D5Rat59 Marker Search Result - Rat Genome Database

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General

Marker: D5Rat59

Symbol:

D5Rat59

Previously known as:

R0062-B02; oxsts7223;

RGD ID:

37784

Expected Size:

221 (bp)

Position

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	2,282,226 - 2,282,446 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	1,666,587 - 1,666,805	NCBI	Rnor6.0
Rnor_5.0	5	1,662,934 - 1,663,152	UniSTS	Rnor5.0
RGSC_v3.4	5	1,368,224 - 1,368,442	UniSTS	RGSC3.4
RGSC_v3.4	5	1,368,223 - 1,368,442	RGD	RGSC3.4
RGSC_v3.1	5	1,368,224 - 1,368,442	RGD
Celera	5	1,917,196 - 1,917,414	UniSTS
RH 3.4 Map	5	0.0	RGD
RH 3.4 Map	5	0.0	UniSTS
RH 2.0 Map	5	0.0	RGD
SHRSP x BN Map	5	0.0	RGD

Is Marker For:

Strains: AVN/Orl BBDP/Rhw BBDR/Rhw BC/CpbU BDIX/Han BDVII/Cub BN/SsNHsd BP/Cub BUF/Pit DA/PitN DON/Melb F344/Pit FHH/Eur LE/Mol LEW/Pit LH/Mav MHS/Gib MNRA/N WN/N WKY/OlaHsd WTC/Kyo LOU/CHan MNR/N MR/Pit ODU/N WF/Pit WIST/Nhg SR/Jr MNS/Gib 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 LOU.BN-(D5Rat59-D5Rat125)/Bbb LOU.BN-(D5Rat59-D5Rat133)/Bbb LOU.BN-(D5Rat59-rs13448399)/Bbb LOU.BN-(D5Rat59-rs13448399)/Bbb-/+ LOU.BN-(D5Rat59-D5Rat127)/Bbb
QTLs: Vetf1 Vetf3

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.	High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence.	Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
3.	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/
4.	Electronic Transfer of SSLP Data	Rat Genetic Mapping Project, Whitehead Institute for Biomedical Research. APR. 2001.
5.	UniSTS Pipeline	RGD automated pipelines
6.	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/
7.	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	CTCATAGGGCAGGTAGCCTG
Reverse Primer	GGACGTCAGAGATTCAGAGAGG

Template	GGCCAGTGCCAAGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCCCCTTCCTGTGTGTGTGT GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAAGAGAAAAGAGGACGTCAGAGAT TCAGAGAGGAGGAAGAAAAGAGAGAAGCAGAAGGGAGAGAAAGAGAGAGGAAAGGAATGGAAAG GAGAGGAGGGGAGGGGGGGAGAGGAGGGGAAGGAAGACCAGCCACAGAAGTCTTATGGAGGACG TTAGGTGTCACATTCCACCTTGCTTCTGACAGGCTCTCTCTTACTCACTTCTGAGTACACCAGG CTACCTGCCCTATGAGGGGTACCGAGCTCGAATTCGTAATCATGGTCATAGCTGTTTCCTGTGT GAAATTGTTATCCGCTCACAATTCCACACAACATACGAGCCGGAAGCATAAAGTGTAAAGCCTG GGGTGCCTAATGNGGAANTAACTCAATTAATGCGTTGCGCTCACTGNNCGCNNNCANCGGGANN CTGTCGNGCCAACTGCATTATGAATCGGGCAACGCGNNGNNAGNGNTNNTATTGGCGCAGGTG

Strain Variation

Strain, Expected Size(s)

ACI/N	220
AVN/Orl	220
BBDP/Rhw	220
BBDR/Rhw	220
BC/CpbU	220
BDIX/Han	220
BDVII/Cub	220
BN-Lx/Cub	218
BN/SsNHsd	218
BP/Cub	220
BUF/Pit	220
COP/OlaHsd	220

DA/PitN	220
DON/Melb	220
F344/Pit	220
FHH/Eur	220
GH/Omr	220
GK/KyoSwe	220
LE/Mol	220
LEW/Pit	220
LH/Mav	220
LN/Mav	220
LOU/CHan	220
M520/N	220

MHS/Gib	220
MNR/N	220
MNRA/N	220
MNS/Gib	220
MR/Pit	220
NEDH/K	220
NP9	220
ODU/N	220
OKA/Wsl	220
OM/Ztm	220
P5C	220
PVG/Pit	220

SD/Rij	220
SHR/OlaHsd	220
SHRSP/Riv	220
SR/Jr	220
SS/Jr	220
WAG/RijKyo	220
WF/Pit	220
WIST/Nhg	220
WKY/OlaHsd	220
WN/N	220
WTC/Kyo	220

Region

Nucleotide Sequences


GenBank Nucleotide	JH614900.1	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

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
1331756	Rf34	Renal function QTL 34	4.16275		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	1	90450412	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	1	131345958	Rat
1331771	Rf35	Renal function QTL 35	4.36965		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	729470	86724018	Rat
2312562	Pur18	Proteinuria QTL 18	2.6	0.001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	5	2138965	32656739	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	2138965	166875058	Rat
631551	Vetf1	Vascular elastic tissue fragility QTL 1	5	0.0001	aorta elastic tissue integrity trait (VT:0010556)	artery internal elastic lamina non-tumorous lesion count (CMO:0001913)	5	2282226	5904428	Rat
8662454	Vetf3	Vascular elastic tissue fragility QTL 3	27.4		artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	5	2282226	69540447	Rat

Additional Information

External Database Links

Database	Acc Id	Source(s)
NCBI Gene	369120	UniSTS
UniSTS	118927	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: D5Rat59