Actn2 (actinin alpha 2) - Rat Genome Database

Name: Actn2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Actn2 (actinin alpha 2) Rattus norvegicus

Analyze

Symbol:

Actn2

Name:

actinin alpha 2

RGD ID:

1308097

Description:

Predicted to have several functions, including cytoskeletal protein binding activity; ion channel binding activity; and protein domain specific binding activity. Predicted to be involved in several processes, including focal adhesion assembly; muscle cell development; and regulation of ion transmembrane transporter activity. Localizes to glutamatergic synapse; postsynaptic density membrane; and postsynaptic density, intracellular component. Colocalizes with cortical actin cytoskeleton. Human ortholog(s) of this gene implicated in arrhythmogenic right ventricular cardiomyopathy and dilated cardiomyopathy 1AA. Orthologous to human ACTN2 (actinin alpha 2); PARTICIPATES IN arrhythmogenic right ventricular cardiomyopathy pathway; Entamoebiasis pathway; systemic lupus erythematosus pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

alpha-actinin-2; LOC291245

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):	ACTN2 (actinin alpha 2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Actn2 (actinin alpha 2)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Actn2 (actinin alpha 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	ACTN2 (actinin alpha 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	ACTN2 (actinin alpha 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Actn2 (actinin alpha 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	ACTN2 (actinin alpha 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	ACTN2 (actinin alpha 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Actn2 (actinin alpha 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	ACTN3 (actinin alpha 3)	HGNC	OrthoDB
Homo sapiens (human):	ACTN4 (actinin alpha 4)	HGNC	OrthoDB
Homo sapiens (human):	ACTN1 (actinin alpha 1)	HGNC	OrthoDB
Alliance orthologs ³
Homo sapiens (human):	ACTN2 (actinin alpha 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Actn2 (actinin alpha 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	actn2b (actinin, alpha 2b)	Alliance	DIOPT (PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	Actn	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	atn-1	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
mRatBN7.2	17	58,143,334 - 58,210,622 (+)	NCBI
Rnor_6.0 Ensembl	17	66,304,501 - 66,397,653 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	17	66,304,530 - 66,397,647 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	17	68,050,946 - 68,143,522 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	68,705,160 - 68,773,261 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	17	68,681,756 - 68,784,094 (+)	NCBI
Celera	17	62,323,048 - 62,390,681 (-)	NCBI		Celera
Cytogenetic Map	17	q12.1	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

arrhythmogenic right ventricular cardiomyopathy (ISO)

cardiomyopathy (ISO)

catecholaminergic polymorphic ventricular tachycardia (ISO)

Congenital Myopathy with Structured Cores and Z-Line Abnormalities (ISO)

congestive heart failure (ISO)

dilated cardiomyopathy (ISO)

dilated cardiomyopathy 1A (ISO)

dilated cardiomyopathy 1AA (ISO)

dilated cardiomyopathy 1B (ISO)

Dilated Cardiomyopathy with Left Ventricular Noncompaction (ISO)

Distal Myopathy 6 (ISO)

familial hypertrophic cardiomyopathy (ISO)

gastrointestinal stromal tumor (ISO)

genetic disease (ISO)

hypertrophic cardiomyopathy (ISO)

hypertrophic cardiomyopathy 1 (ISO)

Left Ventricular Noncompaction 1 (ISO)

long QT syndrome (ISO)

parathyroid carcinoma (ISO)

Syncope (ISO)

tetralogy of Fallot (ISO)

Ventricular Fibrillation (ISO)

Wolff-Parkinson-White syndrome (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17alpha-ethynylestradiol (ISO)

17beta-estradiol (EXP,ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

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

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

4,4'-sulfonyldiphenol (ISO)

acrylamide (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (EXP,ISO)

benzo[e]pyrene (ISO)

bis(2-ethylhexyl) phthalate (EXP,ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

cadmium dichloride (ISO)

cocaine (ISO)

copper(II) sulfate (ISO)

dexamethasone (ISO)

dextran sulfate (ISO)

dioxygen (ISO)

doxorubicin (ISO)

ethanol (ISO)

folic acid (ISO)

genistein (EXP)

graphite (ISO)

heroin (ISO)

lead(0) (ISO)

lead(2+) (ISO)

maraviroc (ISO)

mercury dichloride (EXP)

methapyrilene (ISO)

nickel dichloride (EXP)

nickel subsulfide (EXP)

paracetamol (ISO)

pioglitazone (ISO)

resveratrol (ISO)

ribavirin (ISO)

serpentine asbestos (ISO)

sodium fluoride (EXP)

spermine (ISO)

sunitinib (ISO)

thalidomide (ISO)

titanium dioxide (ISO)

triclosan (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

actin filament uncapping (ISO)

cardiac muscle cell development (ISO)

focal adhesion assembly (ISO)

microspike assembly (ISO)

muscle contraction (ISO)

negative regulation of potassium ion transmembrane transporter activity (ISO)

negative regulation of potassium ion transport (ISO)

negative regulation of protein localization to cell surface (ISO)

phospholipase C-activating angiotensin-activated signaling pathway (ISO)

positive regulation of cation channel activity (ISO)

positive regulation of endocytic recycling (ISO)

positive regulation of potassium ion transmembrane transporter activity (ISO)

positive regulation of potassium ion transport (ISO)

positive regulation of transcription, DNA-templated (IEA)

protein localization to plasma membrane (ISO)

regulation of membrane potential (ISO)

sarcomere organization (ISO)

Cellular Component

cortical actin cytoskeleton (IDA)

cytosol (TAS)

filopodium (ISO)

focal adhesion (ISO)

glutamatergic synapse (IDA)

plasma membrane (ISO)

postsynaptic density membrane (IDA)

postsynaptic density, intracellular component (IDA)

sarcomere (ISO)

Z disc (ISO)

Molecular Function

actin filament binding (ISO)

calcium ion binding (IEA)

cytoskeletal protein binding (ISO)

FATZ binding (ISO)

identical protein binding (ISO)

ion channel binding (ISO)

LIM domain binding (ISO)

nuclear receptor coactivator activity (ISO)

phosphatidylinositol-4,5-bisphosphate binding (ISO)

protein binding (IPI,ISO)

protein domain specific binding (ISO)

titin binding (ISO)

titin Z domain binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

arrhythmogenic right ventricular cardiomyopathy pathway (IEA)

Entamoebiasis pathway (IEA)

systemic lupus erythematosus pathway (IEA)

References

References - curated


1.	Bauce B, etal., Am J Cardiol. 2000 Mar 1;85(5):573-9.
2.	GOA data from the GO Consortium
3.	Kim CK, etal., J Asthma. 2011 Dec;48(10):994-1000. doi: 10.3109/02770903.2011.623335. Epub 2011 Oct 24.
4.	Li Q, etal., Hum Mol Genet. 2005 Jun 15;14(12):1587-603. Epub 2005 Apr 20.
5.	MGD data from the GO Consortium
6.	OMIM Disease Annotation Pipeline
7.	Pipeline to import KEGG annotations from KEGG into RGD
8.	RGD automated data pipeline
9.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	RGD automated import pipeline for gene-chemical interactions
11.	Schulz TW, etal., J Neurosci. 2004 Sep 29;24(39):8584-94.
12.	Torrado M, etal., Invest Ophthalmol Vis Sci 2004 Nov;45(11):3955-63.
13.	Wyszynski M, etal., J Neurosci. 1998 Feb 15;18(4):1383-92.

Additional References at PubMed

PMID:8618961	PMID:8943213	PMID:9501083	PMID:10391924	PMID:10427098	PMID:10812072	PMID:11101506	PMID:11699871	PMID:11846417	PMID:12356918	PMID:15072553	PMID:15465019
PMID:15665106	PMID:16120608	PMID:16407236	PMID:16585392	PMID:16807302	PMID:17110593	PMID:17360664	PMID:17944866	PMID:18761673	PMID:19040707	PMID:19815520	PMID:19932097
PMID:19943616	PMID:20124353	PMID:20215401	PMID:20368620	PMID:21518265	PMID:22972877	PMID:23376485	PMID:23533145	PMID:24840128	PMID:25007055	PMID:25416956	PMID:25433700
PMID:25502805	PMID:26143257	PMID:29206857	PMID:31515488	PMID:33098872

Genomics

Comparative Map Data

Actn2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	17	58,143,334 - 58,210,622 (+)	NCBI
Rnor_6.0 Ensembl	17	66,304,501 - 66,397,653 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	17	66,304,530 - 66,397,647 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	17	68,050,946 - 68,143,522 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	68,705,160 - 68,773,261 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	17	68,681,756 - 68,784,094 (+)	NCBI
Celera	17	62,323,048 - 62,390,681 (-)	NCBI		Celera
Cytogenetic Map	17	q12.1	NCBI

ACTN2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	1	236,664,141 - 236,764,631 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	1	236,686,499 - 236,764,631 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	1	236,849,799 - 236,927,931 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	234,916,422 - 234,993,863 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	1	233,175,848 - 233,253,281	NCBI
Celera	1	210,097,994 - 210,176,743 (+)	NCBI
Cytogenetic Map	1	q43	NCBI
HuRef	1	207,337,725 - 207,384,040 (+)	NCBI		HuRef
CHM1_1	1	238,123,313 - 238,199,388 (+)	NCBI		CHM1_1

Actn2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	12,284,312 - 12,355,613 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	13	12,284,312 - 12,355,641 (-)	Ensembl
GRCm38	13	12,269,426 - 12,340,732 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	12,269,426 - 12,340,760 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	12,361,693 - 12,432,999 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	13	12,323,759 - 12,395,065 (-)	NCBI			mm8
Celera	13	12,189,170 - 12,257,137 (-)	NCBI		Celera
Cytogenetic Map	13	A1	NCBI
cM Map	13	4.54	NCBI

Actn2
(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_004955492	3,483,511 - 3,555,190 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955492	3,483,704 - 3,554,831 (-)	NCBI	ChiLan1.0	ChiLan1.0

ACTN2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	1	217,276,899 - 217,321,103 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	217,272,597 - 217,321,103 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	212,245,742 - 212,323,387 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

ACTN2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	4	3,348,529 - 3,415,275 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	4	3,348,449 - 3,415,273 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	4	3,395,551 - 3,461,987 (-)	NCBI
ROS_Cfam_1.0	4	3,368,361 - 3,435,149 (-)	NCBI
UMICH_Zoey_3.1	4	3,368,494 - 3,434,944 (-)	NCBI
UNSW_CanFamBas_1.0	4	3,498,915 - 3,565,693 (-)	NCBI
UU_Cfam_GSD_1.0	4	3,719,762 - 3,786,237 (-)	NCBI

Actn2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024409344	40,023,215 - 40,083,168 (-)	NCBI
SpeTri2.0	NW_004936484	16,186,844 - 16,248,394 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ACTN2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	54,666,623 - 54,742,779 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	54,670,727 - 54,742,717 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	58,645,069 - 58,717,200 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

ACTN2
(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	25	73,827,900 - 73,904,516 (+)	NCBI
ChlSab1.1 Ensembl	25	73,827,874 - 73,905,146 (+)	Ensembl

Actn2
(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_004624775	13,917,215 - 13,989,093 (-)	NCBI

Position Markers

D17Rat149

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	17	58,165,311 - 58,165,446 (-)	MAPPER
Rnor_6.0	17	66,349,744 - 66,349,878	NCBI	Rnor6.0
Rnor_5.0	17	68,095,697 - 68,095,831	UniSTS	Rnor5.0
RGSC_v3.4	17	68,727,275 - 68,727,788	RGD	RGSC3.4
RGSC_v3.4	17	68,727,524 - 68,727,658	UniSTS	RGSC3.4
RGSC_v3.1	17	68,738,108 - 68,738,673	RGD
Celera	17	62,367,974 - 62,368,106	UniSTS
RH 3.4 Map	17	608.2	UniSTS
RH 3.4 Map	17	608.2	RGD
SHRSP x BN Map	17	32.6999	UniSTS
SHRSP x BN Map	17	32.6999	RGD
Cytogenetic Map	17	q12.1	UniSTS

AW531528

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	17	58,179,874 - 58,180,060 (-)	MAPPER
Rnor_6.0	17	66,335,095 - 66,335,280	NCBI	Rnor6.0
Rnor_5.0	17	68,081,199 - 68,081,384	UniSTS	Rnor5.0
RGSC_v3.4	17	68,742,534 - 68,742,719	UniSTS	RGSC3.4
Celera	17	62,353,369 - 62,353,554	UniSTS
RH 3.4 Map	17	600.5	UniSTS
Cytogenetic Map	17	q12.1	UniSTS

Actn2

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	17	58,170,971 - 58,172,160 (-)	MAPPER
Rnor_6.0	17	66,343,009 - 66,344,197	NCBI	Rnor6.0
Rnor_5.0	17	68,089,352 - 68,090,540	UniSTS	Rnor5.0
RGSC_v3.4	17	68,733,003 - 68,734,191	UniSTS	RGSC3.4
Celera	17	62,361,269 - 62,362,457	UniSTS
Cytogenetic Map	17	q12.1	UniSTS

ha2028

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	X	125,999,885 - 126,000,624 (+)	MAPPER
mRatBN7.2	20	235,421 - 236,610 (+)	MAPPER
Rnor_6.0	20	381,420 - 382,608	NCBI	Rnor6.0
Rnor_6.0	X	133,645,066 - 133,645,804	NCBI	Rnor6.0
Rnor_5.0	X	133,721,173 - 133,721,911	UniSTS	Rnor5.0
Rnor_5.0	20	367,136 - 368,324	UniSTS	Rnor5.0
RGSC_v3.4	17	68,765,642 - 68,767,052	UniSTS	RGSC3.4
Celera	20	1,101,967 - 1,103,262	UniSTS
Celera	X	124,972,833 - 124,973,571	UniSTS
Cytogenetic Map	17	q12.1	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
1354662	Rf49	Renal function QTL 49	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	17	1	73413148	Rat
1354581	Bp247	Blood pressure QTL 247	4.5		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	17	1	73413148	Rat
1354638	Insul1	Insulin level QTL 1	4.8		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	17	3336972	73413148	Rat
1354651	Lmblg2	Limb length QTL 2	6		tibia length (VT:0004357)	tibia length (CMO:0000450)	17	3336972	73413148	Rat
1354630	Cm34	Cardiac mass QTL 34	8.7		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	17	3336972	73413148	Rat
1559055	Bp278	Blood pressure QTL 278		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	21490950	66490950	Rat
12903978	Cm118	Cardiac mass QTL 118		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	17	21490950	66490950	Rat
12903979	Cm119	Cardiac mass QTL 119		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	17	21490950	66490950	Rat
12903980	Cm120	Cardiac mass QTL 120		0.002	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	17	21490950	66490950	Rat
12903981	Am17	Aortic mass QTL 17		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	17	21490950	66490950	Rat
12903982	Kidm70	Kidney mass QTL 70		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	21490950	74823273	Rat
1354619	Bp242	Blood pressure QTL 242	6.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	28413148	73413148	Rat
9590107	Sffal7	Serum free fatty acids level QTL 7	4.81	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	17	30975228	75975228	Rat
8552928	Pigfal9	Plasma insulin-like growth factor 1 level QTL 9	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	17	30975228	75975228	Rat
2324621	Coatc5	Coat color QTL 5			coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	17	32055882	77922655	Rat
724549	Niddm56	Non-insulin dependent diabetes mellitus QTL 56		0.03	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	33303627	78303627	Rat
1354663	Bvd5	Brain ventricular dilatation QTL 5	3.51	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	17	33303627	85321557	Rat
1300148	Bp192	Blood pressure QTL 192	3.47		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	17	36283245	77922655	Rat
724528	Uae4	Urinary albumin excretion QTL 4	4.9	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	17	37790306	73413148	Rat
2317054	Aia12	Adjuvant induced arthritis QTL 12	4.24		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	17	41176057	86176057	Rat
2317060	Aia26	Adjuvant induced arthritis QTL 26	3.22		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	17	41176057	86176057	Rat
2301412	Kidm40	Kidney mass QTL 40		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	41731080	86731080	Rat
1598871	Memor5	Memory QTL 5	5.3		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	17	42541872	85446768	Rat
1358295	Aocep1	Aortic cell protein QTL 1	6.1	0.00000071	thoracic aorta cellular protein amount (VT:0010598)	aortic cell percentage	17	44356157	89356157	Rat
1354635	Bp245	Blood pressure QTL 245	6		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	17	48660252	73413148	Rat
1354635	Bp245	Blood pressure QTL 245	6		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	48660252	73413148	Rat
7411575	Bw140	Body weight QTL 140	30.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	17	52410957	90843779	Rat
8694181	Bw151	Body weight QTL 151	4.36	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	17	52410957	90843779	Rat
4889894	Eae33	Experimental allergic encephalomyelitis QTL 33	5.2	0.0001	nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	17	53475180	90690466	Rat
2317038	Ginf3	Gastrointestinal inflammation QTL 3	2.89	0.005	liver integrity trait (VT:0010547)	liver granuloma severity score (CMO:0002157)	17	53871488	90843779	Rat
2303580	Gluco49	Glucose level QTL 49	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	17	53991947	90843779	Rat
1354588	Bvd4	Brain ventricular dilatation QTL 4	5.31	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	17	56224296	86731080	Rat
7394837	Memor18	Memory QTL 18			exploratory behavior trait (VT:0010471)	measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)	17	61355300	67004384	Rat
70210	Cm15	Cardiac mass QTL 15	6.5		heart right ventricle mass (VT:0007033)	heart right ventricle wet weight (CMO:0000072)	17	62195703	73981731	Rat
1600398	Edcs5	Endometrial carcinoma susceptibility QTL 5	2.2		uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	17	62195703	74702206	Rat
2302365	Gluco40	Glucose level QTL 40	4.79		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	62195822	86194199	Rat
2317045	Aia11	Adjuvant induced arthritis QTL 11	4.06		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	17	63675975	70261772	Rat
7488963	Bp369	Blood pressure QTL 369		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	65497359	82019219	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	32
Count of miRNA genes:	28
Interacting mature miRNAs:	32
Transcripts:	ENSRNOT00000024098
Prediction methods:	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		13						2
Medium		30	11	3	1	3	8	9	16		4	8	8
Low	3		42	34	18	34			58	29	34	3
Below cutoff			4	4		4				6	3

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001170325	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH474071	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CK355337	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CK358853	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CK600096	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CR461659	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DY315226	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FM118105	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FM123616	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215597	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224888	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000293	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000024098 ⟹ ENSRNOP00000024098

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	17	66,304,501 - 66,397,653 (-)	Ensembl

RefSeq Acc Id:

NM_001170325 ⟹ NP_001163796

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	17	58,143,334 - 58,210,622 (+)	NCBI
Rnor_6.0	17	66,304,530 - 66,397,647 (-)	NCBI
Rnor_5.0	17	68,050,946 - 68,143,522 (-)	NCBI
RGSC_v3.4	17	68,705,160 - 68,773,261 (+)	RGD
Celera	17	62,323,048 - 62,390,681 (-)	RGD

Sequence:

show sequence

CCGAGACTCTGCGCCCAGGCGTGCAGCCCCAGGAACCGCGAGAAGGTCACCACAGCCCGCCGCC
TATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATTTTTC
TATCCGTCTGTCCATCCCTCGCGCTGCGCTCGCTCCCCAGTCGCCCCAGCCACCCAGCGCCATG
AATCAGATAGAGCCCGGCGTGCAGTACAACTATGTCTACGACGAAGATGAGTACATGATCCAGG
AGGAGGAGTGGGACCGCGACCTGCTCCTCGACCCGGCCTGGGAGAAGCAGCAGAGGAAGACTTT
CACTGCCTGGTGCAACTCGCACCTGCGCAAAGCCGGCACCCAGATCGAGAACATAGAGGAGGAT
TTCAGGAATGGCCTCAAGCTCATGCTGCTTCTGGAAGTCATCTCAGGGGAAAGGCTTCCCAAAC
CTGACCGGGGCAAAATGCGGTTCCACAAGATTGCGAATGTCAACAAGGCTTTGGATTACATAGC
CAGCAAGGGAGTGAAATTGGTATCTATTGGGGCTGAAGAAATCGTCGATGGCAATGTGAAGATG
ACCCTGGGTATGATCTGGACCATCATCCTCCGCTTCGCCATTCAGGACATCTCAGTGGAAGAAA
CATCTGCCAAAGAGGGCCTGCTGCTATGGTGTCAGAGGAAGACAGCACCATACCGAAATGTGAA
CATCCAGAACTTCCACACCAGCTGGAAAGATGGCCTTGGACTCTGTGCCCTCATCCACAGACAC
CGGCCTGACCTCATCGACTACTCAAAGCTTAACAAGGATGACCCCATAGGAAACATTAACCTGG
CCATGGAAATAGCAGAGAAGCACTTGGATATCCCTAAAATGTTGGATGCTGAAGACATTGTCAA
CACTCCCAAACCCGATGAAAGAGCCATCATGACTTACGTTTCCTGCTTCTACCATGCTTTCGCG
GGAGCGGAGCAGGCCGAGACGGCAGCTAACAGGATATGTAAGGTTCTTGCTGTGAATCAAGAGA
ATGAGAGGCTGATGGAAGAATATGAGAGGCTAGCGAGTGAGCTCTTGGAATGGATTCGACGCAC
AATCCCCTGGCTGGAGAACAGGACACCGGAGAAGACCATGCAAGCCATGCAGAAGAAGCTGGAG
GACTTCCGGGACTATCGTCGTAAGCACAAGCCCCCAAAGGTGCAGGAGAAGTGCCAGCTGGAGA
TCAACTTCAACACCCTGCAGACCAAGCTTCGGATCAGCAACCGGCCTGCCTTCATGCCCTCCGA
GGGCAAGATGGTGTCGGACATTGCTGGTGCCTGGCAGAGGTTGGAGCAGGCCGAGAAGGGCTAT
GAGGAATGGCTATTGAATGAGATTCGAAGACTGGAGCGCTTGGAGCACTTGGCTGAGAAGTTCA
GGCAGAAGGCCTCCACCCATGAGACATGGGCTTACGGCAAAGAACAGATCTTGCTGCAGAAGGA
CTATGAGTCTGCGTCCCTGACGGAAGTTCGAGCCCTACTTCGGAAGCACGAGGCCTTTGAGAGT
GACCTGGCGGCACACCAGGATCGTGTGGAACAGATTGCAGCCATTGCTCAGGAGCTCAATGAAC
TGGACTACCACGATGCTGTGAACGTCAATGATCGTTGCCAGAAAATTTGCGACCAGTGGGATAG
ATTGGGGACGCTCACCCAGAAGAGGAGGGAGGCCTTGGAGAGAACCGAGAAGTTGCTAGAAACA
ATTGACCAGCTGCACCTGGAGTTTGCCAAGAGAGCTGCGCCCTTCAACAACTGGATGGAGGGCG
CCATGGAGGACCTGCAGGACATGTTCATCGTCCACAGCATTGAGGAGATCCAGAGTCTGATCAC
CGCACATGAGCAGTTCAAGGCCACGCTGCCCGAGGCCGATGGGGAGCGGCAGTCCATCCTAGCC
ATCCAGAATGAGGTGGAGAAGGTGATCCAGAGCTACAGTATCCGGATCAGCTCCAGCAACCCCT
ACAGCACTGTCACCATGGACGAGCTGCGCAACAAGTGGGACAAGGTGAAGCAGCTGGTGCCAGT
CCGGGATCAGTCCCTGCAGGAGGAGCTGGCACGCCAACATGCTAATGAGCGCCTACGGCGCCAG
TTTGCTGCCCAGGCCAATGCCATCGGCCCCTGGATCCAGAACAAGATGGAGGAGATCGCTCGGA
GCTCCATCCAGATCACAGGGGCCCTGGAGGACCAGATGAACCAGCTGAAGCAGTACGAGCACAA
CATCATCAACTACAAGAACAACATTGACAAGCTGGAGGGCGACCACCAGCTCATCCAGGAAGCC
CTGGTCTTCGACAACAAGCACACCAACTACACCATGGAGCATATCCGTGTCGGATGGGAGTTGC
TGCTCACAACTATCGCCAGAACCATCAATGAGGTGGAGACCCAGATCCTGACAAGAGATGCCAA
GGGCATCACCCAGGAGCAGATGAATGAGTTCAGAGCCTCCTTCAACCACTTTGACAGGAGGAAG
AATGGCCTGATGGATCATGAGGATTTCAGAGCCTGCCTCATTTCCATGGGCTATGACTTGGGTG
AAGCTGAGTTTGCCCGAATTATGACTCTGGTTGACCCCAACGGACAAGGCACGGTCACCTTCCA
GTCCTTCATTGACTTCATGACTAGAGAGACCGCAGACACGGACACTGCAGAACAGGTCATCGCC
TCCTTCCGGATTCTGGCTTCTGATAAGCCTTACATCTTGGCAGAGGAACTTCGTCGAGAGCTGC
CTCCGGATCAGGCCCAGTACTGCATCAAGAGAATGCCCCCATACTCAGGCCCAGGCAGTGTCCC
CGGGGCCCTGGACTACACTGCCTTCTCCTCTGCCCTCTACGGGGAGAGCGACCTCTGATGCTCT
TTCTGTAACCCCTGACCCTATCAGAACGCAATAAAGGCTCAAGTGTAGGTTGTTACCTGGAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001163796	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM06982	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001163796 ⟸ NM_001170325

- UniProtKB:

D3ZCV0 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MNQIEPGVQYNYVYDEDEYMIQEEEWDRDLLLDPAWEKQQRKTFTAWCNSHLRKAGTQIENIEE
DFRNGLKLMLLLEVISGERLPKPDRGKMRFHKIANVNKALDYIASKGVKLVSIGAEEIVDGNVK
MTLGMIWTIILRFAIQDISVEETSAKEGLLLWCQRKTAPYRNVNIQNFHTSWKDGLGLCALIHR
HRPDLIDYSKLNKDDPIGNINLAMEIAEKHLDIPKMLDAEDIVNTPKPDERAIMTYVSCFYHAF
AGAEQAETAANRICKVLAVNQENERLMEEYERLASELLEWIRRTIPWLENRTPEKTMQAMQKKL
EDFRDYRRKHKPPKVQEKCQLEINFNTLQTKLRISNRPAFMPSEGKMVSDIAGAWQRLEQAEKG
YEEWLLNEIRRLERLEHLAEKFRQKASTHETWAYGKEQILLQKDYESASLTEVRALLRKHEAFE
SDLAAHQDRVEQIAAIAQELNELDYHDAVNVNDRCQKICDQWDRLGTLTQKRREALERTEKLLE
TIDQLHLEFAKRAAPFNNWMEGAMEDLQDMFIVHSIEEIQSLITAHEQFKATLPEADGERQSIL
AIQNEVEKVIQSYSIRISSSNPYSTVTMDELRNKWDKVKQLVPVRDQSLQEELARQHANERLRR
QFAAQANAIGPWIQNKMEEIARSSIQITGALEDQMNQLKQYEHNIINYKNNIDKLEGDHQLIQE
ALVFDNKHTNYTMEHIRVGWELLLTTIARTINEVETQILTRDAKGITQEQMNEFRASFNHFDRR
KNGLMDHEDFRACLISMGYDLGEAEFARIMTLVDPNGQGTVTFQSFIDFMTRETADTDTAEQVI
ASFRILASDKPYILAEELRRELPPDQAQYCIKRMPPYSGPGSVPGALDYTAFSSALYGESDL

hide sequence

RefSeq Acc Id:

ENSRNOP00000024098 ⟸ ENSRNOT00000024098

Protein Domains

Calponin-homology (CH) EF-hand

Transcriptome

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

Promoters

RGD ID:

13700537

Promoter ID:

EPDNEW_R11061

Type:

single initiation site

Name:

Actn2_1

Description:

actinin alpha 2

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	17	66,397,662 - 66,397,722	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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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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

BBDP/Wor (RGD)

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

BN/SsN (MCW)

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

F344/NRrrc (MCW)

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

FHH/EurMcwi (MCW)

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

FHH/EurMcwi (RGD)

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CSV

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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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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
17	66305917	66305918	C	T	snv	F344/NRrrc (MCW)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1308097	AgrOrtholog
Ensembl Genes	ENSRNOG00000017833	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000024098	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000024098	ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH	1.10.418.10	UniProtKB/TrEMBL
InterPro	Actinin_actin-bd_CS	UniProtKB/TrEMBL
	Calponin-like_dom_sf	UniProtKB/TrEMBL
	Calponin_act-bd	UniProtKB/TrEMBL
	EF-hand-like_dom	UniProtKB/TrEMBL
	EF-hand_Ca_insen	UniProtKB/TrEMBL
	EF_hand_Ca-bd	UniProtKB/TrEMBL
	Spectrin/alpha-actinin	UniProtKB/TrEMBL
	Spectrin_repeat	UniProtKB/TrEMBL
KEGG Report	rno:291245	UniProtKB/TrEMBL
NCBI Gene	291245	ENTREZGENE
Pfam	efhand_Ca_insen	UniProtKB/TrEMBL
	PF00307	UniProtKB/TrEMBL
	Spectrin	UniProtKB/TrEMBL
PhenoGen	Actn2	PhenoGen
PROSITE	ACTININ_1	UniProtKB/TrEMBL
	ACTININ_2	UniProtKB/TrEMBL
	EF_HAND_2	UniProtKB/TrEMBL
	PS50021	UniProtKB/TrEMBL
SMART	EFh	UniProtKB/TrEMBL
	SM00033	UniProtKB/TrEMBL
	SPEC	UniProtKB/TrEMBL
Superfamily-SCOP	Calponin-homology	UniProtKB/TrEMBL
	SSF47473	UniProtKB/TrEMBL
UniProt	D3ZCV0	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-04-30	Actn2	actinin alpha 2	Actn2_predicted	actinin alpha 2 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Actn2_predicted	actinin alpha 2 (predicted)			Symbol and Name status set to approved	70820	APPROVED

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 - OMIM

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - OMIM

Imported Annotations - KEGG (archival)