubicin (ISO)

elemental selenium (ISO)

ethanol (ISO)

folic acid (ISO)

hexadecanoic acid (ISO)

hydralazine (ISO)

iron atom (ISO)

iron(0) (ISO)

lovastatin (ISO)

microcystin RR (ISO)

nefazodone (EXP)

nickel atom (ISO)

nickel dichloride (EXP)

nickel sulfate (ISO)

oleic acid (ISO)

p-toluidine (EXP)

paracetamol (ISO)

pravastatin (ISO)

resveratrol (ISO)

rotenone (EXP)

selenium atom (ISO)

silicon dioxide (ISO)

simvastatin (ISO)

sodium arsenite (ISO)

tamibarotene (ISO)

tamoxifen (ISO)

valdecoxib (EXP)

valproic acid (ISO)

vancomycin (ISO)

vitamin E (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

axonogenesis (ISO)

cellular response to exogenous dsRNA (ISO)

dsRNA transport (ISO)

extracellular matrix disassembly (ISO)

membrane raft assembly (ISO)

plasma membrane raft assembly (ISO)

positive regulation of cell adhesion molecule production (ISO)

positive regulation of cell junction assembly (IBA,ISO)

positive regulation of cell-cell adhesion mediated by cadherin (IBA,ISO)

positive regulation of cytokine production (ISO)

positive regulation of endocytosis (IBA,ISO)

positive regulation of heterotypic cell-cell adhesion (ISO)

positive regulation of interferon-beta production (ISO)

positive regulation of myoblast fusion (ISO)

positive regulation of NF-kappaB transcription factor activity (ISO)

positive regulation of protein binding (ISO)

positive regulation of protein phosphorylation (ISO)

positive regulation of skeletal muscle tissue development (ISO)

positive regulation of synaptic transmission, dopaminergic (ISO)

positive regulation of toll-like receptor 3 signaling pathway (ISO)

protein kinase C signaling (IBA,ISO)

protein localization to membrane raft (ISO)

protein localization to plasma membrane (IBA,ISO)

protein stabilization (ISO)

regulation of neurotransmitter uptake (ISO)

regulation of receptor internalization (IBA,ISO)

regulation of Rho protein signal transduction (ISO)

regulation of toll-like receptor 4 signaling pathway (ISO)

response to endoplasmic reticulum stress (ISO)

Cellular Component

adherens junction (ISO)

apical part of cell (ISO)

apical plasma membrane (ISO)

basolateral plasma membrane (ISO)

caveola (IDA,ISO)

cell-cell contact zone (ISO)

cell-cell junction (ISO)

centriolar satellite (ISO)

COP9 signalosome (ISO)

cortical actin cytoskeleton (ISO)

cytoplasmic vesicle (IBA,ISO)

dopaminergic synapse (ISO)

early endosome (ISO)

endosome (IEA,ISO,ISS)

external side of plasma membrane (ISO)

flotillin complex (IBA,IDA,ISO)

GABA-ergic synapse (EXP,IDA)

glutamatergic synapse (EXP,IDA)

lamellipodium (ISO)

melanosome (IEA)

membrane (IEA,ISO)

membrane raft (ISO)

microtubule organizing center (ISO)

plasma membrane (IBA,ISO)

plasma membrane raft (ISO)

presynapse (IDA)

presynaptic active zone (EXP,IDA)

sarcolemma (ISO)

synapse (IDA)

uropod (ISO)

Molecular Function

ionotropic glutamate receptor binding (IPI)

protease binding (IPI,ISO)

protein binding (IPI,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

insulin signaling pathway (IEA)

References

References - curated


1.	Boyken J, etal., Neuron. 2013 Apr 24;78(2):285-97. doi: 10.1016/j.neuron.2013.02.027.
2.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	GOA data from the GO Consortium
4.	John BA, etal., FEBS J. 2014 Apr;281(8):2074-87. doi: 10.1111/febs.12763. Epub 2014 Mar 6.
5.	Kokubo H, etal., Brain Res. 2003 Mar 7;965(1-2):83-90.
6.	Lang DM, etal., J Neurobiol 1998 Dec;37(4):502-23.
7.	MGD Curation, June 12, 2002
8.	MGD data from the GO Consortium
9.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
10.	Pipeline to import KEGG annotations from KEGG into RGD
11.	RGD automated import pipeline for gene-chemical interactions
12.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
13.	Swanwick CC, etal., Dev Neurobiol. 2010 Nov;70(13):875-83. doi: 10.1002/dneu.20828.
14.	Swanwick CC, etal., FEBS Lett. 2009 Apr 17;583(8):1226-30. Epub 2009 Mar 17.
15.	Volonte D, etal., Am J Physiol Heart Circ Physiol. 2008 Jan;294(1):H392-401. Epub 2007 Nov 2.

Additional References at PubMed

PMID:8889548	PMID:9153235	PMID:11001060	PMID:12370178	PMID:12388596	PMID:12967676	PMID:14581507	PMID:15469992	PMID:15545008	PMID:15934946	PMID:16455755	PMID:16785509
PMID:17206938	PMID:17218121	PMID:17482312	PMID:17897319	PMID:18000879	PMID:18155272	PMID:18850735	PMID:19056867	PMID:19144954	PMID:19458231	PMID:19946888	PMID:20458337
PMID:20600927	PMID:20682791	PMID:21119006	PMID:21187433	PMID:21399631	PMID:21413931	PMID:21423176	PMID:21696602	PMID:21700703	PMID:23319823	PMID:23376485	PMID:23533145
PMID:23983584	PMID:24046456	PMID:24377861	PMID:25204797	PMID:25429154	PMID:25468996	PMID:25732136	PMID:25893292	PMID:27676653	PMID:30452906

Genomics

Comparative Map Data

Flot1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	20	3,427,890 - 3,438,418 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	3,427,880 - 3,438,396 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	5,524,708 - 5,535,232 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	20	3,065,792 - 3,076,166 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	20	3,066,008 - 3,169,167 (-)	NCBI
Celera	20	343,778 - 353,887 (-)	NCBI		Celera
Cytogenetic Map	20	p12	NCBI

FLOT1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	6	30,727,709 - 30,742,732 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	6	30,727,709 - 30,742,847 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	6	30,695,506 - 30,710,687 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	30,803,490 - 30,818,432 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	6	30,803,491 - 30,818,432	NCBI
Celera	6	32,293,643 - 32,308,593 (-)	NCBI
Cytogenetic Map	6	p21.33	NCBI
HuRef	6	30,495,459 - 30,510,242 (-)	NCBI		HuRef
CHM1_1	6	30,697,614 - 30,712,736 (-)	NCBI		CHM1_1

Flot1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	36,134,213 - 36,143,681 (+)	NCBI	GRCm39		mm39
GRCm38	17	35,823,320 - 35,832,789 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	35,823,230 - 35,832,791 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	35,960,302 - 35,969,732 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	17	35,431,410 - 35,440,840 (+)	NCBI			mm8
Celera	17	39,333,424 - 39,342,847 (+)	NCBI		Celera
Cytogenetic Map	17	B1	NCBI

Flot1
(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_004955583	713,560 - 729,924 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955583	717,246 - 729,924 (-)	NCBI	ChiLan1.0	ChiLan1.0

FLOT1
(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	6	31,342,026 - 31,357,505 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	31,342,033 - 31,357,559 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	6	30,472,839 - 30,487,809 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

FLOT1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	12	516,032 - 528,637 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	12	517,941 - 528,677 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Flot1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936837	387,012 - 401,076 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

FLOT1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	23,253,160 - 23,265,106 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	23,253,157 - 23,265,165 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	26,975,124 - 26,987,109 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

FLOT1
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1 Ensembl	17	41,714,402 - 41,725,397 (+)	Ensembl
ChlSab1.1	17	41,714,354 - 41,725,820 (+)	NCBI

Flot1
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624754	24,992,961 - 25,000,463 (+)	NCBI

Position Markers

D20Yum36

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	20	3,433,998 - 3,434,548	NCBI	Rnor6.0
Rnor_6.0	20	3,434,393 - 3,434,548	NCBI	Rnor6.0
Rnor_5.0	20	5,531,211 - 5,531,366	UniSTS	Rnor5.0
Rnor_5.0	20	5,530,816 - 5,531,366	UniSTS	Rnor5.0
RGSC_v3.4	20	3,071,900 - 3,072,055	UniSTS	RGSC3.4
Celera	20	349,883 - 350,038	UniSTS
Cytogenetic Map	20	p12	UniSTS

RH129082

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	20	3,427,936 - 3,428,104	NCBI	Rnor6.0
Rnor_5.0	20	5,524,754 - 5,524,922	UniSTS	Rnor5.0
RGSC_v3.4	20	3,065,838 - 3,066,006	UniSTS	RGSC3.4
Celera	20	343,824 - 343,992	UniSTS
Cytogenetic Map	20	p12	UniSTS
RH 3.4 Map	20	52.42	UniSTS

RH131920

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	20	3,438,869 - 3,439,051	NCBI	Rnor6.0
Rnor_5.0	20	5,535,687 - 5,535,869	UniSTS	Rnor5.0
RGSC_v3.4	20	3,076,639 - 3,076,821	UniSTS	RGSC3.4
Celera	20	354,360 - 354,542	UniSTS
Cytogenetic Map	20	p12	UniSTS
RH 3.4 Map	20	52.72	UniSTS

RH140901

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	20	3,427,890 - 3,428,040	NCBI	Rnor6.0
Rnor_5.0	20	5,524,708 - 5,524,858	UniSTS	Rnor5.0
RGSC_v3.4	20	3,065,792 - 3,065,942	UniSTS	RGSC3.4
Celera	20	343,778 - 343,928	UniSTS
Cytogenetic Map	20	p12	UniSTS
RH 3.4 Map	20	52.32	UniSTS

UniSTS:496739

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	20	3,439,361 - 3,439,462	NCBI	Rnor6.0
Rnor_5.0	20	5,536,179 - 5,536,280	UniSTS	Rnor5.0
RGSC_v3.4	20	3,077,131 - 3,077,232	UniSTS	RGSC3.4
Celera	20	354,852 - 354,953	UniSTS
Cytogenetic Map	20	p12	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
724519	Bp144	Blood pressure QTL 144		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	20	1	5192000	Rat
1354642	Despr15	Despair related QTL 15		0.0027	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	20	1	24652101	Rat
1600382	Edcs3	Endometrial carcinoma susceptibility QTL3	3.5	0.003	uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	20	1	25653396	Rat
1641893	Alcrsp7	Alcohol response QTL 7			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	1	26305996	Rat
2317851	Alcrsp22	Alcohol response QTL 22	3.2	0.05	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	1	26305996	Rat
7387283	Uae44	Urinary albumin excretion QTL 44		0.1712	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	20	1	27357423	Rat
9590275	Scort15	Serum corticosterone level QTL 15	3.48	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	28375393	Rat
9589155	Insul32	Insulin level QTL 32	6.38	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	20	1	28375393	Rat
9590109	Sffal8	Serum free fatty acids level QTL 8	5.32	0.01	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	20	1	28375393	Rat
7411650	Foco23	Food consumption QTL 23	20.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	28375393	Rat
8694189	Bw153	Body weight QTL 153	3.13	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	20	1	28375393	Rat
6893685	Bw111	Body weight QTL 111	2.7	0.004	body mass (VT:0001259)	body weight (CMO:0000012)	20	1	33300419	Rat
9590252	Scort12	Serum corticosterone level QTL 12	20.46	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	37550487	Rat
7411668	Foco32	Food consumption QTL 32	8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	37550487	Rat
2305926	Iddm37	Insulin dependent diabetes mellitus QTL 37	6		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	20	2018654	47018654	Rat
2306850	Pia40	Pristane induced arthritis QTL 40		0.0001	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	20	2018770	6567419	Rat
1641915	Colcr9	Colorectal carcinoma resistance QTL 9	2.97	0.0024	intestine integrity trait (VT:0010554)	benign colorectal tumor number (CMO:0001795)	20	2999707	47999707	Rat
61472	Aia1	Adjuvant induced arthritis QTL 1	18	0.001	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	20	3151815	6896013	Rat
61448	Ciaa1	CIA Autoantibody QTL 1	30	0.001	blood autoantibody amount (VT:0003725)	calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)	20	3151815	6896013	Rat
2317057	Aia27	Adjuvant induced arthritis QTL 27	2.83		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	20	3402111	27968216	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	135
Count of miRNA genes:	100
Interacting mature miRNAs:	108
Transcripts:	ENSRNOT00000001098
Prediction methods:	Microtar, 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.

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	38	50	34	19	34	1	4	74	30	36	11	1
Low		5	7	7		7	7	7		5	5		7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_022701	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006256024	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AABR07044366	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01099433	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC064652	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BX883048	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB324456	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB326388	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474118	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CK359020	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DY569467	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U60976	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U60977	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000001098 ⟹ ENSRNOP00000001098

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	3,427,892 - 3,438,389 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000077092

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	3,427,892 - 3,430,085 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000082523

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	3,427,893 - 3,428,625 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000083657

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	3,427,880 - 3,438,098 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000090039 ⟹ ENSRNOP00000071275

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	3,427,890 - 3,438,396 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000091945 ⟹ ENSRNOP00000068968

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	3,435,966 - 3,438,360 (-)	Ensembl

RefSeq Acc Id:

NM_022701 ⟹ NP_073192

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	20	3,427,890 - 3,438,396 (-)	NCBI
Rnor_5.0	20	5,524,708 - 5,535,232 (-)	NCBI
RGSC_v3.4	20	3,065,792 - 3,076,166 (-)	RGD
Celera	20	343,778 - 353,887 (-)	RGD

Sequence:

show sequence

GGGCGGGGTCGCGTCTGTTGCTGCAACAGGGTGCGGCCGGGTCGGGGGCGCAAGTGCAGTTTCC
ACTAAGCCGGGTGTTCAAGCAGTCTCCACCCAGTTTTGGGGCTCTGCGGGTCTCCGCGCTTCCC
TAGACCCCAGTGGGGTTGCTTACCGGCATTCCGGAAGCCTCAACTATGTTTTTCACTTGTGGCC
CAAATGAGGCCATGGTGGTCTCCGGGTTCTGCAGGAGCCCCCCAGTCATGGTGGCCGGAGGCCG
AGTGTTTGTCCTACCCTGCATTCAACAAATCCAAAGGATCTCTCTCAACACACTGACCCTCAAT
GTCAAGAGTGAGAAGGTTTATACCCGCCACGGGGTCCCCATCTCAGTCACGGGCATTGCCCAGG
TGAAAATCCAGGGGCAAAACAAGGAGATGCTGGCAGCTGCCTGCCAGATGTTCCTGGGGAAGAC
AGAGGCAGAGATCGCCCACATTGCCCTGGAGACGCTGGAAGGCCACCAGAGGGCAATCATGGCC
CACATGACTGTGGAGGAGATCTATAAGGACAGACAGAAGTTCTCAGAGCAGGTTTTCAAGGTGG
CCTCCTCCGACCTGGTCAACATGGGTATCAGTGTGGTTAGCTACACTTTGAAGGACATTCACGA
TGACCAGGATTACTTACACTCTTTGGGGAAGGCTCGCACAGCACAAGTGCAGAAAGATGCTCGG
ATTGGAGAAGCAGAGGCCAAGAGAGATGCGGGGATACGGGAGGCTAAGGCCAAGCAGGAGAAGG
TATCCGCACAGTGCCTCAGTGAAATAGAGATGGCCAAGGCCCAGAGGGACTATGAGCTGAAGAA
AGCCACCTACGACATTGAGGTCAACACCCGGCGAGCACAGGCAGACCTGGCCTATCAGCTGCAG
GTGGCCAAGACGAAGCAGCAGATCGAGGAGCAGCGGGTACAGGTGCAGGTGGTGGAGCGCGCCC
AGCAGGTGGCAGTGCAGGAGCAGGAGATAGCAAGGCGCGAGAAGGAGCTGGAGGCCCGGGTGCG
CAAGCCAGCGGAGGCTGAGCGCTACAGGCTGGAGCGCCTGGCGGAAGCAGAGAAGGCCCAGCTG
ATCATGCAGGCAGAAGCTGAAGCTGAGTCTGTGCGGATGCGAGGGGAAGCTGAGGCCTTTGCCG
TAGGGGCCCGCGCTCGTGCTGAGGCTGAGCAAATGGCCAAGAAGGCAGAAGCCTTCCAGATGTA
CCAGGAGGCCGCCCAGCTGGACATGCTGCTGGAGAAACTGCCCCAGGTGGCAGAAGAGATCAGT
GGCCCCCTGACCTCAGCCAATAAGATCACGCTGGTGTCTAGCGGAAGCGGAACCATGGGGGCCG
CCAAAGTTACTGGGGAAGTACTGGACATCTTAAGCCGTCTGCCAGAGAGTGTGGAGAGACTCAC
AGGCGTCAGCATCTCCCAGGTGAATCACAACAAGCCTTTAAGGACGGCGTGAGCCCTCAGTTCC
CAATGGTACCTGGACATGTGGCCCAATGGTCTCATTGCATGCGCCTCAGTTGGCCTCCCTGAGC
ATGACCCCCTGCCAAGGGTGCACATCTCTCCTTGCCAAATAGTCTGTGCCTTGCCTTGGAGGGC
TTGCTCTCCGCCCATTTGCCAGTGCCCTGCACCAAGACTTTGGTTATCTTACTTCACCCCAACT
ATTTAACTTCCTGATTAAACGAGACTGAGCCCTCTGAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006256024 ⟹ XP_006256086

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	20	3,427,890 - 3,438,418 (-)	NCBI
Rnor_5.0	20	5,524,708 - 5,535,232 (-)	NCBI

Sequence:

show sequence

GGCGGGCCGAGGGCTTGGGAGGGGGCGGGGTCGCGTCTGTTGCTGCAACAGGGTGCGGCCGGGT
CGGGGGCGCAAGTGCAGTTTCCACTAAGCCGGGTGTTCAAGCAGTCTCCACCCAGTTTTGGGGC
TCTGCGGGTCTCCGCGCTTCCCTAGACCCCAGTGGGGTTGCTTACCGGCATTCCGGAAGTTGCA
GCCTCAACTATGTTTTTCACTTGTGGCCCAAATGAGGCCATGGTGGTCTCCGGGTTCTGCAGGA
GCCCCCCAGTCATGGTGGCCGGAGGCCGAGTGTTTGTCCTACCCTGCATTCAACAAATCCAAAG
GATCTCTCTCAACACACTGACCCTCAATGTCAAGAGTGAGAAGGTTTATACCCGCCACGGGGTC
CCCATCTCAGTCACGGGCATTGCCCAGGTGAAAATCCAGGGGCAAAACAAGGAGATGCTGGCAG
CTGCCTGCCAGATGTTCCTGGGGAAGACAGAGGCAGAGATCGCCCACATTGCCCTGGAGACGCT
GGAAGGCCACCAGAGGGCAATCATGGCCCACATGACTGTGGAGGAGATCTATAAGGACAGACAG
AAGTTCTCAGAGCAGGTTTTCAAGGTGGCCTCCTCCGACCTGGTCAACATGGGTATCAGTGTGG
TTAGCTACACTTTGAAGGACATTCACGATGACCAGGATTACTTACACTCTTTGGGGAAGGCTCG
CACAGCACAAGTGCAGAAAGATGCTCGGATTGGAGAAGCAGAGGCCAAGAGAGATGCGGGGATA
CGGGAGGCTAAGGCCAAGCAGGAGAAGGTATCCGCACAGTGCCTCAGTGAAATAGAGATGGCCA
AGGCCCAGAGGGACTATGAGCTGAAGAAAGCCACCTACGACATTGAGGTCAACACCCGGCGAGC
ACAGGCAGACCTGGCCTATCAGCTGCAGGTGGCCAAGACGAAGCAGCAGATCGAGGAGCAGCGG
GTACAGGTGCAGGTGGTGGAGCGCGCCCAGCAGGTGGCAGTGCAGGAGCAGGAGATAGCAAGGC
GCGAGAAGGAGCTGGAGGCCCGGGTGCGCAAGCCAGCGGAGGCTGAGCGCTACAGGCTGGAGCG
CCTGGCGGAAGCAGAGAAGGCCCAGCTGATCATGCAGGCAGAAGCTGAAGCTGAGTCTGTGCGG
ATGCGAGGGGAAGCTGAGGCCTTTGCCGTAGGGGCCCGCGCTCGTGCTGAGGCTGAGCAAATGG
CCAAGAAGGCAGAAGCCTTCCAGATGTACCAGGAGGCCGCCCAGCTGGACATGCTGCTGGAGAA
ACTGCCCCAGGTGGCAGAAGAGATCAGTGGCCCCCTGACCTCAGCCAATAAGATCACGCTGGTG
TCTAGCGGAAGCGGAACCATGGGGGCCGCCAAAGTTACTGGGGAAGTACTGGACATCTTAAGCC
GTCTGCCAGAGAGTGTGGAGAGACTCACAGGCGTCAGCATCTCCCAGGTGAATCACAACAAGCC
TTTAAGGACGGCGTGAGCCCTCAGTTCCCAATGGTACCTGGACATGTGGCCCAATGGTCTCATT
GCATGCGCCTCAGTTGGCCTCCCTGAGCATGACCCCCTGCCAAGGGTGCACATCTCTCCTTGCC
AAATAGTCTGTGCCTTGCCTTGGAGGGCTTGCTCTCCGCCCATTTGCCAGTGCCCTGCACCAAG
ACTTTGGTTATCTTACTTCACCCCAACTATTTAACTTCCTGATTAAACGAGACTGAGCCCTCTG

hide sequence

Protein Sequences


Protein RefSeqs	NP_073192	(Get FASTA)	NCBI Sequence Viewer
	XP_006256086	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC98705	(Get FASTA)	NCBI Sequence Viewer
	AAC98706	(Get FASTA)	NCBI Sequence Viewer
	AAH64652	(Get FASTA)	NCBI Sequence Viewer
	CAE84030	(Get FASTA)	NCBI Sequence Viewer
	EDL86740	(Get FASTA)	NCBI Sequence Viewer
	EDL86741	(Get FASTA)	NCBI Sequence Viewer
	Q9Z1E1	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_073192 ⟸ NM_022701

- UniProtKB:

Q9Z1E1 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MFFTCGPNEAMVVSGFCRSPPVMVAGGRVFVLPCIQQIQRISLNTLTLNVKSEKVYTRHGVPIS
VTGIAQVKIQGQNKEMLAAACQMFLGKTEAEIAHIALETLEGHQRAIMAHMTVEEIYKDRQKFS
EQVFKVASSDLVNMGISVVSYTLKDIHDDQDYLHSLGKARTAQVQKDARIGEAEAKRDAGIREA
KAKQEKVSAQCLSEIEMAKAQRDYELKKATYDIEVNTRRAQADLAYQLQVAKTKQQIEEQRVQV
QVVERAQQVAVQEQEIARREKELEARVRKPAEAERYRLERLAEAEKAQLIMQAEAEAESVRMRG
EAEAFAVGARARAEAEQMAKKAEAFQMYQEAAQLDMLLEKLPQVAEEISGPLTSANKITLVSSG
SGTMGAAKVTGEVLDILSRLPESVERLTGVSISQVNHNKPLRTA

hide sequence

RefSeq Acc Id:	XP_006256086 ⟸ XM_006256024
- Peptide Label:	isoform X1
- UniProtKB:	Q9Z1E1 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MFFTCGPNEAMVVSGFCRSPPVMVAGGRVFVLPCIQQIQRISLNTLTLNVKSEKVYTRHGVPIS VTGIAQVKIQGQNKEMLAAACQMFLGKTEAEIAHIALETLEGHQRAIMAHMTVEEIYKDRQKFS EQVFKVASSDLVNMGISVVSYTLKDIHDDQDYLHSLGKARTAQVQKDARIGEAEAKRDAGIREA KAKQEKVSAQCLSEIEMAKAQRDYELKKATYDIEVNTRRAQADLAYQLQVAKTKQQIEEQRVQV QVVERAQQVAVQEQEIARREKELEARVRKPAEAERYRLERLAEAEKAQLIMQAEAEAESVRMRG EAEAFAVGARARAEAEQMAKKAEAFQMYQEAAQLDMLLEKLPQVAEEISGPLTSANKITLVSSG SGTMGAAKVTGEVLDILSRLPESVERLTGVSISQVNHNKPLRTA hide sequence

RefSeq Acc Id:

ENSRNOP00000071275 ⟸ ENSRNOT00000090039

RefSeq Acc Id:

ENSRNOP00000068968 ⟸ ENSRNOT00000091945

RefSeq Acc Id:

ENSRNOP00000001098 ⟸ ENSRNOT00000001098

Protein Domains

PHB

Transcriptome

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

Promoters

RGD ID:

13701306

Promoter ID:

EPDNEW_R11825

Type:

initiation region

Name:

Flot1_1

Description:

flotillin 1

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	20	3,438,341 - 3,438,401	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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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

BN/SsN (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

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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CSV

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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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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)

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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

GH/OmrMcwi (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)

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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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

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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CSV

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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

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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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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

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

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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

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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

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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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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

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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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

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:70991	AgrOrtholog
Ensembl Genes	ENSRNOG00000000826	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000001098	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000068968	UniProtKB/TrEMBL
	ENSRNOP00000071275	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000001098	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000090039	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000091945	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:5598180	IMAGE-MGC_LOAD
InterPro	Band_7	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Band_7/SPFH_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Flotillin_C	UniProtKB/Swiss-Prot
	Flotillin_fam	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:64665	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:72438	IMAGE-MGC_LOAD
NCBI Gene	64665	ENTREZGENE
PANTHER	PTHR13806	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Band_7	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Flot	UniProtKB/Swiss-Prot
PhenoGen	Flot1	PhenoGen
SMART	PHB	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF117892	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene	Rn.9567	ENTREZGENE
UniProt	A0A0G2JU52_RAT	UniProtKB/TrEMBL
	FLOT1_RAT	UniProtKB/Swiss-Prot
	Q6MG17_RAT	UniProtKB/TrEMBL
	Q9Z1E1	ENTREZGENE
UniProt Secondary	Q9Z1E2	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2002-07-09	Flot1	flotillin 1			Symbol and Name updated to reflect Human and Mouse nomenclature	70877	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_cellular_localization	enriched at the plasma membrane, micropatches in neurons and in nonneuronal cells	70739
gene_mapping	found within the rat major histocompatibility RT1 complex	1300431

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 - CTD

Imported Annotations - KEGG (archival)