Sytl3 (synaptotagmin-like 3) - Rat Genome Database

Name: Sytl3
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Sytl3 (synaptotagmin-like 3) Rattus norvegicus

Analyze

Symbol:

Sytl3

Name:

synaptotagmin-like 3

RGD ID:

1561992

Description:

Predicted to have calcium-dependent phospholipid binding activity and neurexin family protein binding activity. Predicted to be involved in exocytosis. Predicted to localize to exocytic vesicle and extrinsic component of plasma membrane. Orthologous to human SYTL3 (synaptotagmin like 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

LOC499017; RGD1561992; similar to synaptotagmin-like protein 3-a; synaptotagmin-like protein 3

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):	SYTL3 (synaptotagmin like 3)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Sytl3 (synaptotagmin-like 3)	HGNC	Treefam, EggNOG, OrthoMCL, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Sytl3 (synaptotagmin like 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SYTL3 (synaptotagmin like 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SYTL3 (synaptotagmin like 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sytl3 (synaptotagmin like 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SYTL3 (synaptotagmin like 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	SYTL3 (synaptotagmin like 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sytl3 (synaptotagmin like 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SYTL3 (synaptotagmin like 3)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Sytl3 (synaptotagmin-like 3)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	sytl3 (synaptotagmin-like 3)	Alliance	DIOPT (OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	Y48G8AR.2	Alliance	DIOPT (OrthoFinder\|PhylomeDB)
Drosophila melanogaster (fruit fly):	btsz	Alliance	DIOPT (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	1	46,896,308 - 46,967,461 (+)	NCBI
Rnor_6.0 Ensembl	1	47,231,093 - 47,287,371 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	1	47,216,988 - 47,287,372 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	1	48,520,061 - 48,591,365 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	41,121,373 - 41,177,695 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	1	42,598,861 - 42,655,031 (+)	NCBI		Celera
Cytogenetic Map	1	q11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-demecolcine (ISO)

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

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

acetamide (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

antirheumatic drug (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

Benzo[ghi]perylene (ISO)

bisphenol A (EXP)

calcitriol (ISO)

carbon nanotube (ISO)

disodium selenite (ISO)

doxorubicin (ISO)

endosulfan (EXP)

furan (EXP)

GW 4064 (ISO)

lead diacetate (ISO)

methapyrilene (ISO)

methotrexate (ISO)

methyl methanesulfonate (ISO)

nickel atom (ISO)

potassium chromate (ISO)

propanal (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sunitinib (ISO)

tetrachloromethane (EXP)

thioacetamide (EXP)

titanium dioxide (ISO)

valproic acid (ISO)

vincristine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

exocytosis (IBA,ISO)

intracellular protein transport (IEA)

Cellular Component

exocytic vesicle (IBA)

extrinsic component of plasma membrane (ISO)

membrane (ISO)

plasma membrane (IBA)

Molecular Function

calcium-dependent phospholipid binding (ISO)

neurexin family protein binding (IBA,ISO)

phospholipid binding (ISO)

protein binding (ISO)

small GTPase binding (IEA)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:11243866	PMID:12477932	PMID:12590134

Genomics

Comparative Map Data

Sytl3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	1	46,896,308 - 46,967,461 (+)	NCBI
Rnor_6.0 Ensembl	1	47,231,093 - 47,287,371 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	1	47,216,988 - 47,287,372 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	1	48,520,061 - 48,591,365 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	41,121,373 - 41,177,695 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	1	42,598,861 - 42,655,031 (+)	NCBI		Celera
Cytogenetic Map	1	q11	NCBI

SYTL3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	6	158,650,014 - 158,764,876 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	6	158,644,867 - 158,766,298 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	6	159,071,086 - 159,185,903 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	6	159,065,931 - 159,185,908 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	158,991,034 - 159,105,889 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	6	159,041,508 - 159,156,311	NCBI
Celera	6	159,719,041 - 159,833,917 (+)	NCBI
Cytogenetic Map	6	q25.3	NCBI
HuRef	6	156,541,943 - 156,656,442 (+)	NCBI		HuRef
CHM1_1	6	159,333,606 - 159,448,611 (+)	NCBI		CHM1_1

Sytl3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	6,925,633 - 7,005,449 (+)	NCBI	GRCm39		mm39
GRCm38	17	6,658,133 - 6,738,070 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	6,659,093 - 6,738,044 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	6,877,960 - 6,942,393 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	17	6,523,269 - 6,587,494 (+)	NCBI			mm8
Celera	15	14,732,754 - 14,737,852 (-)	NCBI		Celera
Cytogenetic Map	17	A1	NCBI

Sytl3
(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_004955439	3,741,185 - 3,813,670 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955439	3,740,044 - 3,825,954 (-)	NCBI	ChiLan1.0	ChiLan1.0

SYTL3
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	6	161,552,602 - 161,669,609 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	161,559,559 - 161,669,609 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	6	156,537,572 - 156,655,272 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

SYTL3
(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	1	48,067,612 - 48,159,936 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	1	48,066,449 - 48,159,980 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Sytl3
(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_004936489	10,384,060 - 10,413,122 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SYTL3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	8,453,283 - 8,546,530 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	8,452,822 - 8,546,637 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	10,432,694 - 10,498,575 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SYTL3
(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	13	86,242,087 - 86,342,084 (+)	NCBI
ChlSab1.1 Ensembl	13	86,242,109 - 86,341,818 (+)	Ensembl

Sytl3
(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_004624929	874,246 - 969,213 (-)	NCBI

Position Markers

RH137637

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	1	47,287,114 - 47,287,239	NCBI	Rnor6.0
Rnor_5.0	1	48,590,213 - 48,590,338	UniSTS	Rnor5.0
RGSC_v3.4	1	41,177,437 - 41,177,562	UniSTS	RGSC3.4
Celera	1	42,654,773 - 42,654,898	UniSTS
RH 3.4 Map	1	538.8	UniSTS
Cytogenetic Map	1	q11	UniSTS

RH127410

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	1	47,287,579 - 47,287,765	NCBI	Rnor6.0
Rnor_5.0	1	48,590,678 - 48,590,864	UniSTS	Rnor5.0
RGSC_v3.4	1	41,177,902 - 41,178,088	UniSTS	RGSC3.4
Celera	1	42,655,238 - 42,655,424	UniSTS
RH 3.4 Map	1	541.1	UniSTS
Cytogenetic Map	1	q11	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
738020	Pia8	Pristane induced arthritis QTL 8	4.7		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	1	1	64407321	Rat
1554320	Bmd1	Bone mineral density QTL 1	12.2	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	1	254393	86904217	Rat
7421626	Bp360	Blood pressure QTL 360		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	4578693	49578693	Rat
631688	Hcas2	Hepatocarcinoma susceptibility QTL 2	3	0.0001	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	5655769	122614963	Rat
4889451	Eae29	Experimental allergic encephalomyelitis QTL 29	5.51		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	1	5655772	85706974	Rat
1300167	Hrtrt2	Heart rate QTL 2	4.35		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	1	11314489	75844121	Rat
2313062	Bmd73	Bone mineral density QTL 73	3.9	0.0001	tibia mineral mass (VT:1000283)	cortical volumetric bone mineral density (CMO:0001730)	1	11314489	83657083	Rat
2313065	Bss67	Bone structure and strength QTL 67	3.1	0.0001	tibia area (VT:1000281)	tibia total energy absorbed before break (CMO:0001736)	1	11314489	83657083	Rat
2313069	Bss68	Bone structure and strength QTL 68	2.9	0.0001	tibia size trait (VT:0100001)	tibia total energy absorbed before break (CMO:0001736)	1	11314489	83657083	Rat
2313075	Bss66	Bone structure and strength QTL 66	3.4	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	1	11314489	83657083	Rat
2313077	Bss69	Bone structure and strength QTL 69	3.5	0.0001	tibia strength trait (VT:1000284)	bone polar moment of inertia (CMO:0001558)	1	11314489	83657083	Rat
2313092	Bmd72	Bone mineral density QTL 72	2.5	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	1	11314489	83657083	Rat
2313097	Bss70	Bone structure and strength QTL 70	3.5	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	1	11314489	83657083	Rat
631508	Sald1	Serum aldosterone level QTL 1	3.7		blood aldosterone amount (VT:0005346)	serum aldosterone level (CMO:0000487)	1	12493439	57493439	Rat
2302038	Pia31	Pristane induced arthritis QTL 31	5.5	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	1	13629251	58629251	Rat
5684998	Bss101	Bone structure and strength QTL 101	3.6		tibia strength trait (VT:1000284)	tibia ultimate force (CMO:0001734)	1	16143143	49547474	Rat
5684999	Bss102	Bone structure and strength QTL 102	5.5	0.00000072	tibia strength trait (VT:1000284)	tibia stiffness (CMO:0001735)	1	16143143	49547474	Rat
634353	Rends2	Renal damage susceptibility QTL 2		0.05	kidney blood vessel morphology trait (VT:0000530)	organ lesion measurement (CMO:0000677)	1	20341560	58000154	Rat
724520	Bp145	Blood pressure QTL 145	2.1	0.0024	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	21079305	66079305	Rat
631494	Bp95	Blood pressure QTL 95	40	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	21300822	49454378	Rat
1357397	Bw41	Body weight QTL 41	4.19	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	1	23406428	49547474	Rat
1357401	Bw43	Body weight QTL 43	3.75		body mass (VT:0001259)	body weight (CMO:0000012)	1	23406428	49547474	Rat
1357400	Bw62	Body weight QTL62	4.05		inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	1	23406428	68406428	Rat
631495	Bp96	Blood pressure QTL 96	4.52		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	23406428	108057505	Rat
1358192	Ept13	Estrogen-induced pituitary tumorigenesis QTL 13	3.4		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	1	24297799	78748000	Rat
1358359	Sradr1	Stress Responsive Adrenal Weight QTL 1	4.74		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	1	25951907	130917265	Rat
1331785	Rf27	Renal function QTL 27	4.643		urine sodium amount (VT:0006274)	urine sodium level (CMO:0000129)	1	31489454	79689689	Rat
1354643	Foco2	Food consumption QTL 2	7.17	0.0001	eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	1	34449112	79449112	Rat
1354599	Bw29	Body weight QTL 29	3.46	0.001	body mass (VT:0001259)	body weight (CMO:0000012)	1	34449112	79449112	Rat
70225	Bp58	Blood pressure QTL 58	3.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	34993530	173445086	Rat
1300172	Bp172	Blood pressure QTL 172	3.56		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	35377508	94364229	Rat
10059597	Bp377	Blood pressure QTL 377	3.42	0.025	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	35377692	217372257	Rat
9589820	Insglur3	Insulin/glucose ratio QTL 3	10.75	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	1	35854167	80854167	Rat
8552900	Pigfal1	Plasma insulin-like growth factor 1 level QTL 1	7.4		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	1	35854167	80854167	Rat
8552948	Pigfal11	Plasma insulin-like growth factor 1 level QTL 11	4.7		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	1	35854167	80854167	Rat
1331732	Srn4	Serum renin concentration QTL 4	4.467		renin activity (VT:0005581)	plasma renin activity level (CMO:0000116)	1	36033165	79689689	Rat
1331792	Rf29	Renal function QTL 29	4.589		urine potassium amount (VT:0010539)	urine potassium level (CMO:0000128)	1	36033165	79689689	Rat
2302059	Pia36	Pristane induced arthritis QTL 36	3.8	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	1	41907249	86907249	Rat
2313051	Bss57	Bone structure and strength QTL 57	3.7	0.0001	tibia strength trait (VT:1000284)	bone polar moment of inertia (CMO:0001558)	1	43579208	126240667	Rat
2313059	Bss55	Bone structure and strength QTL 55	3.2	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	1	43579208	126240667	Rat
2313072	Bss53	Bone structure and strength QTL 53	4.3	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	1	43579208	126240667	Rat
2313078	Bss54	Bone structure and strength QTL 54	3.5	0.0001	tibia area (VT:1000281)	tibia midshaft cross-sectional area (CMO:0001717)	1	43579208	126240667	Rat
2313094	Bss58	Bone structure and strength QTL 58	3.7	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	1	43579208	126240667	Rat
2313098	Bmd70	Bone mineral density QTL 70	3.6	0.0001	tibia mineral mass (VT:1000283)	cortical volumetric bone mineral density (CMO:0001730)	1	43579208	126240667	Rat
2313099	Bss56	Bone structure and strength QTL 56	2.4	0.0001	tibia size trait (VT:0100001)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	1	43579208	126240667	Rat
1331778	Rf28	Renal function QTL 28	4.66		urine potassium amount (VT:0010539)	urine potassium excretion rate (CMO:0000761)	1	46113461	79689689	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	109
Count of miRNA genes:	87
Interacting mature miRNAs:	92
Transcripts:	ENSRNOT00000024967
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			7		8							1
Low	3	23	15	6	11	6	4	4	14	25	31	10	4
Below cutoff		12	31	31		31	4	7	52	10	9		4

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001127560	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006227888	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017589549	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039086845	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039086856	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039086866	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039086870	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005489947	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC166706	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000016	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000024967 ⟹ ENSRNOP00000024967

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	1	47,231,093 - 47,287,371 (+)	Ensembl

RefSeq Acc Id:

NM_001127560 ⟹ NP_001121032

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	46,911,217 - 46,967,461 (+)	NCBI
Rnor_6.0	1	47,231,093 - 47,287,372 (+)	NCBI
Rnor_5.0	1	48,520,061 - 48,591,365 (+)	NCBI
RGSC_v3.4	1	41,121,373 - 41,177,695 (+)	RGD
Celera	1	42,598,861 - 42,655,031 (+)	RGD

Sequence:

show sequence

TCCAGCCGTGGGGCAGCCTTGTGGACTTTGCTTCTCTGAAGGAGTATGACCCAGTTAGGAAAGA
AGGAAGAGCCACACGTCAAATACAGTCACCGGTGAAACCAGAGAGGGGCTCCTGCGGGATCCAG
GGAAGCAGCTGGACTCCGGCTTCTCCGCAGGACAGTGGATCTCTGTCGTGCGTGCGGAGAGGAA
ATGGCCCACGAAGTGGACCTGGAGTCCTTCAAGGAGTTGGAACGGGACATCATTCTCCGGGTCC
TATATCGAGATCAAACTGTTCAAAGCATCGAGGAGGAGAGGGTCCGGAACCTGAAAACACACCT
GCAGCATCTTCGGTGGAAAGGGGCAAAGAGCTCCAGCCAGGAATACAAGGAAAAGTGTTGTGCA
CGTTGCCAGCGGACTCTGGGCCTTCTGCTAAACCGTGGGGCTGTGTGTCAGGGCTGCAGCCACC
GTGTGTGCTCCGAATGCCGTGTATTCCTACGGAAGACTCATGCATGGAAGTGCACAGTGTGCTT
TGAGGACAGAAACGTGAAAATCAAAACCGGAGAGTGGTTCTTTGAAGAACGAGCCAGGAAATTT
CCAACTGCAGGCAGACGCGAGACCGCTGGGGCGAGGCTCCTACAATCTTATCAGAGGCAGAGCA
AAATCTCTGTGGTCCCTCCGACGCCACCACCTCTCAGTGAGAGCCAGTGCGGCGGCAGCCCCAG
CAGGTTACAGGAACTTGGCCACTTCAGAGGGTTTAATAAGTCCGTGGAAAACTTGTTTCTGTCT
GTCACCACGCAGATGAGAAAGCTCTCCAAGTCCCAGAATGACATGACCTCTGAGAAGCATCTTC
TGGCCATGGACCCCAGGCAGTGTATGGGCCACACGGAGAGGCGGAGCCAGTCAGACACTGCTGT
CAACGTCACGTCCAGGAAGACCAGCACACCCGATATTCTGAAAGCATTCCATCAAGAAGATCCC
AGACACCCTCCCAGCCCTGTTTTGAAGCAAGACACTCCTCCATCCAGTCCAACACACAGCACTG
TTTTCTCTGGAGGCTTGAGACATGGAAGCTTAATTAGCGTTAACAGTACCTGCACGGAGATGGG
TAATTTTGACAACGCTAATGTCACTGGAGAAATAGAATTTGCCATTCATTACTGCGTTAACAGC
CATTCCTTAGAGATCTGCATCAAGACCTGTAAGAACCTCGCCTACGGAGAAGACAAGAGAAGGA
AGTGCAATCCGTATGTCAAGACCTACCTGCTGCCAGACAGGTCCTCCCAGGGAAAACGCAAGAC
ACGAGTTCAAAAGAACACTCTGGACCCGACTTTCGAAGAAACCTTGAAGTATCAAGTGGACCCT
GCGCAGCTGGCGACCCGGAGGCTGCAGGTCTCTGTGTGGCACCTAGGTACCCTAGCCCGGAGGG
TGTTCCTCGGAGAAGTGATCCTTCCTCTGGCCACATGGGACTTTGAGGGCAGTGCGGCACAGAA
TGCCAGATGGTACCCTCTTCGGGCCAAGGCTGAGAAATATGAAGAAAATATTCCTCAGACTAAT
GGAGAACTTGCTGTTCGGGCCAAACTGGTCCTTCCTGTGGGACCGAGAATGCTCCAGGAGGCCC
AAGAAGATCAGCTAGCACTTAATGGTCAACTGTGTTTGGTTGTGTTGGGAGCCAAGAATTTACC
GGTGAGGTCAGATGGCACCTTAAACTCGTTTGTTAAGGGCTGTCTCACTCTGCCAGACCAACAA
AAGCTGCGTGTGAAGTCCCCAGTACTGAAGAAGCAGGCTTGTCCCCAGTGGAAACACTCCTTCG
TGTTCAATGGTGTGAGCAGCTCTCAGCTGAGACAGTCCACCTTGGAGCTGACTGTCTGGGACCA
GGCCATGTTTGGTATGAATGATCGTCTGCTGGGGGAAGCCAAGCTTGGTTCAAAGGGAGGTGCC
CCGGGCTGTACCGACTCATGCTCCCAGTCCAAGCTTCAGTGGCAGAAAGTCCTGTCCAGCCCCA
ACTTATGGACGGACATGACACTCATCCTGCACTGAGGTGAAGCCCAAGGCGACTGCAGACCCAC
AAAGGTCAACAGGAAGTGAGATCATGGCAGAATCAGAACCACCTGATCACCAACAACCGACTAC
AGTTATGTGTGTGGTTAGGAAACAGAAAGATTACTGTCGGGGAGCCTACTGCCGACAGATGTGG
AAATGTTCTGATTTCAATAAATGTTCAACAGCAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006227888 ⟹ XP_006227950

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	46,896,308 - 46,967,461 (+)	NCBI
Rnor_6.0	1	47,216,988 - 47,287,372 (+)	NCBI
Rnor_5.0	1	48,520,061 - 48,591,365 (+)	NCBI

Sequence:

show sequence

ACCGGGCTCTGCTGGGCGTTTGGGGGGAAAGATGAGACATTTCACCGAAGACTCTTATATTCTT
GCAGTGTAAAATCTTTGTGTGAGCTCCTCGGCATAGCATTGGATGTCTCCACTGTCTGGGTCCT
TGGTGAAGTGGGATTAGCCACAGACACACTTGGGATTGCCATGTAAATCGTCAGCTACAGCCAG
TGCCTGGCAGGAAGGAAGGAGACACACAGGTCAGTGAGTGAAGAACTGACTTCCTCAGCAGGAC
ACCCTCCAGATCAAGATTTTAAGGCATTAACCAGGCTGGACTTTTATTGTCACTTCTGCTGATC
TGGACATATTTTTTCTGGGGAAATTTTGCTACCCTAGGTTGTCGGGCTCTCTCATGACTGCTCG
TCAACTTCCTTGGGGCTGGAGATTACTAGCGCTTTACAGAAATTATCTTCTCAGCAGCCATGCA
TCATTTATAACAATCTCTGGCAAAACCTCAGAAAAAGATACGCTCTTGTCTCATCAGGCAGAGC
GCAGTGAAAACGCTCTCCGGGTGGAAGTGACTCCAGCCGTGGGGCAGCCTTGTGGACTTTGCTT
CTCTGAAGGAGTATGACCCAGTTAGGAAAGAAGGAAGAGCCACACGTCAAATACAGTCACCGGT
GAAACCAGAGAGGGGCTCCTGCGGGATCCAGGGAAGCAGCTGGACTCCGGCTTCTCCGCAGGAC
AGTGGATCTCTGTCGTGCGTGCGGAGAGGAAATGGCCCACGAAGTGGACCTGGAGTCCTTCAAG
GAGTTGGAACGGGACATCATTCTCCGGGTCCTATATCGAGATCAAACTGTTCAAAGCATCGAGG
AGGAGAGGGTCCGGAACCTGAAAACACACCTGCAGCATCTTCGGTGGAAAGGGGCAAAGAGCTC
CAGCCAGGAATACAAGGAAAAGTGTTGTGCACGTTGCCAGCAGACTCTGGGCCTTCTGCTAAAC
CGTGGGGCTGTGTGTCAGGGCTGCAGCCACCGTGTGTGCTCCGAATGCCGTGTATTCCTACGGA
AGACTCATGCATGGAAGTGCACAGTGTGCTTTGAGGACAGAAACGTGAAAATCAAAACCGGAGA
GTGGTTCTTTGAAGAACGAGCCAGGAAATTTCCAACTGCAGGCAGACGCGAGACCGCTGGGGCG
AGGCTCCTACAATCTTATCAGAGGCAGAGCAGCAAAATCTCTGTGGTCCCTCCGACGCCACCAC
CTCTCAGTGAGAGCCAGTGCGGCGGCAGCCCCAACAGGTTACAGGAACTTGGCCACTTCAGAGG
GTTTAATAAGTCCGTGGAAAACTTGTTTCTGTCTGTCACCACGCAGATGAGAAAGCTCTCCAAG
TCCCAGAATGACATGACCTCTGAGAAGCATCTTCTGGCCATGGACCCCAGGCAGTGTATGGGCC
ACACGGAGAGGCGGAGCCAGTCAGACACTGCTGTCAACGTCACGTCCAGGAAGACCAGCACACC
CGATATTCTGAAAGCATTCCATCAAGAAGATCCCAGACACCCTCCCAGCCCTGTTTTGAAGCAA
GACACTCCTCCATCCAGTCCAACACACAGCACTGTCTTCTCTGGAGGCTTGAGACATGGAAGCT
TAATTAGCGTTAACAGTACCTGCACGGAGATGGGTAATTTTGACAACGCTAATGTCACTGGAGA
AATAGAATTTGCCATTCATTACTGCGTTAACAGCCATTCCTTAGAGATCTGCATCAAGACCTGT
AAGAACCTCGCCTACGGAGAAGACAAGAGAAGGAAGTGCAATCCGTATGTCAAGACCTACCTGC
TGCCAGACAGGTCCTCCCAGGGAAAACGCAAGACACGAGTTCAAAAGAACACTCTGGACCCGAC
TTTCGAAGAAACCTTGAAGTATCAAGTGGACCCTGCGCAGCTGGCGACCCGGAGGCTGCAGGTC
TCTGTGTGGCACCTAGGTACCCTAGCCCGGAGGGTGTTCCTCGGAGAAGTGATCCTTCCTCTGG
CCACATGGGACTTTGAGGGCAGTGCGGCACAGAATGCCAGATGGTACCCTCTTCGGGCCAAGGC
TGAGAAATATGAAGAAAATATTCCTCAGACTAATGGAGAACTTGCTGTTCGGGCCAAACTGGTC
CTTCCTGTGGGACCGAGAATGCTCCAGGAGGCCCAAGAAGATCAGCTAGCACTTAATGGTCAAC
TGTGTTTGGTTGTGTTGGGAGCCAAGAATTTACCGGTGAGGTCAGATGGCACCTTAAACTCGTT
TGTTAAGGGCTGTCTCACTCTGCCAGACCAACAAAAGCTGCGTGTGAAGTCCCCAGTACTGAAG
AAGCAGGCTTGTCCCCAGTGGAAACACTCCTTCGTGTTCAATGGTGTGAGCAGCTCTCAGCTGA
GACAGTCCACCTTGGAGCTGACTGTCTGGGACCAGGCCATGTTTGGTATGAATGATCGTCTGCT
GGGGGAAGCCAAGCTTGGTTCAAAGGGAGGTGCCCCGGGCTGTACCGACTCATGCTCCCAGTCC
AAGCTTCAGTGGCAGAAAGTCCTGTCCAGCCCCAACTTATGGACGGACATGACACTCATCCTGC
ACTGAGGTGAAGCCCAAGGCGACTGCAGACCCACAAAGGTCAACAGGAAGTGAGATCATGGCAG
AATCAGAACCACCTGATCACCAACAACCGACTACAGTTATGTGTGTGGTTAGGAAACAGAAAGA
TTACTGTCGGGGAGCCTACTGCCGACAGATGTGGAAATGTTCTGATTTCAATAAATGTTCAACA
GCA

hide sequence

RefSeq Acc Id:

XM_006227891 ⟹ XP_006227953

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	1	47,216,988 - 47,287,372 (+)	NCBI
Rnor_5.0	1	48,520,061 - 48,591,365 (+)	NCBI

Sequence:

show sequence

ACCGGGCTCTGCTGGGCGTTTGGGGGGAAAGATGAGACATTTCACCGAAGACTCTTATATTCTT
GCAGTGTAAAATCTTTGTGTGAGCTCCTCGGCATAGCATTGGATGTCTCCACTGTCTGGGTCCT
TGGTGAAGTGGGATTAGCCACAGACACACTTGGGATTGCCATGTAAATCGTCAGCTACAGCCAG
TGCCTGGCAGGAAGGAAGGAGACACACAGGTCAGTGAGTGAAGAACTGACTTCCTCAGCAGGAC
ACCCTCCAGATCAAGATTTTAAGGCATTAACCAGGCTGGACTTTTATTGTCACTTCTGCTGATC
TGGACATATTTTTTCTGGGGAAATTTTGCTACCCTAGGTTGTCGGGCTCTCTCATGACTGCTCG
TCAACTTCCTTGGGGCTGGAGATTACTAGCGCTTTACAGAAATTATCTTCTCAGCAGCCATGCA
TCATTTATAACAATCTCTGGCAAAACCTCAGAAAAAGATACGCTCTTGTCTCATCAGGCAGAGC
GCAGTGAAAACGCTCTCCGGGTGGAAGTGACTCCAGCCGTGGGGCAGCCTTGTGGACTTTGCTT
CTCTGAAGGAGTATGACCCAGTTAGGAAAGAAGGAAGAGCCACACGTCAAATACAGTCACCGGT
GAAACCAGAGAGGGGCTCCTGCGGGATCCAGGGAAGCAGCTGGACTCCGGCTTCTCCGCAGGAC
AGTGGATCTCTGTCGTGCGTGCGGAGAGGAAATGGCCCACGAAGTGGACCTGGAGTCCTTCAAG
GAGTTGGAACGGGACATCATTCTCCGGGTCCTATATCGAGATCAAACTGTTCAAAGCATCGAGG
AGGAGAGGGTCCGGAACCTGAAAACACACCTGCAGCATCTTCGGTGGAAAGGGGCAAAGAGCTC
CAGCCAGGAATACAAGGAAAAGTGTTGTGCACGTTGCCAGCAGACTCTGGGCCTTCTGCTAAAC
CGTGGGGCTGTGTGTCAGGGCTGCAGCCACCGTGTGTGCTCCGAATGCCGTGTATTCCTACGGA
AGACTCATGCATGGAAGTGCACAGTGTGCTTTGAGGACAGAAACGTGAAAATCAAAACCGGAGA
GTGGTTCTTTGAAGAACGAGCCAGGAAATTTCCAACTGCAGGCAGACGCGAGACCGCTGGGGCG
AGGCTCCTACAATCTTATCAGAGGCAGAGCAAAATCTCTGTGGTCCCTCCGACGCCACCACCTC
TCAGTGAGAGCCAGTGCGGCGGCAGCCCCAACAGGTTACAGGAACTTGGCCACTTCAGAGGGTT
TAATAAGTCCGTGGAAAACTTGTTTCTGTCTGTCACCACGCAGATGAGAAAGCTCTCCAAGTCC
CAGAATGACATGACCTCTGAGAAGCATCTTCTGGCCATGGACCCCAGGCAGTGTATGGGCCACA
CGGAGAGGCGGAGCCAGTCAGACACTGCTGTCAACGTCACGTCCAGGAAGACCAGCACACCCGA
TATTCTGAAAGCATTCCATCAAGAAGATCCCAGACACCCTCCCAGCCCTGTTTTGAAGCAAGAC
ACTCCTCCATCCAGTCCAACACACAGCACTGTCTTCTCTGGAGGCTTGAGACATGGAAGCTTAA
TTAGCGTTAACAGTACCTGCACGGAGATGGGTAATTTTGACAACGCTAATGTCACTGGAGAAAT
AGAATTTGCCATTCATTACTGCGTTAACAGCCATTCCTTAGAGATCTGCATCAAGACCTGTAAG
AACCTCGCCTACGGAGAAGACAAGAGAAGGAAGTGCAATCCGTATGTCAAGACCTACCTGCTGC
CAGACAGGTCCTCCCAGGGAAAACGCAAGACACGAGTTCAAAAGAACACTCTGGACCCGACTTT
CGAAGAAACCTTGAAGTATCAAGTGGACCCTGCGCAGCTGGCGACCCGGAGGCTGCAGGTCTCT
GTGTGGCACCTAGGTACCCTAGCCCGGAGGGTGTTCCTCGGAGAAGTGATCCTTCCTCTGGCCA
CATGGGACTTTGAGGGCAGTGCGGCACAGAATGCCAGATGGTACCCTCTTCGGGCCAAGGCTGA
GAAATATGAAGAAAATATTCCTCAGACTAATGGAGAACTTGCTGTTCGGGCCAAACTGGTCCTT
CCTGTGGGACCGAGAATGCTCCAGGAGGCCCAAGAAGATCAGCTAGCACTTAATGGTCAACTGT
GTTTGGTTGTGTTGGGAGCCAAGAATTTACCGGTGAGGTCAGATGGCACCTTAAACTCGTTTGT
TAAGGGCTGTCTCACTCTGCCAGACCAACAAAAGCTGCGTGTGAAGTCCCCAGTACTGAAGAAG
CAGGCTTGTCCCCAGTGGAAACACTCCTTCGTGTTCAATGGTGTGAGCAGCTCTCAGCTGAGAC
AGTCCACCTTGGAGCTGACTGTCTGGGACCAGGCCATGTTTGGTATGAATGATCGTCTGCTGGG
GGAAGCCAAGCTTGGTTCAAAGGGAGGTGCCCCGGGCTGTACCGACTCATGCTCCCAGTCCAAG
CTTCAGTGGCAGAAAGTCCTGTCCAGCCCCAACTTATGGACGGACATGACACTCATCCTGCACT
GAGGTGAAGCCCAAGGCGACTGCAGACCCACAAAGGTCAACAGGAAGTGAGATCATGGCAGAAT
CAGAACCACCTGATCACCAACAACCGACTACAGTTATGTGTGTGGTTAGGAAACAGAAAGATTA
CTGTCGGGGAGCCTACTGCCGACAGATGTGGAAATGTTCTGATTTCAATAAATGTTCAACAGCA

hide sequence

RefSeq Acc Id:

XM_017589549 ⟹ XP_017445038

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	46,899,523 - 46,967,461 (+)	NCBI
Rnor_6.0	1	47,219,275 - 47,287,372 (+)	NCBI

Sequence:

show sequence

AAAAAAAAAAAAATCTGTGGCGGAACAGCTGGGCCAAGCTGCAGCCTCAGAAGCACGAAGCTCT
ATCAGTGAGCAGCTGTGGCTTGCAGGCTGCGAGAACAGGGCTGGGCAGGGTGGGACAGTGTGTT
CTTCTTAGACACGCATGCTGCTGCCTGCTCACTTCCATTCTGCTGTCAAGTTGCCCCAATACAG
GACCGACATCTATTTCCTTTGGTTCCGTGGCTGCCAGCTCAAAACACACATCAATTTTAAGGCA
TTAACCAGGCTGGACTTTTATTGTCACTTCTGCTGATCTGGACATATTTTTTCTGGGGAAATTT
TGCTACCCTAGGTTGTCGGGCTCTCTCATGACTGCTCGTCAACTTCCTTGGGGCTGGAGATTAC
TAGCGCTTTACAGAAATTATCTTCTCAGCAGCCATGCATCATTTATAACAATCTCTGGCAAAAC
CTCAGAAAAAGATACGCTCTTGTCTCATCAGGCAGAGCGCAGTGAAAACGCTCTCCGGGTGGAA
GTGACTCCAGCCGTGGGGCAGCCTTGTGGACTTTGCTTCTCTGAAGGAGTATGACCCAGTTAGG
AAAGAAGGAAGAGCCACACGTCAAATACAGTCACCGGTGAAACCAGAGAGGGGCTCCTGCGGGA
TCCAGGGAAGCAGCTGGACTCCGGCTTCTCCGCAGGACAGTGGATCTCTGTCGTGCGTGCGGAG
AGGAAATGGCCCACGAAGTGGACCTGGAGTCCTTCAAGGAGTTGGAACGGGACATCATTCTCCG
GGTCCTATATCGAGATCAAACTGTTCAAAGCATCGAGGAGGAGAGGGTCCGGAACCTGAAAACA
CACCTGCAGCATCTTCGGTGGAAAGGGGCAAAGAGCTCCAGCCAGGAATACAAGGAAAAGTGTT
GTGCACGTTGCCAGCAGACTCTGGGCCTTCTGCTAAACCGTGGGGCTGTGTGTCAGGGCTGCAG
CCACCGTGTGTGCTCCGAATGCCGTGTATTCCTACGGAAGACTCATGCATGGAAGTGCACAGTG
TGCTTTGAGGACAGAAACGTGAAAATCAAAACCGGAGAGTGGTTCTTTGAAGAACGAGCCAGGA
AATTTCCAACTGCAGGCAGACGCGAGACCGCTGGGGCGAGGCTCCTACAATCTTATCAGAGGCA
GAGCAGCAAAATCTCTGTGGTCCCTCCGACGCCACCACCTCTCAGTGAGAGCCAGTGCGGCGGC
AGCCCCAACAGGTTACAGGAACTTGGCCACTTCAGAGGGTTTAATAAGTCCGTGGAAAACTTGT
TTCTGTCTGTCACCACGCAGATGAGAAAGCTCTCCAAGTCCCAGAATGACATGACCTCTGAGAA
GCATCTTCTGGCCATGGACCCCAGGCAGTGTATGGGCCACACGGAGAGGCGGAGCCAGTCAGAC
ACTGCTGTCAACGTCACGTCCAGGAAGACCAGCACACCCGATATTCTGAAAGCATTCCATCAAG
AAGATCCCAGACACCCTCCCAGCCCTGTTTTGAAGCAAGACACTCCTCCATCCAGTCCAACACA
CAGCACTGTCTTCTCTGGAGGCTTGAGACATGGAAGCTTAATTAGCGTTAACAGTACCTGCACG
GAGATGGGTAATTTTGACAACGCTAATGTCACTGGAGAAATAGAATTTGCCATTCATTACTGCG
TTAACAGCCATTCCTTAGAGATCTGCATCAAGACCTGTAAGAACCTCGCCTACGGAGAAGACAA
GAGAAGGAAGTGCAATCCGTATGTCAAGACCTACCTGCTGCCAGACAGGTCCTCCCAGGGAAAA
CGCAAGACACGAGTTCAAAAGAACACTCTGGACCCGACTTTCGAAGAAACCTTGAAGTATCAAG
TGGACCCTGCGCAGCTGGCGACCCGGAGGCTGCAGGTCTCTGTGTGGCACCTAGGTACCCTAGC
CCGGAGGGTGTTCCTCGGAGAAGTGATCCTTCCTCTGGCCACATGGGACTTTGAGGGCAGTGCG
GCACAGAATGCCAGATGGTACCCTCTTCGGGCCAAGGCTGAGAAATATGAAGAAAATATTCCTC
AGACTAATGGAGAACTTGCTGTTCGGGCCAAACTGGTCCTTCCTGTGGGACCGAGAATGCTCCA
GGAGGCCCAAGAAGATCAGCTAGCACTTAATGGTCAACTGTGTTTGGTTGTGTTGGGAGCCAAG
AATTTACCGGTGAGGTCAGATGGCACCTTAAACTCGTTTGTTAAGGGCTGTCTCACTCTGCCAG
ACCAACAAAAGCTGCGTGTGAAGTCCCCAGTACTGAAGAAGCAGGCTTGTCCCCAGTGGAAACA
CTCCTTCGTGTTCAATGGTGTGAGCAGCTCTCAGCTGAGACAGTCCACCTTGGAGCTGACTGTC
TGGGACCAGGCCATGTTTGGTATGAATGATCGTCTGCTGGGGGAAGCCAAGCTTGGTTCAAAGG
GAGGTGCCCCGGGCTGTACCGACTCATGCTCCCAGTCCAAGCTTCAGTGGCAGAAAGTCCTGTC
CAGCCCCAACTTATGGACGGACATGACACTCATCCTGCACTGAGGTGAAGCCCAAGGCGACTGC
AGACCCACAAAGGTCAACAGGAAGTGAGATCATGGCAGAATCAGAACCACCTGATCACCAACAA
CCGACTACAGTTATGTGTGTGGTTAGGAAACAGAAAGATTACTGTCGGGGAGCCTACTGCCGAC
AGATGTGGAAATGTTCTGATTTCAATAAATGTTCAACAGCA

hide sequence

RefSeq Acc Id:

XM_039086845 ⟹ XP_038942773

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	46,903,412 - 46,967,461 (+)	NCBI

RefSeq Acc Id:

XM_039086856 ⟹ XP_038942784

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	46,903,417 - 46,967,461 (+)	NCBI

RefSeq Acc Id:

XM_039086866 ⟹ XP_038942794

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	46,903,412 - 46,967,461 (+)	NCBI

RefSeq Acc Id:

XM_039086870 ⟹ XP_038942798

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	46,903,412 - 46,964,005 (+)	NCBI

RefSeq Acc Id:

XR_005489947

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	46,903,412 - 46,967,461 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001121032	(Get FASTA)	NCBI Sequence Viewer
	XP_006227950	(Get FASTA)	NCBI Sequence Viewer
	XP_017445038	(Get FASTA)	NCBI Sequence Viewer
	XP_038942773	(Get FASTA)	NCBI Sequence Viewer
	XP_038942784	(Get FASTA)	NCBI Sequence Viewer
	XP_038942794	(Get FASTA)	NCBI Sequence Viewer
	XP_038942798	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI66706	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001121032 ⟸ NM_001127560

- UniProtKB:

B2RYA4 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAHEVDLESFKELERDIILRVLYRDQTVQSIEEERVRNLKTHLQHLRWKGAKSSSQEYKEKCCA
RCQRTLGLLLNRGAVCQGCSHRVCSECRVFLRKTHAWKCTVCFEDRNVKIKTGEWFFEERARKF
PTAGRRETAGARLLQSYQRQSKISVVPPTPPPLSESQCGGSPSRLQELGHFRGFNKSVENLFLS
VTTQMRKLSKSQNDMTSEKHLLAMDPRQCMGHTERRSQSDTAVNVTSRKTSTPDILKAFHQEDP
RHPPSPVLKQDTPPSSPTHSTVFSGGLRHGSLISVNSTCTEMGNFDNANVTGEIEFAIHYCVNS
HSLEICIKTCKNLAYGEDKRRKCNPYVKTYLLPDRSSQGKRKTRVQKNTLDPTFEETLKYQVDP
AQLATRRLQVSVWHLGTLARRVFLGEVILPLATWDFEGSAAQNARWYPLRAKAEKYEENIPQTN
GELAVRAKLVLPVGPRMLQEAQEDQLALNGQLCLVVLGAKNLPVRSDGTLNSFVKGCLTLPDQQ
KLRVKSPVLKKQACPQWKHSFVFNGVSSSQLRQSTLELTVWDQAMFGMNDRLLGEAKLGSKGGA
PGCTDSCSQSKLQWQKVLSSPNLWTDMTLILH

hide sequence

RefSeq Acc Id:

XP_006227950 ⟸ XM_006227888

- Peptide Label:

isoform X1

- Sequence:

show sequence

MAHEVDLESFKELERDIILRVLYRDQTVQSIEEERVRNLKTHLQHLRWKGAKSSSQEYKEKCCA
RCQQTLGLLLNRGAVCQGCSHRVCSECRVFLRKTHAWKCTVCFEDRNVKIKTGEWFFEERARKF
PTAGRRETAGARLLQSYQRQSSKISVVPPTPPPLSESQCGGSPNRLQELGHFRGFNKSVENLFL
SVTTQMRKLSKSQNDMTSEKHLLAMDPRQCMGHTERRSQSDTAVNVTSRKTSTPDILKAFHQED
PRHPPSPVLKQDTPPSSPTHSTVFSGGLRHGSLISVNSTCTEMGNFDNANVTGEIEFAIHYCVN
SHSLEICIKTCKNLAYGEDKRRKCNPYVKTYLLPDRSSQGKRKTRVQKNTLDPTFEETLKYQVD
PAQLATRRLQVSVWHLGTLARRVFLGEVILPLATWDFEGSAAQNARWYPLRAKAEKYEENIPQT
NGELAVRAKLVLPVGPRMLQEAQEDQLALNGQLCLVVLGAKNLPVRSDGTLNSFVKGCLTLPDQ
QKLRVKSPVLKKQACPQWKHSFVFNGVSSSQLRQSTLELTVWDQAMFGMNDRLLGEAKLGSKGG
APGCTDSCSQSKLQWQKVLSSPNLWTDMTLILH

hide sequence

RefSeq Acc Id:

XP_006227953 ⟸ XM_006227891

- Peptide Label:

isoform X2

- Sequence:

show sequence

MAHEVDLESFKELERDIILRVLYRDQTVQSIEEERVRNLKTHLQHLRWKGAKSSSQEYKEKCCA
RCQQTLGLLLNRGAVCQGCSHRVCSECRVFLRKTHAWKCTVCFEDRNVKIKTGEWFFEERARKF
PTAGRRETAGARLLQSYQRQSKISVVPPTPPPLSESQCGGSPNRLQELGHFRGFNKSVENLFLS
VTTQMRKLSKSQNDMTSEKHLLAMDPRQCMGHTERRSQSDTAVNVTSRKTSTPDILKAFHQEDP
RHPPSPVLKQDTPPSSPTHSTVFSGGLRHGSLISVNSTCTEMGNFDNANVTGEIEFAIHYCVNS
HSLEICIKTCKNLAYGEDKRRKCNPYVKTYLLPDRSSQGKRKTRVQKNTLDPTFEETLKYQVDP
AQLATRRLQVSVWHLGTLARRVFLGEVILPLATWDFEGSAAQNARWYPLRAKAEKYEENIPQTN
GELAVRAKLVLPVGPRMLQEAQEDQLALNGQLCLVVLGAKNLPVRSDGTLNSFVKGCLTLPDQQ
KLRVKSPVLKKQACPQWKHSFVFNGVSSSQLRQSTLELTVWDQAMFGMNDRLLGEAKLGSKGGA
PGCTDSCSQSKLQWQKVLSSPNLWTDMTLILH

hide sequence

RefSeq Acc Id:

XP_017445038 ⟸ XM_017589549

- Peptide Label:

isoform X1

- Sequence:

show sequence

MAHEVDLESFKELERDIILRVLYRDQTVQSIEEERVRNLKTHLQHLRWKGAKSSSQEYKEKCCA
RCQQTLGLLLNRGAVCQGCSHRVCSECRVFLRKTHAWKCTVCFEDRNVKIKTGEWFFEERARKF
PTAGRRETAGARLLQSYQRQSSKISVVPPTPPPLSESQCGGSPNRLQELGHFRGFNKSVENLFL
SVTTQMRKLSKSQNDMTSEKHLLAMDPRQCMGHTERRSQSDTAVNVTSRKTSTPDILKAFHQED
PRHPPSPVLKQDTPPSSPTHSTVFSGGLRHGSLISVNSTCTEMGNFDNANVTGEIEFAIHYCVN
SHSLEICIKTCKNLAYGEDKRRKCNPYVKTYLLPDRSSQGKRKTRVQKNTLDPTFEETLKYQVD
PAQLATRRLQVSVWHLGTLARRVFLGEVILPLATWDFEGSAAQNARWYPLRAKAEKYEENIPQT
NGELAVRAKLVLPVGPRMLQEAQEDQLALNGQLCLVVLGAKNLPVRSDGTLNSFVKGCLTLPDQ
QKLRVKSPVLKKQACPQWKHSFVFNGVSSSQLRQSTLELTVWDQAMFGMNDRLLGEAKLGSKGG
APGCTDSCSQSKLQWQKVLSSPNLWTDMTLILH

hide sequence

RefSeq Acc Id:

ENSRNOP00000024967 ⟸ ENSRNOT00000024967

RefSeq Acc Id:	XP_038942773 ⟸ XM_039086845
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038942794 ⟸ XM_039086866
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038942798 ⟸ XM_039086870
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038942784 ⟸ XM_039086856
- Peptide Label:	isoform X1

Protein Domains

C2 RabBD

Transcriptome

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

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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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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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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1561992	AgrOrtholog
Ensembl Genes	ENSRNOG00000018321	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000024967	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000024967	ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH	2.60.40.150	UniProtKB/TrEMBL
	3.30.40.10	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:5599231	IMAGE-MGC_LOAD
InterPro	C2_Ca-dep	UniProtKB/TrEMBL
	C2_domain_sf	UniProtKB/TrEMBL
	FYVE_2	UniProtKB/TrEMBL
	Rab-bd_domain	UniProtKB/TrEMBL
	SYTL1-5_C2B	UniProtKB/TrEMBL
	SYTL3	UniProtKB/TrEMBL
	Znf_FYVE_PHD	UniProtKB/TrEMBL
	Znf_RING/FYVE/PHD	UniProtKB/TrEMBL
KEGG Report	rno:499017	UniProtKB/TrEMBL
MGC_CLONE	MGC:188395	IMAGE-MGC_LOAD
NCBI Gene	499017	ENTREZGENE
PANTHER	PTHR45716:SF1	UniProtKB/TrEMBL
Pfam	FYVE_2	UniProtKB/TrEMBL
	PF00168	UniProtKB/TrEMBL
PhenoGen	Sytl3	PhenoGen
PROSITE	PS50004	UniProtKB/TrEMBL
	RABBD	UniProtKB/TrEMBL
SMART	SM00239	UniProtKB/TrEMBL
Superfamily-SCOP	FYVE_PHD_ZnF	UniProtKB/TrEMBL
UniProt	B2RYA4	ENTREZGENE, UniProtKB/TrEMBL
	E9PU77_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-02-29	Sytl3	synaptotagmin-like 3	RGD1561992_predicted	similar to synaptotagmin-like protein 3-a (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-07	RGD1561992_predicted	similar to synaptotagmin-like protein 3-a (predicted)	LOC499017	similar to synaptotagmin-like protein 3-a	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	LOC499017	similar to synaptotagmin-like protein 3-a			Symbol and Name status set to provisional	70820	PROVISIONAL

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

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

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

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