Sv2a (synaptic vesicle glycoprotein 2a)

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| FTP Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References FTP Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Sv2a (synaptic vesicle glycoprotein 2a) Rattus norvegicus

Analyze

Symbol:

Sv2a

Name:

synaptic vesicle glycoprotein 2a

RGD ID:

619715

Description:

Predicted to have protein kinase binding activity. Involved in regulation of gamma-aminobutyric acid secretion. Localizes to several cellular components, including integral component of synaptic vesicle membrane; neuronal cell body; and presynaptic active zone. Orthologous to human SV2A (synaptic vesicle glycoprotein 2A); PARTICIPATES IN cell-extracellular matrix signaling pathway; INTERACTS WITH acrylamide; ammonium chloride; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

MGC105346; Sv2; synaptic vesicle glycoprotein 2 a; synaptic vesicle protein 2; synaptic vesicle protein 2A; synaptic vesicle transmembrane transporter (SV2) RNA

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):	SV2A (synaptic vesicle glycoprotein 2A)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Sv2a (synaptic vesicle glycoprotein 2 a)	HGNC	Treefam, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Sv2a (synaptic vesicle glycoprotein 2A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SV2A (synaptic vesicle glycoprotein 2A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SV2A (synaptic vesicle glycoprotein 2A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sv2a (synaptic vesicle glycoprotein 2A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SV2A (synaptic vesicle glycoprotein 2A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	SV2A (synaptic vesicle glycoprotein 2A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sv2a (synaptic vesicle glycoprotein 2A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Sv2a (synaptic vesicle glycoprotein 2 a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Homo sapiens (human):	SV2A (synaptic vesicle glycoprotein 2A)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	sv2a (synaptic vesicle glycoprotein 2A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	CG3168	Alliance	DIOPT (InParanoid\|OMA\|OrthoInspector\|TreeFam)

Allele / Splice:

Sv2a^m1Kyo

Genetic Models:

F344-Sv2a^m1Kyo

Is Marker For:

Strains: F344-Sv2a^m1Kyo

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	2	183,741,455 - 183,757,290 (+)	NCBI
Rnor_6.0 Ensembl	2	198,321,142 - 198,336,913 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	2	198,321,100 - 198,336,889 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	2	217,808,165 - 217,823,872 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	190,989,187 - 191,000,859 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	2	190,948,188 - 190,963,566 (+)	NCBI
Celera	2	176,272,713 - 176,284,621 (+)	NCBI		Celera
Cytogenetic Map	2	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Experimental Seizures (IMP)

genetic disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

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

2-methylcholine (ISO)

3,4-methylenedioxymethamphetamine (ISO)

acrylamide (EXP)

ammonium chloride (EXP)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

Botulinum toxin type A (ISO)

carbamazepine (ISO)

cholesterol (ISO)

cobalt dichloride (EXP)

cyclosporin A (ISO)

dibutyl phthalate (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

ethanol (ISO)

flavonoids (EXP)

fonofos (ISO)

gamma-tocopherol (ISO)

glyphosate (EXP)

heroin (ISO)

hydrogen sulfide (ISO)

methyl beta-cyclodextrin (ISO)

oxaliplatin (EXP)

parathion (ISO)

PCB138 (EXP)

potassium chromate (ISO)

Ptaquiloside (ISO)

pyrogallol (ISO)

SB 431542 (ISO)

sunitinib (ISO)

terbufos (ISO)

tocopherol (ISO)

topotecan (EXP)

trichostatin A (ISO)

valproic acid (ISO)

vancomycin (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular calcium ion homeostasis (ISO)

neurotransmitter transport (TAS)

regulation of gamma-aminobutyric acid secretion (IMP)

synaptic vesicle priming (ISO)

transmembrane transport (IEA)

Cellular Component

cell-cell junction (ISO)

dendrite (IDA)

endoplasmic reticulum (IEA,ISO)

GABA-ergic synapse (ISO)

glutamatergic synapse (ISO)

integral component of membrane (IBA,IDA)

integral component of synaptic vesicle membrane (EXP,IDA)

neuromuscular junction (ISO)

neuron projection (IBA,ISO)

neuronal cell body (IDA)

presynaptic active zone (IDA,ISO)

synapse (IDA)

synaptic vesicle (IDA,ISO)

synaptic vesicle membrane (IBA,IDA)

terminal bouton (HDA)

Molecular Function

protein binding (IPI)

protein kinase binding (ISO)

transmembrane transporter activity (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

cell-extracellular matrix signaling pathway (IEA)

Phenotype Annotations Click to see Annotation Detail View

Mammalian Phenotype

increased kindling response (IMP)

increased susceptibility to pharmacologically induced seizures (IMP)

References

References - curated


1.	Bajjalieh SM, etal., Science 1992 Aug 28;257(5074):1271-3.
2.	Boyken J, etal., Neuron. 2013 Apr 24;78(2):285-97. doi: 10.1016/j.neuron.2013.02.027.
3.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4.	Maas C, etal., J Neurosci. 2012 Aug 8;32(32):11095-108. doi: 10.1523/JNEUROSCI.0195-12.2012.
5.	MGD data from the GO Consortium
6.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
7.	Nensa FM, etal., Mol Cell Proteomics. 2014 Feb;13(2):475-88. doi: 10.1074/mcp.M113.029280. Epub 2013 Nov 27.
8.	Pellet JB, etal., Eur J Neurosci. 2000 Feb;12(2):621-32.
9.	Pipeline to import KEGG annotations from KEGG into RGD
10.	RGD automated data pipeline
11.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12.	RGD automated import pipeline for gene-chemical interactions
13.	Schivell AE, etal., J Biol Chem. 1996 Nov 1;271(44):27770-5.
14.	Strotmeier J, etal., FEBS Lett. 2014 Apr 2;588(7):1087-93. doi: 10.1016/j.febslet.2014.02.034. Epub 2014 Feb 25.
15.	Takamori S, etal., Cell. 2006 Nov 17;127(4):831-46.
16.	Tokudome K, etal., Sci Rep. 2016 Jun 6;6:27420. doi: 10.1038/srep27420.
17.	Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.

Additional References at PubMed

PMID:1355409	PMID:1426240	PMID:10455054	PMID:10624962	PMID:10625067	PMID:10747945	PMID:12074840	PMID:12477932	PMID:12687700	PMID:15210974	PMID:15489334	PMID:15713258
PMID:15866046	PMID:16306227	PMID:16543415	PMID:18524768	PMID:19176798	PMID:20410110	PMID:21307259	PMID:21664258	PMID:22871113	PMID:23530581	PMID:24035762	PMID:25205164
PMID:26489628	PMID:29476059	PMID:30336420	PMID:30905653

Genomics

Comparative Map Data

Sv2a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	2	183,741,455 - 183,757,290 (+)	NCBI
Rnor_6.0 Ensembl	2	198,321,142 - 198,336,913 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	2	198,321,100 - 198,336,889 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	2	217,808,165 - 217,823,872 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	190,989,187 - 191,000,859 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	2	190,948,188 - 190,963,566 (+)	NCBI
Celera	2	176,272,713 - 176,284,621 (+)	NCBI		Celera
Cytogenetic Map	2	q34	NCBI

SV2A
(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	149,903,318 - 149,917,844 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	1	149,903,318 - 149,917,844 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	1	149,874,870 - 149,889,434 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	1	149,874,870 - 149,889,396 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	148,141,859 - 148,156,054 (-)	NCBI	NCBI36		hg18	NCBI36
Celera	1	122,990,840 - 123,005,404 (-)	NCBI
Cytogenetic Map	1	q21.2	NCBI
HuRef	1	121,255,354 - 121,269,918 (-)	NCBI		HuRef
CHM1_1	1	151,271,444 - 151,286,008 (-)	NCBI		CHM1_1

Sv2a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	3	96,088,543 - 96,102,499 (+)	NCBI	GRCm39		mm39
GRCm38	3	96,181,227 - 96,195,183 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	96,181,151 - 96,195,521 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	3	95,985,150 - 95,999,106 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	3	96,266,632 - 96,280,588 (+)	NCBI			mm8
Celera	3	97,620,657 - 97,631,186 (+)	NCBI		Celera
Cytogenetic Map	3	F2.1	NCBI

Sv2a
(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_004955413	834,743 - 851,023 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955413	834,743 - 849,176 (+)	NCBI	ChiLan1.0	ChiLan1.0

SV2A
(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	128,904,140 - 128,918,829 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	128,904,151 - 128,918,829 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	125,247,429 - 125,262,041 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

SV2A
(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	17	59,187,244 - 59,195,888 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	17	59,185,715 - 59,195,888 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Sv2a
(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_004936580	243,829 - 257,708 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SV2A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	99,138,342 - 99,153,149 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	99,138,319 - 99,153,153 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	108,567,034 - 108,581,274 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SV2A
(Chlorocebus sabaeus - African green monkey)

No map positions available.

Sv2a
(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_004624772	17,684,061 - 17,698,728 (-)	NCBI

Position Markers

D2Got117

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	198,322,923 - 198,323,103	NCBI	Rnor6.0
Rnor_5.0	2	217,809,906 - 217,810,086	UniSTS	Rnor5.0
RGSC_v3.4	2	190,987,175 - 190,987,356	RGD	RGSC3.4
RGSC_v3.4	2	190,987,176 - 190,987,356	UniSTS	RGSC3.4
RGSC_v3.1	2	190,949,930 - 190,950,110	RGD
Celera	2	176,270,702 - 176,270,882	UniSTS
RH 3.4 Map	2	1221.5	RGD
RH 3.4 Map	2	1221.5	UniSTS
RH 2.0 Map	2	901.2	RGD
Cytogenetic Map	2	q34	UniSTS

D2Wox49

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	198,335,799 - 198,336,067	NCBI	Rnor6.0
Rnor_5.0	2	217,822,782 - 217,823,050	UniSTS	Rnor5.0
RGSC_v3.4	2	191,000,085 - 191,000,353	UniSTS	RGSC3.4
Celera	2	176,283,847 - 176,284,115	UniSTS
Cytogenetic Map	2	q34	UniSTS

AI746429

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	198,336,323 - 198,336,428	NCBI	Rnor6.0
Rnor_5.0	2	217,823,306 - 217,823,411	UniSTS	Rnor5.0
RGSC_v3.4	2	191,000,609 - 191,000,714	UniSTS	RGSC3.4
Celera	2	176,284,371 - 176,284,476	UniSTS
Cytogenetic Map	2	q34	UniSTS

RH129295

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	198,336,652 - 198,336,831	NCBI	Rnor6.0
Rnor_5.0	2	217,823,635 - 217,823,814	UniSTS	Rnor5.0
RGSC_v3.4	2	191,000,938 - 191,001,117	UniSTS	RGSC3.4
Celera	2	176,284,700 - 176,284,879	UniSTS
RH 3.4 Map	2	1221.6	UniSTS
Cytogenetic Map	2	q34	UniSTS

RH143796

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	198,334,022 - 198,334,164	NCBI	Rnor6.0
Rnor_5.0	2	217,821,005 - 217,821,147	UniSTS	Rnor5.0
RGSC_v3.4	2	190,998,308 - 190,998,450	UniSTS	RGSC3.4
Celera	2	176,282,070 - 176,282,212	UniSTS
RH 3.4 Map	2	1221.4	UniSTS
Cytogenetic Map	2	q34	UniSTS

BE119349

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	198,320,452 - 198,320,617	NCBI	Rnor6.0
Rnor_5.0	2	217,807,435 - 217,807,600	UniSTS	Rnor5.0
RGSC_v3.4	2	190,984,705 - 190,984,870	UniSTS	RGSC3.4
Celera	2	176,268,103 - 176,268,268	UniSTS
RH 3.4 Map	2	1221.5	UniSTS
Cytogenetic Map	2	q34	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
1598805	Memor8	Memory QTL 8	3		exploratory behavior trait (VT:0010471)	average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)	2	157914311	204022555	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	2	140566078	217498545	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	2	140566078	217498545	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	140566078	217498545	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	140566078	217498545	Rat
70175	BpQTLCluster3	Blood pressure QTL cluster 3	4.128		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	140566078	217498545	Rat
71113	Cari2	Carrageenan-induced inflammation QTL 2	2.7	0.009	hypodermis integrity trait (VT:0010550)	inflammatory exudate volume (CMO:0001429)	2	147522550	217498710	Rat
631266	Bp132	Blood pressure QTL 132		0.0005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	46537589	217498710	Rat
61467	Bp14	Blood pressure QTL 14	2.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	43133606	217498545	Rat
61467	Bp14	Blood pressure QTL 14	2.2		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	43133606	217498545	Rat
61469	Bp16	Blood pressure QTL 16	5.64		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	2	184730446	229730446	Rat
70162	Bp63	Blood pressure QTL 63	5.64		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	2	184730446	229730446	Rat
724568	Uae13	Urinary albumin excretion QTL 13	4.4		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	2	149114878	225501939	Rat
1331734	Bp204	Blood pressure QTL 204	3.61192		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	181990297	240020001	Rat
1331760	Bp206	Blood pressure QTL 206	3.62454		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	56244671	217498710	Rat
1298074	Bp164	Blood pressure QTL 164		0.003	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	42776916	217498710	Rat
1298076	Bp166	Blood pressure QTL 166		0.0009	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	141583337	217498710	Rat
1298080	Bp163	Blood pressure QTL 163		0.02	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	66828049	217498710	Rat
1298085	Bp165	Blood pressure QTL 165		0.0006	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	42776916	217498710	Rat
1331794	Bp202	Blood pressure QTL 202	3.66819		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	147122993	240020001	Rat
1331805	Cm29	Cardiac mass QTL 29	3.50746		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	2	147122993	240020001	Rat
2307174	Activ3	Activity QTL 3	4.83	0.000058	locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	2	183984665	228984665	Rat
1581502	Esta3	Estrogen-induced thymic atrophy QTL 3			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	2	142053350	204585731	Rat
631501	Bp101	Blood pressure QTL 101	2.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	157914409	217498545	Rat
631507	Bp105	Blood pressure QTL 105		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	116075644	228737869	Rat
631522	Bp74	Blood pressure QTL 74		0.05	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	186611811	198704485	Rat
1302793	Bw16	Body weight QTL 16	5	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	2	169852800	217498545	Rat
1641891	Alcrsp17	Alcohol response QTL 17			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	2	155965557	254121739	Rat
1641925	Alcrsp2	Alcohol response QTL 2			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	2	155965557	237742948	Rat
1598833	Bp295	Blood pressure QTL 295	3.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	161745602	206745602	Rat
1598838	Bp290	Blood pressure QTL 290	1.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	181522444	226522444	Rat
2300189	Bmd48	Bone mineral density QTL 48	5.8	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	2	194378622	239378622	Rat
634308	Sach6	Saccharin preference QTL 6	4.9		taste sensitivity trait (VT:0001986)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	2	116075644	228737869	Rat
1358356	Srcrt1	Stress Responsive Cort QTL1	3.66		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	2	175403337	239166203	Rat
1578648	Bss11	Bone structure and strength QTL 11	4.7		femur morphology trait (VT:0000559)	femoral neck cortical cross-sectional area (CMO:0001702)	2	118446646	227707979	Rat
1300165	Rf9	Renal function QTL 9	3.28		kidney glomerulus integrity trait (VT:0010546)	index of glomerular damage (CMO:0001135)	2	138901276	217498710	Rat
1354601	Slep1	Serum leptin concentration QTL 1	5.39		blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	2	43149788	198704485	Rat
1354605	Rf48	Renal function QTL 48	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	2	75687495	221880419	Rat
1354609	Niddm62	Non-insulin dependent diabetes mellitus QTL 62	4.72	0.000006	insulin secretion trait (VT:0003564)	plasma insulin level (CMO:0000342)	2	158159186	217498710	Rat
1354622	Kidm16	Kidney mass QTL 16	3		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	2	83819608	239166203	Rat
1354648	Bp239	Blood pressure QTL 239		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	66828236	243550655	Rat
1354649	Kidm17	Kidney mass QTL 17	2.9		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	2	83819608	243901375	Rat
2301966	Bp322	Blood pressure QTL 322	3.58		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	158159186	217498710	Rat
1359022	Ppulsi1	Prepulse inhibition QTL 1	3.63		prepulse inhibition trait (VT:0003088)	acoustic startle response measurement (CMO:0001519)	2	142053350	228984665	Rat
1549833	Bp257	Blood pressure QTL 257		0.003	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	181987080	199696953	Rat
1554319	Bmd2	Bone mineral density QTL 2	13.4	0.0001	lumbar vertebra area (VT:0010570)	lumbar vertebra cross-sectional area (CMO:0001689)	2	118446793	228582621	Rat
2306901	Bp337	Blood pressure QTL 337		0.01	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	177680772	243901375	Rat
1358913	Cm41	Cardiac mass QTL 41	2.73		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	218957222	Rat
1358917	Cm42	Cardiac mass QTL 42	2.82		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	218957222	Rat
1359030	Bp277	Blood pressure QTL 277			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	118446646	200453484	Rat
1359030	Bp277	Blood pressure QTL 277			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	118446646	200453484	Rat
1359032	Hrtrt18	Heart rate QTL 18			heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	2	169852670	207612467	Rat
2293084	Iddm26	Insulin dependent diabetes mellitus QTL 26	2.9		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	2	188838511	228984665	Rat
61374	Edpm2	Estrogen-dependent pituitary mass QTL 2	4.42	0.86	pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	2	78321410	217498710	Rat
61401	Niddm2	Non-insulin dependent diabetes mellitus QTL 2	4.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	2	159585731	204585731	Rat
61417	Cia10	Collagen induced arthritis QTL 10	3.4		joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	2	194998627	239998627	Rat
6903312	Bw112	Body weight QTL 112	3.2	0.0013	body mass (VT:0001259)	body weight (CMO:0000012)	2	149614623	198704357	Rat
8694435	Bw166	Body weight QTL 166	14.08	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	2	197253963	242253963	Rat
9589044	Scfw1	Subcutaneous fat weight QTL 1	5.8	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	2	197253963	242253963	Rat
8694383	Bw158	Body weight QTL 158	7.69	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	2	197253963	242253963	Rat
7488925	Bp364	Blood pressure QTL 364		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	174160958	219160958	Rat
7488927	Bp365	Blood pressure QTL 365		0.008	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	177339806	222339806	Rat
8662843	Vetf9	Vascular elastic tissue fragility QTL 9	2.05		thoracic aorta molecular composition trait (VT:0010568)	aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)	2	169852670	243026643	Rat
8662832	Vetf7	Vascular elastic tissue fragility QTL 7	3.5		aorta elastin amount (VT:0003905)	aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)	2	83754907	237610852	Rat
8694194	Abfw1	Abdominal fat weight QTL 1	11.7	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	2	197253963	242253963	Rat
10043136	Iddm54	Insulin dependent diabetes mellitus QTL 54	3.4	0.0001	blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	2	149614466	205573168	Rat
10043136	Iddm54	Insulin dependent diabetes mellitus QTL 54	3.4	0.0001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	2	149614466	205573168	Rat
12879836	Kidm61	Kidney mass QTL 61		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	172795683	199696953	Rat
10755499	Bp389	Blood pressure QTL 389	2.61		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	16679272	245624402	Rat
12879839	Cm85	Cardiac mass QTL 85		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	2	172795683	199696953	Rat
12879838	Cm86	Cardiac mass QTL 86		0.002	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	2	172795683	199696953	Rat
12879840	Bw179	Body weight QTL 179		0.005	body mass (VT:0001259)	body weight (CMO:0000012)	2	172795683	199696953	Rat
12879837	Am2	Aortic mass QTL 2		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	2	172795683	199696953	Rat

Related Rat Strains

The following Strains have been annotated to Sv2a

F344-Sv2a^m1Kyo

Genetic Models

This gene Sv2a is modified in the following models/strains

F344-Sv2a^m1Kyo

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	330
Count of miRNA genes:	214
Interacting mature miRNAs:	257
Transcripts:	ENSRNOT00000028760
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		16	2	2		2			68	22	17
Low	3	27	53	37	19	37	7	10	6	13	19	11	7
Below cutoff			2	2		2	1	1			5		1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_057210	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006232952	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039101598	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC092132	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474015	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CQ819363	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000076	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	L01788	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	L05435	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000028760 ⟹ ENSRNOP00000028760

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	2	198,321,142 - 198,336,913 (+)	Ensembl

RefSeq Acc Id:

NM_057210 ⟹ NP_476558

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	183,745,299 - 183,756,974 (+)	NCBI
Rnor_6.0	2	198,324,934 - 198,336,573 (+)	NCBI
Rnor_5.0	2	217,808,165 - 217,823,872 (+)	NCBI
RGSC_v3.4	2	190,989,187 - 191,000,859 (+)	RGD
Celera	2	176,272,713 - 176,284,621 (+)	RGD

Sequence:

show sequence

GAAAAAGAAGCAGAGAGTAAGGTAGAGCCAGTGACTCGCCCCCAAGCCCCATCATGGAAGAAGG
CTTTCGAGACCGAGCAGCGTTCATCCGTGGGGCCAAAGACATTGCCAAGGAAGTTAAGAAGCAC
GCGGCCAAGAAGGTGGTGAAGGGTCTCGACAGAGTCCAGGATGAATATTCCCGAAGGTCCTACT
CCCGCTTTGAGGAGGAGGAGGATGATGATGACTTCCCTGCCCCTGCTGACGGCTATTACCGCGG
AGAAGGGGCCCAGGATGAGGAGGAAGGTGGCGCTTCCAGTGATGCCACTGAGGGCCACGATGAG
GATGATGAGATCTACGAGGGAGAATATCAGGGCATCCCCCGGGCAGAGTCTGGGGGCAAAGGCG
AACGGATGGCAGATGGGGCACCCCTGGCTGGAGTGAGAGGGGGCTTAAGTGATGGGGAGGGTCC
CCCTGGGGGTCGCGGGGAGGCGCAGCGGCGTAAAGATCGGGAAGAATTGGCTCAGCAGTATGAG
ACCATCCTCCGGGAGTGCGGCCATGGTCGCTTCCAGTGGACACTCTACTTCGTGCTGGGTCTGG
CGCTGATGGCCGATGGTGTAGAGGTCTTTGTGGTGGGCTTTGTGCTGCCCAGTGCTGAGAAAGA
TATGTGCCTGTCGGACTCCAACAAAGGCATGCTAGGCCTCATTGTGTACCTGGGCATGATGGTG
GGGGCCTTCCTCTGGGGAGGCCTGGCTGATCGGCTGGGTCGGAGACAGTGTCTGCTCATCTCGC
TCTCAGTCAACAGCGTCTTCGCTTTCTTCTCATCCTTCGTCCAGGGTTATGGCACCTTCCTTTT
CTGCCGCCTCCTTTCTGGGGTTGGGATTGGTGGTTCCATCCCCATTGTCTTCTCCTATTTTTCG
GAGTTTCTGGCCCAGGAGAAACGTGGGGAGCATTTGAGCTGGCTCTGTATGTTCTGGATGATTG
GTGGCGTGTATGCAGCTGCAATGGCCTGGGCCATCATCCCCCACTATGGGTGGAGTTTCCAGAT
GGGCTCTGCTTACCAGTTCCACAGCTGGAGGGTCTTTGTCCTCGTCTGTGCCTTTCCCTCTGTG
TTTGCCATCGGGGCTCTGACTACGCAGCCGGAGAGTCCCCGCTTCTTCTTAGAGAATGGGAAGC
ACGATGAGGCCTGGATGGTGCTGAAGCAGGTTCATGACACCAACATGCGAGCCAAGGGCCATCC
TGAGCGAGTCTTCTCAGTAACCCACATTAAAACGATTCATCAGGAGGATGAATTGATTGAGATC
CAGTCAGACACAGGAACCTGGTACCAGCGCTGGGGAGTGCGGGCTTTGAGCCTGGGGGGTCAGG
TTTGGGGGAACTTCCTCTCCTGCTTCAGTCCAGAGTACCGGCGCATCACTCTGATGATGATGGG
GGTATGGTTCACCATGTCCTTCAGCTACTACGGTTTGACTGTCTGGTTTCCCGACATGATCCGC
CATCTCCAGGCTGTGGACTATGCAGCCCGAACCAAAGTGTTCCCAGGGGAGCGCGTGGAGCACG
TGACATTTAACTTCACACTGGAGAATCAGATCCACCGAGGGGGACAGTACTTCAATGACAAGTT
CATCGGGCTGCGTCTGAAGTCAGTGTCCTTTGAGGATTCCCTGTTTGAGGAATGTTACTTTGAA
GATGTCACATCCAGCAACACATTCTTCCGCAACTGCACATTCATCAACACCGTGTTCTACAACA
CGGACCTGTTTGAGTACAAGTTCGTGAACAGCCGCCTGGTGAACAGCACATTCCTGCACAATAA
GGAAGGTTGCCCACTAGATGTGACAGGGACGGGCGAAGGTGCCTACATGGTGTACTTTGTCAGC
TTCTTGGGGACACTGGCTGTGCTCCCTGGAAATATTGTGTCTGCTCTGCTCATGGACAAGATTG
GCAGGCTCAGAATGCTTGCTGGTTCCAGTGTGTTGTCCTGTGTTTCCTGCTTCTTCCTGTCTTT
TGGGAACAGTGAGTCAGCCATGATCGCTCTGCTCTGCCTTTTTGGGGGAGTCAGTATTGCATCC
TGGAACGCGCTGGACGTGCTGACTGTTGAACTCTACCCTTCCGACAAGAGGACGACGGCCTTCG
GCTTCCTGAATGCCCTGTGTAAGCTGGCAGCTGTACTGGGCATCAGCATCTTCACGTCCTTTGT
GGGAATCACCAAGGCCGCTCCCATCCTCTTCGCCTCAGCTGCGCTTGCCCTTGGTAGCTCTCTG
GCTCTGAAGCTGCCTGAGACCCGGGGACAGGTGCTGCAGTGAGGGATGGGGGAGTGTCTCAGGG
GCTTTAGGGATGGCAGGCACACTGTGACCAATAATTTCTTTTATCCCTACCCTGCCCTGCTGTC
CTGGTCCTACTCCGTGTTTGGTGTCTTAGCTGTGTGCCTGTGTGCATGTGTGTGACCCTGACGG
GCAGGGGCTACGGGGAGGGTCCCTTTGTCCCATGTTTGGGAGGAGGGACTCCCCACCTGCTGCC
ACCCTCAACTTTGCACAAGGAGAAGGCTGAGCTGCATCCTTCTCTCCCTCAGTGTTAGCAGGGG
TGGGGACGACTGTTTCTCTGCTCCAGGTGTTCCAGAATTTCTGCCTTTCCCATCATTCCCTCCG
CCTAGGCCCTGGTGAACCACAGGTATGGAGTTATAGTGGGGGCTGAGGCTTGGACCAAAAGAAC
TTCTTGAGTGGGAGCCTCCCAAGGATGCTGGGGAGTAGCAATAAACCTTAGCCTCCGTTTTCAC
CTCAATTCAGGCTACAAGTGTGAAGCCTGGATTTTATGGAATTAGTTTTCTGATTCTTATTTAT
ATGTAAGTTCTGAGGCAGCTTAGCTGGACTGTGTGTGGATGTATACATACACTCATATGTGTGT
GTGTGTGCGCGCGTGCGTGTGCGTGTGTGTATGTGTGCCATGGGGTAGGGGTACCACTATACTG
TTCAATTATAAGCCAAGAGTAGTAGTTTCAGTGAGCACACACACAACACTGTTTTTCTATCGTA
ACTCCCAGAATCTTGTACCTGTGTTGGGGCTGCAGGCAGAAGTCCTTGGTCAGGCTGGGGTGAG
CCCTGCAATCTTGGGGGACCTGAGGGCACCTGACAAGGACTTTCTCCTTCCTCTAGAGAGGTTC
TACCCACTAGCCACAGCCCTCCCATCTGACCTGTCCACACAGGCAGTGTATCAGAGGAAAGAAA
GGGAAAATAACCAGGCACACATGGTCAAACCAGCAGGTCTGAAAGCACAAGAAGCTGGGGCAGG
GGCAGGAAGCAGGGGTCCATCCCCTAACCCTTCTCAAAAAGGCTGGGTCGTGAGGGACCCCTAA
TGCAGGGACCTGAAGCCTCAGTTTCCCCATCTTGCCCTTCCACAGAACAGCCTCTGTAGGTAGA
GCTGCCCCCCGTCCTACCCTACTCTTGTGGCTGCTTTCTTTGGTACTCTTCCCACTCCCACCGT
AGCTGTGACGTGTTGTAGTTTTTAGCTGTTTGTAAAATGTTAAAAAAAAAAAAAAGTTAAAAGG
AAGTTAAACTAAAAAAAAAAAAAAAAAAGAAAAA

hide sequence

RefSeq Acc Id:

XM_006232952 ⟹ XP_006233014

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	183,741,455 - 183,757,290 (+)	NCBI
Rnor_6.0	2	198,321,100 - 198,336,889 (+)	NCBI
Rnor_5.0	2	217,808,165 - 217,823,872 (+)	NCBI

Sequence:

show sequence

GGAGGCGGGGCCGGAGCGCGTGCGGGGGGCAGGTCTGCAGTGCCGCTTCCCCTGGTACCGGGAG
GAGCAGTCGTCGCTGCCGCCTCAGCCCTGTGGCTGGACCCCCTCCCTCACCCGGGGACTCCCTG
ACCCGGGGAACCAAGCTCAGGTCTCCAGAGCCTCCCAGAAGAAAAATAGGCAGCCCTCCCTGAA
ATATCTTGGCTCCTCAGTTTATCCTTTCCAACCTGGCTCCCCCTTCCCAGTTCCCCTCCCTACT
CCCTGTCTCCCTCCCCAACTCACCCTACTGAACTGGGTGCAGAGCAAAGCCCTTTTCGCCCTTT
TCCCCATCTGGACTTCTCTGGCCAGTTCCTCTTAGTCCGATCCCAAAGACACTGGAACACATTT
CTAAAGGGTCTTCTTGATCCCTCCAATTCATTGAGCAAAGGGCTGAAAAAGAAGCAGAGAGTAA
GGTAGAGCCAGTGACTCGCCCCCAAGCCCCATCATGGAAGAAGGCTTTCGAGACCGAGCAGCGT
TCATCCGTGGGGCCAAAGACATTGCCAAGGAAGTTAAGAAGCACGCGGCCAAGAAGGTGGTGAA
GGGTCTCGACAGAGTCCAGGATGAATATTCCCGAAGGTCCTACTCCCGCTTTGAGGAGGAGGAG
GATGATGATGACTTCCCTGCCCCTGCTGACGGCTATTACCGCGGAGAAGGGGCCCAGGATGAGG
AGGAAGGTGGCGCTTCCAGTGATGCCACTGAGGGCCACGATGAGGATGATGAGATCTACGAGGG
AGAATATCAGGGCATCCCCCGGGCAGAGTCTGGGGGCAAAGGCGAACGGATGGCAGATGGGGCA
CCCCTGGCTGGAGTGAGAGGGGGCTTAAGTGATGGGGAGGGTCCCCCTGGGGGTCGCGGGGAGG
CGCAGCGGCGTAAAGATCGGGAAGAATTGGCTCAGCAGTATGAGACCATCCTCCGGGAGTGCGG
CCATGGTCGCTTCCAGTGGACACTCTACTTCGTGCTGGGTCTGGCGCTGATGGCCGATGGTGTA
GAGGTCTTTGTGGTGGGCTTTGTGCTGCCCAGTGCTGAGAAAGATATGTGCCTGTCGGACTCCA
ACAAAGGCATGCTAGGCCTCATTGTGTACCTGGGCATGATGGTGGGGGCCTTCCTCTGGGGAGG
CCTGGCTGATCGGCTGGGTCGGAGACAGTGTCTGCTCATCTCGCTCTCAGTCAACAGCGTCTTC
GCTTTCTTCTCATCCTTCGTCCAGGGTTATGGCACCTTCCTTTTCTGCCGCCTCCTTTCTGGGG
TTGGGATTGGTGGTTCCATCCCCATTGTCTTCTCCTATTTTTCGGAGTTTCTGGCCCAGGAGAA
ACGTGGGGAGCATTTGAGCTGGCTCTGTATGTTCTGGATGATTGGTGGCGTGTATGCAGCTGCA
ATGGCCTGGGCCATCATCCCCCACTATGGGTGGAGTTTCCAGATGGGCTCTGCTTACCAGTTCC
ACAGCTGGAGGGTCTTTGTCCTCGTCTGTGCCTTTCCCTCTGTGTTTGCCATCGGGGCTCTGAC
TACGCAGCCGGAGAGTCCCCGCTTCTTCTTAGAGAATGGGAAGCACGATGAGGCCTGGATGGTG
CTGAAGCAGGTTCATGACACCAACATGCGAGCCAAGGGCCATCCTGAGCGAGTCTTCTCAGTAA
CCCACATTAAAACGATTCATCAGGAGGATGAATTGATTGAGATCCAGTCAGACACAGGAACCTG
GTACCAGCGCTGGGGAGTGCGGGCTTTGAGCCTGGGGGGTCAGGTTTGGGGGAACTTCCTCTCC
TGCTTCAGTCCAGAGTACCGGCGCATCACTCTGATGATGATGGGGGTATGGTTCACCATGTCCT
TCAGCTACTACGGTTTGACTGTCTGGTTTCCCGACATGATCCGCCATCTCCAGGCTGTGGACTA
TGCAGCCCGAACCAAAGTGTTCCCAGGGGAGCGCGTGGAGCACGTGACATTTAACTTCACACTG
GAGAATCAGATCCACCGAGGGGGACAGTACTTCAATGACAAGTTCATCGGGCTGCGTCTGAAGT
CAGTGTCCTTTGAGGATTCCCTGTTTGAGGAATGTTACTTTGAAGATGTCACATCCAGCAACAC
ATTCTTCCGCAACTGCACATTCATCAACACCGTGTTCTACAACACGGACCTGTTTGAGTACAAG
TTCGTGAACAGCCGCCTGGTGAACAGCACATTCCTGCACAATAAGGAAGGTTGCCCACTAGATG
TGACAGGGACGGGCGAAGGTGCCTACATGGTGTACTTTGTCAGCTTCTTGGGGACACTGGCTGT
GCTCCCTGGAAATATTGTGTCTGCTCTGCTCATGGACAAGATTGGCAGGCTCAGAATGCTTGCT
GGTTCCAGTGTGTTGTCCTGTGTTTCCTGCTTCTTCCTGTCTTTTGGGAACAGTGAGTCAGCCA
TGATCGCTCTGCTCTGCCTTTTTGGGGGAGTCAGTATTGCATCCTGGAACGCGCTGGACGTGCT
GACTGTTGAACTCTACCCTTCCGACAAGAGGACGACGGCCTTCGGCTTCCTGAATGCCCTGTGT
AAGCTGGCAGCTGTACTGGGCATCAGCATCTTCACGTCCTTTGTGGGAATCACCAAGGCCGCTC
CCATCCTCTTCGCCTCAGCTGCGCTTGCCCTTGGTAGCTCTCTGGCTCTGAAGCTGCCTGAGAC
CCGGGGACAGGTGCTGCAGTGAGGGATGGGGGAGTGTCTCAGGGGCTTTAGGGATGGCAGGCAC
ACTGTGACCAATAATTTCTTTTATCCCTACCCTGCCCTGCTGTCCTGGTCCTACTCCGTGTTTG
GTGTCTTAGCTGTGTGCCTGTGTGCATGTGTGTGACCCTGACGGGCAGGGGCTACGGGGAGGGT
CCCTTTGTCCCATGTTTGGGAGGAGGGACTCCCCACCTGCTGCCACCCTCAACTTTGCACAAGG
AGAAGGCTGAGCTGCATCCTTCTCTCCCTCAGTGTTAGCAGGGGTGGGGACGACTGTTTCTCTG
CTCCAGGTGTTCCAGAATTTCTGCCTTTCCCATCATTCCCTCCGCCTAGGCCCTGGTGAACCAC
AGGTATGGAGTTATAGTGGGGGCTGAGGCTTGGACCAAAAGAACTTCTTGAGTGGGAGCCTCCC
AAGGATGCTGGGGAGTAGCAATAAACCTTAGCCTCCGTTTTCACCTCAATTCAGGCTACAAGTG
TGAAGCCTGGATTTTATGGAATTAGTTTTCTGATTCTTATTTATATGTAAGTTCTGAGGCAGCT
TAGCTGGACTGTGTGTGGATGTATACATACACTCATATGTGTGTGTGTGTGCGCGCGTGCGTGT
GCGTGTGTGTATGTGTGCCATGGGGTAGGGGTACCACTATACTGTTCAATTATAAGCCAAGAGT
AGTAGTTTCAGTGAGCACACACACAACACTGTTTTTCTATCGTAACTCCCAGAATCTTGTACCT
GTGTTGGGGCTGCAGGCAGAAGTCCTTGGTCAGGCTGGGGTGAGCCCTGCAATCTTGGGGGACC
TGAGGGCACCTGACAAGGACTTTCTCCTTCCTCTAGAGAGGTTCTACCCACTAGCCACAGCCCT
CCCATCTGACCTGTCCACACAGGCAGTGTATCAGAGGAAAGAAAGGGAAAATAACCAGGCACAC
ATGGTCAAACCAGCAGGTCTGAAAGCACAAGAAGCTGGGGCAGGGGCAGGAAGCAGGGGTCCAT
CCCCTAACCCTTCTCAAAAAGGCTGGGTCGTGAGGGACCCCTAATGCAGGGACCTGAAGCCTCA
GTTTCCCCATCTTGCCCTTCCACAGAACAGCCTCTGTAGGTAGAGCTGCCCCCCGTCCTACCCT
ACTCTTGTGGCTGCTTTCTTTGGTACTCTTCCCACTCCCACCGTAGCTGTGACGTGTTGTAGTT
TTTAGCTGTTTGTAAAATGTTAAAAAAAAAAAAAAGTTAAAAGGAAGTTAAACTAAAAAAAAAA
AAAATCCAAATTCACCCTCCTTATGCTGTGTCTGGTGCCCTCAACCCTAAGGCCATTCCGATTT
TGTAACACTGAACCAGGTGGTGACTGTTTAATCGTGTCTGTGCTCAAAGGACTGCCTTCTCCTC
CAGTGCCCAGTGTGTGTGTGCCCCTTCCCTCATCATTCCGTTGCTGGACGTGGCCCTCTCCCTT
ACGTCCCCAGGGGAGACACAGCCACTTGTTTGTCTCCCGGGGAGCCCTGAACCTGACTCCATTG
ATGTGAAAAAATGAAATGAAAAATACTGCTGAAAAATAAAGGGTCTGAACCCTTAAAACTCAAA

hide sequence

RefSeq Acc Id:

XM_039101598 ⟹ XP_038957526

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	183,747,488 - 183,757,290 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_476558	(Get FASTA)	NCBI Sequence Viewer
	XP_006233014	(Get FASTA)	NCBI Sequence Viewer
	XP_038957526	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA42188	(Get FASTA)	NCBI Sequence Viewer
	AAH92132	(Get FASTA)	NCBI Sequence Viewer
	CAG34349	(Get FASTA)	NCBI Sequence Viewer
	EDL85646	(Get FASTA)	NCBI Sequence Viewer
	Q02563	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_476558 ⟸ NM_057210

- UniProtKB:

Q02563 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MEEGFRDRAAFIRGAKDIAKEVKKHAAKKVVKGLDRVQDEYSRRSYSRFEEEEDDDDFPAPADG
YYRGEGAQDEEEGGASSDATEGHDEDDEIYEGEYQGIPRAESGGKGERMADGAPLAGVRGGLSD
GEGPPGGRGEAQRRKDREELAQQYETILRECGHGRFQWTLYFVLGLALMADGVEVFVVGFVLPS
AEKDMCLSDSNKGMLGLIVYLGMMVGAFLWGGLADRLGRRQCLLISLSVNSVFAFFSSFVQGYG
TFLFCRLLSGVGIGGSIPIVFSYFSEFLAQEKRGEHLSWLCMFWMIGGVYAAAMAWAIIPHYGW
SFQMGSAYQFHSWRVFVLVCAFPSVFAIGALTTQPESPRFFLENGKHDEAWMVLKQVHDTNMRA
KGHPERVFSVTHIKTIHQEDELIEIQSDTGTWYQRWGVRALSLGGQVWGNFLSCFSPEYRRITL
MMMGVWFTMSFSYYGLTVWFPDMIRHLQAVDYAARTKVFPGERVEHVTFNFTLENQIHRGGQYF
NDKFIGLRLKSVSFEDSLFEECYFEDVTSSNTFFRNCTFINTVFYNTDLFEYKFVNSRLVNSTF
LHNKEGCPLDVTGTGEGAYMVYFVSFLGTLAVLPGNIVSALLMDKIGRLRMLAGSSVLSCVSCF
FLSFGNSESAMIALLCLFGGVSIASWNALDVLTVELYPSDKRTTAFGFLNALCKLAAVLGISIF
TSFVGITKAAPILFASAALALGSSLALKLPETRGQVLQ

hide sequence

RefSeq Acc Id:	XP_006233014 ⟸ XM_006232952
- Peptide Label:	isoform X1
- UniProtKB:	Q02563 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MEEGFRDRAAFIRGAKDIAKEVKKHAAKKVVKGLDRVQDEYSRRSYSRFEEEEDDDDFPAPADG YYRGEGAQDEEEGGASSDATEGHDEDDEIYEGEYQGIPRAESGGKGERMADGAPLAGVRGGLSD GEGPPGGRGEAQRRKDREELAQQYETILRECGHGRFQWTLYFVLGLALMADGVEVFVVGFVLPS AEKDMCLSDSNKGMLGLIVYLGMMVGAFLWGGLADRLGRRQCLLISLSVNSVFAFFSSFVQGYG TFLFCRLLSGVGIGGSIPIVFSYFSEFLAQEKRGEHLSWLCMFWMIGGVYAAAMAWAIIPHYGW SFQMGSAYQFHSWRVFVLVCAFPSVFAIGALTTQPESPRFFLENGKHDEAWMVLKQVHDTNMRA KGHPERVFSVTHIKTIHQEDELIEIQSDTGTWYQRWGVRALSLGGQVWGNFLSCFSPEYRRITL MMMGVWFTMSFSYYGLTVWFPDMIRHLQAVDYAARTKVFPGERVEHVTFNFTLENQIHRGGQYF NDKFIGLRLKSVSFEDSLFEECYFEDVTSSNTFFRNCTFINTVFYNTDLFEYKFVNSRLVNSTF LHNKEGCPLDVTGTGEGAYMVYFVSFLGTLAVLPGNIVSALLMDKIGRLRMLAGSSVLSCVSCF FLSFGNSESAMIALLCLFGGVSIASWNALDVLTVELYPSDKRTTAFGFLNALCKLAAVLGISIF TSFVGITKAAPILFASAALALGSSLALKLPETRGQVLQ hide sequence

RefSeq Acc Id:

ENSRNOP00000028760 ⟸ ENSRNOT00000028760

RefSeq Acc Id:	XP_038957526 ⟸ XM_039101598
- Peptide Label:	isoform X2

Transcriptome

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

Promoters

RGD ID:

13691569

Promoter ID:

EPDNEW_R2093

Type:

initiation region

Name:

Sv2a_1

Description:

synaptic vesicle glycoprotein 2a

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	2	198,321,138 - 198,321,198	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

Visual

CSV

TAB

Printer

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)

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

ACI/N (MCW)

Visual

CSV

TAB

Printer

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)

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

BN/SsN (MCW)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

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

F344/NRrrc (MCW)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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

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

FHL/EurMcwi (MCW)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

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

LE/Stm (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

LEW/Crl (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

LEW/NCrlBR (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

LH/MavRrrc (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

LL/MavRrrc (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

LN/MavRrrc (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

M520/N (MCW)

Visual

CSV

TAB

Printer

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)

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

MNS/Gib (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

MR/N (MCW)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

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

SBN/Ygl (MCW)

Visual

CSV

TAB

Printer

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)

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

SHR/NHsd (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

SHRSP/Gcrc (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

SR/JrHsd (MCW)

Visual

CSV

TAB

Printer

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)

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

SS/Jr (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

SS/JrHsdMcwi (MCW)

Visual

CSV

TAB

Printer

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)

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

WAG/Rij (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

WKY/Gcrc (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

WKY/N (MCW)

Visual

CSV

TAB

Printer

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)

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

WKY/NHsd (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

WN/N (MCW)

Visual

CSV

TAB

Printer

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:619715	AgrOrtholog
Ensembl Genes	ENSRNOG00000021182	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000028760	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000028760	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7314271	IMAGE-MGC_LOAD
InterPro	5peptide_repeat	UniProtKB/Swiss-Prot
	MFS	UniProtKB/Swiss-Prot
	MFS_dom	UniProtKB/Swiss-Prot
	MFS_sugar_transport-like	UniProtKB/Swiss-Prot
	MFS_trans_sf	UniProtKB/Swiss-Prot
	Sugar_transporter_CS	UniProtKB/Swiss-Prot
	SV2	UniProtKB/Swiss-Prot
KEGG Report	rno:117559	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:105346	IMAGE-MGC_LOAD
NCBI Gene	117559	ENTREZGENE
Pfam	MFS_1	UniProtKB/Swiss-Prot
	Pentapeptide_4	UniProtKB/Swiss-Prot
	Sugar_tr	UniProtKB/Swiss-Prot
PhenoGen	Sv2a	PhenoGen
PROSITE	MFS	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF103473	UniProtKB/Swiss-Prot
TIGRFAMs	synapt_SV2	UniProtKB/Swiss-Prot
UniProt	Q02563	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	Q58DZ8	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2004-12-14	Sv2a	synaptic vesicle glycoprotein 2a		synaptic vesicle glycoprotein 2 a	Name updated	1299863	APPROVED
2002-08-07	Sv2a	synaptic vesicle glycoprotein 2 a			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_domains	has 12 transmembrane domains	634182
gene_expression	expressed in the endocrine cells and in the secretory vesicles in neurons	634182

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

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

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

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

Imported Disease Annotations - ClinVar

Imported Annotations - KEGG (archival)