D16Rat17 Marker Search Result - Rat Genome Database

General

Marker: D16Rat17

Symbol:

D16Rat17

Previously known as:

R0047-D02; oxsts6309; R047-D02;

RGD ID:

37054

Expected Size:

161 (bp)

Position

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	16	50,165,828 - 50,166,018 (+)	MAPPER	mRatBN7.2
Rnor_6.0	16	53,253,168 - 53,253,355	NCBI	Rnor6.0
Rnor_5.0	16	52,968,461 - 52,968,648	UniSTS	Rnor5.0
RGSC_v3.4	16	53,486,003 - 53,486,191	RGD	RGSC3.4
RGSC_v3.4	16	53,486,004 - 53,486,191	UniSTS	RGSC3.4
RGSC_v3.1	16	53,485,861 - 53,486,309	RGD
Celera	16	48,111,731 - 48,111,918	UniSTS
RH 2.0 Map	16	592.6	RGD
FHH x ACI Map	16	25.4898	RGD

Is Marker For:

Strains: BBDP/Rhw BBDR/Rhw BC/CpbU BDIX/Han BDVII/Cub BP/Cub BUF/Pit DA/PitN DON/Melb F344/Pit FHH/Eur LE/Mol LEW/Pit MHS/Gib MNRA/N WN/N WKY/OlaHsd WTC/Kyo LOU/CHan MNR/N MR/Pit WIST/Nhg SR/Jr NP9 OKA/Wsl OM/Ztm P5C PVG/Pit SD/Rij SHR/OlaHsd SHRSP/Riv WAG/RijKyo GK/KyoSwe M520/N ACI/N BN-Lx/Cub LN/Mav GH/Omr NEDH/K SS/Jr COP/OlaHsd MNS/Gib IS/Kyo LH/Mav ODU/N WF/Pit
QTLs: Gcr3 Arunc1 Sach2
Genes: LOC100910932

Annotation

References - curated

#	Reference Title	Reference Citation
1.	Data downloaded from Wellcome Trust, University of Oxford	Data downloaded from Wellcome Trust, University of Oxford
2.	Rat Genetic Map Data	Rat Genetic Map Data, Whitehead Institute for Biomedical Research/MIT Center for Genome Research Website, http://waldo.wi.mit.edu/rat/public/distribution/rat_sslp_releases/jan00/
3.	Electronic Transfer of SSLP Data	Rat Genetic Mapping Project, Whitehead Institute for Biomedical Research. APR. 2001.
4.	UniSTS Pipeline	RGD automated pipelines
5.	RH Map Project	RH Map Project, Laboratory of Genetic Research Website, 1-JUL-99, Laboratory of Genetic Research, Medical College of Wisconsin, http://www.lgr.mcw.edu/LGR/
6.	A high density integrated genetic linkage and radiation hybrid map of the laboratory rat	Steen RG, Kwitek-Black AE, etal., Genome Research, 1999, 6:1-8

Strains and Sequence

Sequence


Forward Primer	TGACCCTTGTTCTCAAATCCA
Reverse Primer	TCTCTTCAGGAGTGTGGGCT

Template	TCAGTGCAAGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCCCTGAAGACACAATGGCTTCC TAATTCTTGCTTTGAGTGATGATTCTCTTCAGGAGTGTGGGCTCAGGAACTTACTCCCAACCCC CCTACACACACACACACACACACACACACACACACACACACACACACACACACACAGATCGATT CCATCTCTGAATATTATCATTATGGTAGTTAAGATTTCAATGTCTGGATTTGAGAACAAGGGTC ATCATTCTTCAGAGTATAGTAGACACCAGTTGCTGTGAAGAACATTACTTTATTGTTAATTTCC TCCCACCTCAGAACATAGGAGGAAACAAGATAAACATTTAAAAAATAAAACAGTAAATCTGCCT CTTATTAAAACAACAGAGAATCACCCAAGCCTTTTATCAATAANAGCACAATACACTGTGACAA TGATAAACAAAATCCTGTTAAAGTACGAGCTCGAATTCGTAATCATGGTCATAGTGTNCCTGGT GAAATGTNTCGNCCAATTCCAACAANATNGAGCGGNGCATAAGTGTAAGCTGGGGCTATGGTGG NNCTCCNTATTGGTTNNC

Strain Variation

Strain, Expected Size(s)

ACI/N	164
BBDP/Rhw	190
BBDR/Rhw	164
BC/CpbU	190
BDIX/Han	172
BDVII/Cub	172
BN-Lx/Cub	190
BP/Cub	164
BUF/Pit	192
COP/OlaHsd	172
DA/PitN	190
DON/Melb	172

F344/Pit	172
FHH/Eur	190
GH/Omr	172
GK/KyoSwe	190
IS/Kyo	172
LE/Mol	190
LEW/Pit	190
LH/Mav	190
LN/Mav	190
LOU/CHan	194
M520/N	190
MHS/Gib	190

MNR/N	172
MNRA/N	172
MNS/Gib	190
MR/Pit	172
NEDH/K	164
NP9	172
ODU/N	172
OKA/Wsl	172
OM/Ztm	166
P5C	190
PVG/Pit	194
SD/Rij	190

SHR/OlaHsd	190
SHRSP/Riv	190
SR/Jr	190
SS/Jr	190
WAG/RijKyo	200
WF/Pit	190
WIST/Nhg	190
WKY/OlaHsd	172
WN/N	190
WTC/Kyo	172

Region

Nucleotide Sequences

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1600378	Arunc4	Aerobic running capacity QTL 4		0.03	exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	16	380245	80345693	Rat
2312660	Bw95	Body weight QTL 95		0.05	inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	16	832236	59492508	Rat
2312663	Slep9	Serum leptin concentration QTL 9		0.001	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	16	832236	59492508	Rat
2312666	Insul16	Insulin level QTL 16		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	16	832236	59492508	Rat
2312669	Stl23	Serum triglyceride level QTL 23		0.01	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	16	832236	59492508	Rat
737826	Alc11	Alcohol consumption QTL 11	3.2		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	16	4227609	60252231	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor depth of invasion (CMO:0001888)	16	17696791	82635055	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor depth of invasion (CMO:0001888)	16	17696791	82635055	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor diameter (CMO:0001889)	16	17696791	82635055	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor diameter (CMO:0001889)	16	17696791	82635055	Rat
70215	Niddm29	Non-insulin dependent diabetes mellitus QTL 29	3.54		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	16	19004435	75226532	Rat
2302057	Pia29	Pristane induced arthritis QTL 29	3.6	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	16	21735975	66735975	Rat
8694453	Bw172	Body weight QTL 172	8.33	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	16	24325513	69325513	Rat
6903294	Stl30	Serum triglyceride level QTL 30	2.6	0.0013	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	16	25152793	70152793	Rat
1298529	Arunc1	Aerobic running capacity QTL 1	4		exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	16	31951520	60148445	Rat
1578768	Stresp22	Stress response QTL 22	2.8		thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	16	35288870	80288870	Rat
2293690	Bss45	Bone structure and strength QTL 45	5.13	0.0001	lumbar vertebra morphology trait (VT:0010494)	lumbar vertebra cortical cross-sectional area (CMO:0001690)	16	37752156	82752156	Rat
2300163	Bmd64	Bone mineral density QTL 64	5.3	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	16	37752156	82752156	Rat
7205510	Activ5	Activity QTL 5	3.78	0.00028	locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	16	42396345	84729064	Rat
631833	Sach2	Saccharin preference QTL 2	4	0.01	consumption behavior trait (VT:0002069)	calculated saccharin drink intake rate (CMO:0001613)	16	43024842	50166018	Rat

Additional Information

External Database Links

Database	Acc Id	Source(s)
NCBI Gene	100910932	UniSTS
	326531	UniSTS
	387372	UniSTS
	444901	UniSTS
UniSTS	119482	UniSTS

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)

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Marker: D16Rat17