Myo1c (myosin 1C) - Rat Genome Database

Name: Myo1c
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Myo1c (myosin 1C) Rattus norvegicus

Analyze

Symbol:

Myo1c

Name:

myosin 1C

RGD ID:

620443

Description:

Exhibits actin filament binding activity; calmodulin binding activity; and nucleoside-triphosphatase activity. Involved in positive regulation of actin filament polymerization and positive regulation of cellular response to insulin stimulus. Localizes to several cellular components, including membrane raft; ruffle membrane; and stereocilium bundle. Orthologous to human MYO1C (myosin IC); PARTICIPATES IN auditory mechanotransduction pathway; insulin responsive facilitative sugar transporter mediated glucose transport pathway; INTERACTS WITH 2,4-dinitrotoluene; 4,4'-diaminodiphenylmethane; acetamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

LOC100365624; LOC686250; MMI-beta; MMIb; myosin heavy chain myr 2; myosin I beta; myosin IC; myosin IC-like; myosin-Ic; Myr2; similar to unconventional myosin Myr2 I heavy chain; unconventional myosin Myr2 I heavy chain; unconventional myosin-Ic

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):	MYO1C (myosin IC)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther
Mus musculus (house mouse):	Myo1c (myosin IC)	HGNC	EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Myo1c (myosin IC)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	MYO1C (myosin IC)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	MYO1C (myosin IC)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Myo1c (myosin IC)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	MYO1C (myosin IC)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	MYO1C (myosin IC)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Myo1c (myosin IC)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Myo1c (myosin IC)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Homo sapiens (human):	MYO1C (myosin IC)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Danio rerio (zebrafish):	myo1cb (myosin Ic, paralog b)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Drosophila melanogaster (fruit fly):	Myo61F	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)

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	10	60,498,374 - 60,520,752 (+)	NCBI
Rnor_6.0 Ensembl	10	63,803,309 - 63,819,614 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	10	63,803,311 - 63,819,614 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	10	64,185,628 - 64,201,931 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	62,990,673 - 63,006,974 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	63,004,293 - 63,020,597 (+)	NCBI
Celera	10	59,530,993 - 59,546,121 (+)	NCBI		Celera
Cytogenetic Map	10	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

atrial fibrillation (ISO)

Experimental Liver Cirrhosis (ISO)

syndromic microphthalmia 5 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

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

2,4-diaminotoluene (ISO)

2,4-dinitrotoluene (EXP)

2-butoxyethanol (ISO)

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

4,4'-diaminodiphenylmethane (EXP)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

acetamide (EXP)

acrolein (ISO)

aflatoxin B2 (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

benzoates (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

bleomycin A2 (EXP)

cadmium atom (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

choline (ISO)

cobalt dichloride (EXP,ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

dibutyl phthalate (EXP,ISO)

doxorubicin (ISO)

entinostat (ISO)

fenvalerate (EXP)

folic acid (ISO)

fumonisin B1 (ISO)

hydrogen peroxide (ISO)

indometacin (ISO)

L-methionine (ISO)

methapyrilene (ISO)

ozone (ISO)

paracetamol (ISO)

pentachlorophenol (ISO)

pioglitazone (ISO)

pirinixic acid (EXP,ISO)

sodium arsenite (ISO)

tamoxifen (ISO)

tetrachloromethane (EXP)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

actin filament organization (IBA)

cellular response to interferon-gamma (ISO)

positive regulation of actin filament polymerization (IMP)

positive regulation of cell migration (ISO)

positive regulation of cell migration by vascular endothelial growth factor signaling pathway (ISO)

positive regulation of cellular response to insulin stimulus (IMP,ISO)

positive regulation of protein targeting to membrane (ISO)

positive regulation of vascular endothelial growth factor signaling pathway (ISO)

protein targeting (ISO)

protein targeting to membrane (ISO)

regulation of bicellular tight junction assembly (ISO)

vesicle transport along actin filament (IBA,ISO)

Cellular Component

actin cytoskeleton (IBA)

basal plasma membrane (ISO)

brush border (ISO)

cytoplasm (IBA,ISO)

cytoplasmic vesicle (IDA)

cytoplasmic vesicle membrane (ISO)

endosome (ISO)

filamentous actin (ISO)

lateral plasma membrane (ISO)

membrane (ISO)

membrane raft (IDA,ISO)

microvillus (IBA,ISO)

myosin complex (IEA)

nuclear body (IEA,ISO)

nucleus (IDA)

phagocytic vesicle (ISO)

plasma membrane (IBA,ISO)

ruffle membrane (IDA)

stereocilium (ISO)

stereocilium bundle (IDA)

stereocilium membrane (IEA)

stress fiber (ISO)

vesicle (IBA)

Molecular Function

actin filament binding (IBA,IDA)

actin-dependent ATPase activity (IBA,IDA)

ATP binding (IEA)

calmodulin binding (IDA)

microfilament motor activity (IBA,IDA,ISO)

protein binding (ISO)

protein C-terminus binding (ISO)

signaling receptor binding (ISO)

small GTPase binding (IEA,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

auditory mechanotransduction pathway (ISO)

insulin responsive facilitative sugar transporter mediated glucose transport pathway (ISO)

References

References - curated


1.	Adamek N, etal., Biochemistry. 2010 Feb 9;49(5):958-71. doi: 10.1021/bi901803j.
2.	Arif E, etal., Mol Cell Biol. 2011 May;31(10):2134-50. doi: 10.1128/MCB.05051-11. Epub 2011 Mar 14.
3.	Batters C, etal., Philos Trans R Soc Lond B Biol Sci. 2004 Dec 29;359(1452):1895-905.
4.	Boguslavsky S, etal., Mol Biol Cell. 2012 Oct;23(20):4065-78. doi: 10.1091/mbc.E12-04-0263. Epub 2012 Aug 23.
5.	Chinthalapudi K, etal., J Biol Chem. 2011 Aug 26;286(34):29700-8. doi: 10.1074/jbc.M111.239210. Epub 2011 Jun 16.
6.	Dumont RA, etal., J Assoc Res Otolaryngol 2002 Dec;3(4):375-89. Epub 2002 Feb 27.
7.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8.	Gillespie PG and Muller U, Cell. 2009 Oct 2;139(1):33-44. doi: 10.1016/j.cell.2009.09.010.
9.	GOA data from the GO Consortium
10.	Lieto-Trivedi A and Coluccio LM, Biochemistry. 2008 Sep 23;47(38):10218-26. doi: 10.1021/bi8011059. Epub 2008 Aug 26.
11.	MGD data from the GO Consortium
12.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
13.	OMIM Disease Annotation Pipeline
14.	RGD automated data pipeline
15.	RGD automated import pipeline for gene-chemical interactions
16.	RGD, Sept. 2003
17.	Satoh T Small GTPases. 2014;5:e28102. doi: 10.4161/sgtp.28102. Epub 2014 Mar 10.
18.	Shakib K, etal., Proteomics. 2005 Jul;5(11):2819-38.

Additional References at PubMed

PMID:8719884	PMID:9858156	PMID:11208135	PMID:12490950	PMID:15758024	PMID:15976448	PMID:16957816	PMID:17050716	PMID:17994197	PMID:19046570	PMID:19056867	PMID:19144319
PMID:19199708	PMID:19946888	PMID:20089841	PMID:20458337	PMID:21362503	PMID:22114352	PMID:23262137	PMID:23376485	PMID:23533145	PMID:24056301	PMID:24625528	PMID:26940917

Genomics

Comparative Map Data

Myo1c
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	10	60,498,374 - 60,520,752 (+)	NCBI
Rnor_6.0 Ensembl	10	63,803,309 - 63,819,614 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	10	63,803,311 - 63,819,614 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	10	64,185,628 - 64,201,931 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	62,990,673 - 63,006,974 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	63,004,293 - 63,020,597 (+)	NCBI
Celera	10	59,530,993 - 59,546,121 (+)	NCBI		Celera
Cytogenetic Map	10	q24	NCBI

MYO1C
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	17	1,464,186 - 1,492,686 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	17	1,464,186 - 1,492,686 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	17	1,367,480 - 1,395,980 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	17	1,367,480 - 1,396,001 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	1,314,230 - 1,342,751 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	17	1,314,874 - 1,342,745	NCBI
Celera	17	1,382,666 - 1,411,498 (-)	NCBI
Cytogenetic Map	17	p13.3	NCBI
HuRef	17	1,267,587 - 1,296,167 (-)	NCBI		HuRef
CHM1_1	17	1,376,234 - 1,404,693 (-)	NCBI		CHM1_1

Myo1c
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	75,541,345 - 75,565,469 (+)	NCBI	GRCm39		mm39
GRCm38	11	75,650,519 - 75,674,643 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	75,650,504 - 75,673,910 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	75,465,011 - 75,488,145 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	75,467,773 - 75,490,838 (+)	NCBI			mm8
Celera	11	83,160,567 - 83,183,742 (+)	NCBI		Celera
Cytogenetic Map	11	B5	NCBI
cM Map	11	45.92	NCBI

Myo1c
(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_004955481	1,676,728 - 1,703,488 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955481	1,676,788 - 1,701,421 (+)	NCBI	ChiLan1.0	ChiLan1.0

MYO1C
(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	17	1,345,143 - 1,375,540 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	17	1,345,143 - 1,375,540 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	17	1,446,506 - 1,475,634 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

MYO1C
(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	9	45,636,208 - 45,658,035 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	9	45,635,295 - 45,658,226 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Myo1c
(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_004936538	7,614,985 - 7,639,603 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

MYO1C
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	12	47,691,252 - 47,738,439 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	12	47,691,252 - 47,715,670 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	12	49,785,597 - 49,802,342 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

MYO1C
(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	16	1,137,469 - 1,167,497 (-)	NCBI

Myo1c
(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_004624786	4,188,143 - 4,211,712 (-)	NCBI

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
631554	Bp133	Blood pressure QTL 133		0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	764421	66221621	Rat
2298544	Neuinf9	Neuroinflammation QTL 9	4.6		nervous system integrity trait (VT:0010566)	spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)	10	5877536	64401490	Rat
8662860	Vetf10	Vascular elastic tissue fragility QTL 10			artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	10	6229095	75983805	Rat
61427	Cia16	Collagen induced arthritis QTL 16	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	6429075	99492409	Rat
2303118	Mamtr7	Mammary tumor resistance QTL 7		0.003	mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	10	9841807	108540162	Rat
2301967	Cm73	Cardiac mass QTL 73	4.55		heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	10	14827894	92423564	Rat
631268	Cia21	Collagen induced arthritis QTL 21	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	14827894	107857673	Rat
2316949	Gluco60	Glucose level QTL 60	3.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	14827894	110992275	Rat
1598852	Anxrr19	Anxiety related response QTL 19	5.07		body movement coordination trait (VT:0005424)	number of rearing movements in an experimental apparatus (CMO:0001752)	10	19402814	64402814	Rat
1554317	Bmd4	Bone mineral density QTL 4	9.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	10	20170031	102897474	Rat
70223	Bp57	Blood pressure QTL 57	5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	21523906	83549467	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	1	21523906	90312401	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	21523906	90312401	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	21523906	90312401	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	21523906	90312401	Rat
70198	BpQTLcluster9	Blood pressure QTL cluster 9	2.94		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	21523906	90312401	Rat
1581497	Esta1	Estrogen-induced thymic atrophy QTL 1			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	10	21707766	64648311	Rat
724556	Pur2	Proteinuria QTL 2	5.5		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	10	22901497	93886300	Rat
1331762	Rf40	Renal function QTL 40	3.873		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	10	23861015	66539843	Rat
1331791	Cm31	Cardiac mass QTL 31	3.84606		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	23861015	112626471	Rat
631267	Cia20	Collagen induced arthritis QTL 20	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24483076	107857673	Rat
61325	Aia5	Adjuvant induced arthritis QTL 5		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24483076	107857673	Rat
61354	Pia10	Pristane induced arthritis QTL 10		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24483076	107857673	Rat
70224	Eae3	Experimental allergic encephalomyelitis QTL 3	4.1		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	10	27237530	64648311	Rat
1298069	Bp168	Blood pressure QTL 168	5.5		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	10	27237530	101482600	Rat
631542	Bp82	Blood pressure QTL 82	6.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	27237530	102427718	Rat
2300171	Bmd58	Bone mineral density QTL 58	4.9	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	10	28789280	73789280	Rat
2292441	Bp308	Blood pressure QTL 308			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	30099909	75099909	Rat
10402859	Bp381	Blood pressure QTL 381		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	30099909	75099909	Rat
724527	Bp148	Blood pressure QTL 148		0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	30983805	75983805	Rat
1576311	Pia26	Pristane induced arthritis QTL 26			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	31919397	78343192	Rat
1578779	Tcas10	Tongue tumor susceptibility QTL 10	3.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	10	33179030	78179030	Rat
631557	Bp136	Blood pressure QTL 136		0.003	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	33343192	78343192	Rat
1576319	Cia29	Collagen induced arthritis QTL 29			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	35139424	80139424	Rat
6893342	Cm78	Cardiac mass QTL 78	0.1	0.88	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	10	36185929	82675365	Rat
631552	Vetf2	Vascular elastic tissue fragility QTL 2	4.5	0.0002	aorta elastic tissue integrity trait (VT:0010556)	artery internal elastic lamina non-tumorous lesion count (CMO:0001913)	10	36185929	95845311	Rat
1358897	Stresp6	Stress response QTL 6	4.17	0.022	blood norepinephrine amount (VT:0005663)	plasma norepinephrine level (CMO:0001010)	10	36584373	66539843	Rat
61441	Btemp1	Thermal response to stress QTL 1	4		body temperature trait (VT:0005535)	core body temperature (CMO:0001036)	10	36584560	66015527	Rat
2317042	Aia20	Adjuvant induced arthritis QTL 20	3.38		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	10	40514044	85514044	Rat
2317043	Aia7	Adjuvant induced arthritis QTL 7	3.82		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	10	40514044	85514044	Rat
1576308	Schws1	Schwannoma susceptibility QTL 1		0.0041	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	10	41260363	106105607	Rat
631269	Cia22	Collagen induced arthritis QTL 22	8.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	41260363	107857673	Rat
631270	Cia23	Collagen induced arthritis QTL 23	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	41260363	107857673	Rat
8552805	Bw145	Body weight QTL 145	2.2		body mass (VT:0001259)	change in body weight to body weight ratio (CMO:0002216)	10	43188659	81042642	Rat
1298078	Stresp5	Stress response QTL 5	2.99	0.00025	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	10	43289657	108540162	Rat
61463	Bp12	Blood pressure QTL 12	6.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	43704955	88704955	Rat
2300218	Hpcl2	Hepatic cholesterol level QTL 2			liver cholesterol amount (VT:0010498)	liver cholesterol level (CMO:0001597)	10	46593021	98939209	Rat
9589030	Epfw9	Epididymal fat weight QTL 9	19.24	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	10	46848346	91848346	Rat
7411614	Foco18	Food consumption QTL 18		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	10	46848346	91848346	Rat
8694173	Bw149	Body weight QTL 149	4.38	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	10	46848346	91848346	Rat
631547	Bp87	Blood pressure QTL 87	4.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	50638337	95638337	Rat
2293652	Bmd22	Bone mineral density QTL 22	4.9	0.0001	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	10	51289203	84596393	Rat
2293669	Bmd33	Bone mineral density QTL 33	4.5	0.0001	femur strength trait (VT:0010010)	femoral neck polar moment of inertia (CMO:0001670)	10	51289203	84596393	Rat
2293679	Bmd30	Bone mineral density QTL 30	3.5	0.0001	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	10	51289203	84596393	Rat
2293705	Bmd25	Bone mineral density QTL 25	7.1	0.0001	femur mineral mass (VT:0010011)	cortical volumetric bone mineral density (CMO:0001730)	10	51289203	84596393	Rat
7207811	Bmd90	Bone mineral density QTL 90	5.2		femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	10	51289203	84596393	Rat
1549846	Scl47	Serum cholesterol level QTL 47	3.6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	53104718	98104718	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	53621375	112626471	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	53621375	112626471	Rat
631530	Tls3	T-lymphoma susceptibility QTL 3	0	0.0001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	10	53625815	98939209	Rat
631535	Cm51	Cardiac mass QTL 51	3		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	10	53637485	94807701	Rat
1359017	Hrtrt21	Heart rate QTL 21	2.4		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	10	55224855	100224855	Rat
2306787	Ean3	Experimental allergic neuritis QTL 3	3.1		nervous system integrity trait (VT:0010566)	body weight loss (CMO:0001399)	10	55678976	69385767	Rat
70171	Cari1	Carrageenan-induced inflammation QTL 1	4.9	0.0005	hypodermis integrity trait (VT:0010550)	inflammatory exudate volume (CMO:0001429)	10	55678976	112626471	Rat
70164	Bw21	Body weight QTL 21	4.36	0.00005	body mass (VT:0001259)	body weight (CMO:0000012)	10	55679084	102427604	Rat
1354608	Cm33	Cardiac mass QTL 33	2.8		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	10	56698730	101698730	Rat
2298495	Eae23	Experimental allergic encephalomyelitis QTL 23	16.93		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis duration (CMO:0001424)	10	57180653	63976874	Rat
1549831	Bss6	Bone structure and strength QTL 6	4		lumbar vertebra strength trait (VT:0010574)	vertebra ultimate force (CMO:0001678)	10	60450007	105450007	Rat
2312662	Slep8	Serum leptin concentration QTL 8		0.05	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	10	60875260	105875260	Rat
2312668	Scl65	Serum cholesterol level QTL 65		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	60875260	105875260	Rat
2312672	Insul15	Insulin level QTL 15		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	10	60875260	105875260	Rat
2293698	Bss43	Bone structure and strength QTL 43	5.33	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	10	62096293	107096293	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	233
Count of miRNA genes:	149
Interacting mature miRNAs:	167
Transcripts:	ENSRNOT00000036666
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	3	43	51	35	19	35	8	11	74	35	34	11	8
Low			6	6		6					7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_023092	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039086808	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039086809	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039086810	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039086811	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473948	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GU139350	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GU139351	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GU139354	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000220	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	X74800	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000036666 ⟹ ENSRNOP00000028929

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	10	63,803,309 - 63,819,614 (+)	Ensembl

RefSeq Acc Id:

NM_023092 ⟹ NP_075580

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	60,503,661 - 60,520,752 (+)	NCBI
Rnor_6.0	10	63,803,311 - 63,819,614 (+)	NCBI
Rnor_5.0	10	64,185,628 - 64,201,931 (-)	NCBI
RGSC_v3.4	10	62,990,673 - 63,006,974 (+)	RGD
Celera	10	59,530,993 - 59,546,121 (+)	NCBI

Sequence:

show sequence

GATAGACTCGAGCGGAATCGACGCCGGAGGTCCCAAGGCCCACTCCCACCCAGCCTGGCCAGGC
CGGCTACAGTGGGATCCAGGGGTCGAGACTCCGATCCCCCTAAGCCAAAGGGCCTGCAAGGGGC
AGTGCGGGGGGGGGGGCTAGCCCCTCCCTCGGTGACCGTGCGCCGGAGCACTGATTAACGCGGG
CACGGAGCAGGGCACCAGGTCGCAGGATGCGCTACCGGGCGTCGGCCCTGGGCAGTGACGGGGT
ACGAGTGACCATGGAGAGCGCCTTGACTGCCCGAGACCGGGTGGGGGTGCAAGACTTTGTTCTG
CTGGAGAACTTCACCAGTGAGGCTGCCTTCATTGAGAACCTCCGGCGTCGATTCCGGGAGAACC
TCATTTATACCTACATTGGCCCTGTCCTGGTCTCTGTCAACCCCTACCGGGACCTACAGATCTA
CACACGGCAACATATGGAACGCTACCGTGGCGTCAGTTTCTATGAAGTGCCGCCTCATCTGTTT
GCAGTGGCTGACACTGTATACCGGGCGCTTCGTACTGAGCGTCGGGACCAAGCAGTGATGATTT
CTGGAGAGAGTGGGGCAGGGAAGACAGAGGCCACCAAGAGATTGCTCCAGTTCTATGCAGAGAC
CTGCCCAGCCCCTGAAAGGGGTGGCGCAGTGCGAGACCGCCTGTTGCAGAGCAACCCTGTGCTG
GAGGCCTTTGGGAATGCCAAGACTCTCCGCAACGACAACTCCAGCCGCTTTGGGAAGTACATGG
ATGTGCAGTTTGACTTCAAGGGTGCCCCTGTGGGAGGCCACATTCTCAGTTACCTCCTGGAGAA
GTCTCGAGTGGTACACCAGAATCACGGAGAACGGAACTTCCACGTCTTTTACCAGCTCCTGGAG
GGGGGGGAGGAGGAGGCTCTTCGTCGTCTGGGCTTGGAACGGAACCCCCAGAGCTACTTGTACC
TGGTGAAGGGCCAGTGTGCCAAGGTCTCCTCCATCAATGACAAGAGTGACTGGAAGGTTGTGAG
GAAGGCGCTGTCAGTCATTGACTTCACTGAGGATGAAGTGGAGGACTTGCTAAGCATCGTGGCC
AGCGTCCTACATCTGGGCAATATCCACTTTGCTGCTGATGAGGACAGCAATGCCCAGGTTACTA
CTGAGAACCAGCTCAAATATCTGACCAGGCTCCTTGGTGTGGAAGGCACAACACTGAGGGAAGC
CCTGACCCACAGGAAGATCATCGCCAAGGGGGAAGAGCTCCTGAGCCCACTGAACCTTGAACAG
GCTGCATATGCAAGGGATGCTCTTGCCAAGGCTGTGTACAGCCGCACTTTCACCTGGTTGGTCA
GAAAGATCAATAGGTCTCTGGCCTCTAAGGACGCTGAGAGCCCCAGCTGGCGAAGCACCACAGT
TCTTGGGCTCCTGGACATTTATGGCTTCGAAGTGTTTCAGCATAACAGCTTCGAGCAGTTCTGC
ATCAACTATTGCAATGAGAAGCTGCAGCAGCTCTTCATTGAGCTGACTCTCAAGTCCGAGCAGG
AGGAATACGAGGCAGAGGGCATCGCGTGGGAACCTGTCCAATACTTCAACAACAAGATCATCTG
TGACCTGGTGGAGGAGAAATTCAAGGGCATCATCTCCATCTTGGATGAAGAGTGCCTGCGTCCT
GGGGAGGCCACAGACCTGACCTTCCTGGAGAAGCTGGAGGACACAATCAAGCACCACCCTCACT
TCCTGACGCACAAGCTTGCTGACCAGAAGACCAGGAAATCCCTCGACCGAGGGGAGTTCCGCCT
TCTTCATTATGCGGGAGAGGTGACCTACAGCGTGACTGGGTTTCTGGATAAAAACAATGACCTC
CTCTTCCGGAACCTGAAGGAGACCATGTGCAGCTCCACGAACCCCATCATGGCCCAGTGCTTTG
ACAAGAGTGAGCTCAGTGACAAGAAGCGGCCAGAGACGGTGGCCACCCAGTTCAAGATGAGCCT
CTTGCAGCTAGTGGAGATCCTGAGGTCTAAGGAACCTGCTTATATCCGGTGCATCAAGCCAAAT
GACGCCAAACAGCCGGGTCGCTTTGATGAGGTGCTCATCCGACACCAAGTGAAGTACCTGGGAC
TTATGGAGAATCTGCGTGTGCGCAGAGCTGGCTTTGCCTACCGTCGAAAATATGAGGCTTTCCT
GCAGAGGTACAAGTCACTGTGCCCAGAGACATGGCCCGTGTGGACAGGACGGCCCCAGGATGGG
GTGGCTGTGTTGGTCAGACACCTTGGCTATAAGCCAGAAGAGTACAAAATGGGCAGGACTAAGA
TCTTCATCCGATTCCCCAAGACCTTGTTTGCCACAGAGGACTCCCTGGAAGTCCGACGGCAGAG
TCTAGCCACCAAGATCCAGGCGGCGTGGAGGGGCTTTCATTGGCGGCAGAAATTTCTCCGGGTG
AAGCGATCAGCCATCTGTATCCAGTCCTGGTGGCGCGGTACACTGGGCCGGAGGAAGGCAGCCA
AAAGGAAGTGGGCAGCCCAGACTATCCGTAGACTCATCCGTGGCTTCATTTTGCGTCATGCACC
CCGGTGCCCTGAGAATGCCTTCTTCCTGGACCACGTGCGCACGTCATTTTTGCTTAACCTGAGG
CGACAACTACCCCGGAATGTTCTGGACACCTCCTGGCCCACACCCCCACCTGCCCTGAGAGAGG
CCTCGGAGCTGCTCCGGGAGCTATGCATGAAGAACATGGTGTGGAAATACTGCCGGAGTATCAG
CCCTGAGTGGAAGCAGCAGCTGCAGCAAAAGGCGGTGGCTAGTGAAATTTTCAAGGGCAAGAAG
GACAATTACCCCCAGAGTGTCCCCAGACTTTTCATCAGCACACGGCTTGGCACAGAGGAGATCA
GCCCCAGAGTGCTTCAGGCCTTGGGCTCTGAACCCATCCAGTATGCAGTGCCTGTGGTAAAATA
CGACCGTAAGGGCTACAAGCCTCGTTCCCGGCAGCTGCTGCTCACACCCAGTGCTGTGGTCATC
GTGGAGGATGCCAAAGTCAAGCAGAGAATTGATTATGCCAACCTAACTGGAATCTCCGTCAGTA
GCCTGAGTGATAGCCTGTTTGTGCTTCACGTGCAGCGTGAAGACAGCAAGCAGAAGGGAGATGT
GGTACTGCAGAGCGATCATGTGATCGAGACACTAACCAAGACGGCCCTCAGTGCTGACCGTGTG
AATAATATCAACATCAACCAGGGCAGCATCACGTTTGCAGGGGGTCCAGGCAGGGATGGCATCA
TCGACTTCACATCTGGCTCAGAGCTTCTCATCACCAAGGCTAAGAATGGCCACCTGGCTGTGGT
GGCCCCACGGCTGAATTCTCGGTGATGAAGGTGCCGGTGGACCCCTCCTGACTCCTGATGCTTT
GCTTAGTCCCCTCCTCCCCTCCCAGTTACCAAAGACTCAAGCTTCCAGACAGGGATCCAGGGAC
ACCCTCAAAGCCCACCTGCAGACTCCTGCCCCCTGCTCATCCTCTCTTGAGGTGATCAGGAACC
AGGGAGCTTCCCCAGGAGTGGGCCAGGCCGGGCCAAGCAATAGAAAAGCAGAGGTCTGAGCAGG
CCAGGCCAGCCCTCTGCTGATGCCAAATATCTAAGAGAAGGGAATTTTAACTGAGGTTTTCTCT
GAGACTTTTTGATGCTTTATAGGAAACTATTTTTTTAAAAAAGTCATTTTCCTATCCTAAACAC
ACTGGATGTGTTTTCCCTGACTCAAACAGGACAAGGAATGTAGCTGAAAGACTGACTGGGCTGG
CTGAGGCCCCCCCTCTCTGCCAAGCCTCTCCTCA

hide sequence

RefSeq Acc Id:

XM_039086808 ⟹ XP_038942736

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	60,498,374 - 60,520,750 (+)	NCBI

RefSeq Acc Id:

XM_039086809 ⟹ XP_038942737

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	60,499,330 - 60,520,750 (+)	NCBI

RefSeq Acc Id:

XM_039086810 ⟹ XP_038942738

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	60,502,673 - 60,520,750 (+)	NCBI

RefSeq Acc Id:

XM_039086811 ⟹ XP_038942739

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	60,505,094 - 60,520,750 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_075580	(Get FASTA)	NCBI Sequence Viewer
	XP_038942736	(Get FASTA)	NCBI Sequence Viewer
	XP_038942737	(Get FASTA)	NCBI Sequence Viewer
	XP_038942738	(Get FASTA)	NCBI Sequence Viewer
	XP_038942739	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	CAA52807	(Get FASTA)	NCBI Sequence Viewer
	EDM05235	(Get FASTA)	NCBI Sequence Viewer
	EDM05236	(Get FASTA)	NCBI Sequence Viewer
	Q63355	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_075580 ⟸ NM_023092

- UniProtKB:

Q63355 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MRYRASALGSDGVRVTMESALTARDRVGVQDFVLLENFTSEAAFIENLRRRFRENLIYTYIGPV
LVSVNPYRDLQIYTRQHMERYRGVSFYEVPPHLFAVADTVYRALRTERRDQAVMISGESGAGKT
EATKRLLQFYAETCPAPERGGAVRDRLLQSNPVLEAFGNAKTLRNDNSSRFGKYMDVQFDFKGA
PVGGHILSYLLEKSRVVHQNHGERNFHVFYQLLEGGEEEALRRLGLERNPQSYLYLVKGQCAKV
SSINDKSDWKVVRKALSVIDFTEDEVEDLLSIVASVLHLGNIHFAADEDSNAQVTTENQLKYLT
RLLGVEGTTLREALTHRKIIAKGEELLSPLNLEQAAYARDALAKAVYSRTFTWLVRKINRSLAS
KDAESPSWRSTTVLGLLDIYGFEVFQHNSFEQFCINYCNEKLQQLFIELTLKSEQEEYEAEGIA
WEPVQYFNNKIICDLVEEKFKGIISILDEECLRPGEATDLTFLEKLEDTIKHHPHFLTHKLADQ
KTRKSLDRGEFRLLHYAGEVTYSVTGFLDKNNDLLFRNLKETMCSSTNPIMAQCFDKSELSDKK
RPETVATQFKMSLLQLVEILRSKEPAYIRCIKPNDAKQPGRFDEVLIRHQVKYLGLMENLRVRR
AGFAYRRKYEAFLQRYKSLCPETWPVWTGRPQDGVAVLVRHLGYKPEEYKMGRTKIFIRFPKTL
FATEDSLEVRRQSLATKIQAAWRGFHWRQKFLRVKRSAICIQSWWRGTLGRRKAAKRKWAAQTI
RRLIRGFILRHAPRCPENAFFLDHVRTSFLLNLRRQLPRNVLDTSWPTPPPALREASELLRELC
MKNMVWKYCRSISPEWKQQLQQKAVASEIFKGKKDNYPQSVPRLFISTRLGTEEISPRVLQALG
SEPIQYAVPVVKYDRKGYKPRSRQLLLTPSAVVIVEDAKVKQRIDYANLTGISVSSLSDSLFVL
HVQREDSKQKGDVVLQSDHVIETLTKTALSADRVNNININQGSITFAGGPGRDGIIDFTSGSEL
LITKAKNGHLAVVAPRLNSR

hide sequence

RefSeq Acc Id:

ENSRNOP00000028929 ⟸ ENSRNOT00000036666

RefSeq Acc Id:	XP_038942736 ⟸ XM_039086808
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038942737 ⟸ XM_039086809
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038942738 ⟸ XM_039086810
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038942739 ⟸ XM_039086811
- Peptide Label:	isoform X3

Protein Domains

IQ Myosin motor TH1

Transcriptome

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

Promoters

RGD ID:

13697443

Promoter ID:

EPDNEW_R7967

Type:

initiation region

Name:

Myo1c_1

Description:

myosin 1C

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	10	63,803,333 - 63,803,393	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (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:	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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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

BBDP/Wor (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

BN/SsN (MCW)

Visual

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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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

COP/CrCrl (MCW & UW)

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CSV

TAB

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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

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

F344/NRrrc (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

FHH/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)

FHH/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

FHL/EurMcwi (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:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

Visual

CSV

TAB

Printer

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

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:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (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

LE/Stm (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

LEW/Crl (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

LEW/NCrlBR (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

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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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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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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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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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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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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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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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

Damaging Variants

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
10	63808871	63808872	C	T	snv	BN/SsN (MCW)
10	63809385	63809386	A	G	snv	CDR, CDS

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:620443	AgrOrtholog
Ensembl Genes	ENSRNOG00000004072	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000028929	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000036666	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	3.40.850.10	UniProtKB/Swiss-Prot
InterPro	IQ_motif_EF-hand-BS	UniProtKB/Swiss-Prot
	Kinesin_motor_dom_sf	UniProtKB/Swiss-Prot
	Myosin_head_motor_dom	UniProtKB/Swiss-Prot
	Myosin_TH1	UniProtKB/Swiss-Prot
	MYSc_Myo1	UniProtKB/Swiss-Prot
	P-loop_NTPase	UniProtKB/Swiss-Prot
KEGG Report	rno:65261	UniProtKB/Swiss-Prot
NCBI Gene	65261	ENTREZGENE
Pfam	Myosin_head	UniProtKB/Swiss-Prot
	Myosin_TH1	UniProtKB/Swiss-Prot
	PF00612	UniProtKB/Swiss-Prot
PhenoGen	Myo1c	PhenoGen
PRINTS	MYOSINHEAVY	UniProtKB/Swiss-Prot
PROSITE	MYOSIN_MOTOR	UniProtKB/Swiss-Prot
	PS50096	UniProtKB/Swiss-Prot
	TH1	UniProtKB/Swiss-Prot
SMART	MYSc	UniProtKB/Swiss-Prot
	SM00015	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF52540	UniProtKB/Swiss-Prot
UniProt	MYO1C_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-06-15	Myo1c	myosin 1C	Myo1c	myosin IC	Name changed	629549	APPROVED
2013-04-17	Myo1c	myosin IC	LOC686250	similar to unconventional myosin Myr2 I heavy chain	Data Merged	737654	PROVISIONAL
2013-04-17	Myo1c	myosin IC	LOC100365624	myosin IC-like	Data Merged	737654	PROVISIONAL
2010-05-05	LOC100365624	myosin IC-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-19	LOC686250	similar to unconventional myosin Myr2 I heavy chain			Symbol and Name status set to provisional	70820	PROVISIONAL
2005-12-02	Myo1c	myosin IC	Myr2	unconventional myosin Myr2 I heavy chain	Symbol and Name updated to reflect Human and Mouse nomenclature	1299863	APPROVED
2002-08-07	Myr2	unconventional myosin Myr2 I heavy chain			Symbol and Name status set to provisional	70820	PROVISIONAL

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 Disease Annotations - CTD

RGD Manual Annotations