D8Rat71 Marker Search Result - Rat Genome Database

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General

Marker: D8Rat71

Symbol:

D8Rat71

Previously known as:

oxsts7471; R0080-C09;

RGD ID:

38898

Expected Size:

234 (bp)

Position

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	122,812,566 - 122,812,818 (+)	MAPPER	mRatBN7.2
Rnor_6.0	8	132,243,591 - 132,243,842	NCBI	Rnor6.0
Rnor_5.0	8	131,397,184 - 131,397,435	UniSTS	Rnor5.0
RGSC_v3.4	8	127,906,996 - 127,907,359	RGD	RGSC3.4
RGSC_v3.4	8	127,907,014 - 127,907,265	UniSTS	RGSC3.4
RGSC_v3.1	8	127,926,751 - 127,927,002	RGD
Celera	8	121,925,567 - 121,925,818	UniSTS
RH 3.4 Map	8	1259.4	UniSTS
RH 3.4 Map	8	1259.4	RGD
SHRSP x BN Map	8	85.2699	UniSTS
SHRSP x BN Map	8	85.2699	RGD
Cytogenetic Map	8	q32	UniSTS

Is Marker For:

Strains: AVN/Orl BBDP/Rhw BBDR/Rhw BC/CpbU BN/SsNHsd BUF/Pit DA/PitN DON/Melb F344/Pit IS/Kyo LEW/Pit LH/Mav MHS/Gib MNRA/N WN/N LOU/CHan MNR/N MR/Pit ODU/N WIST/Nhg NP9 OKA/Wsl P5C PVG/Pit SD/Rij SHR/OlaHsd SHRSP/Riv WAG/RijKyo GK/KyoSwe ACI/N GH/Omr COP/OlaHsd SS/Jr WKY/OlaHsd WF/Pit MNS/Gib M520/N BN-Lx/Cub LN/Mav NEDH/K
QTLs: Cia6
Genes: Exosc7 Clec3b

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.	Genetic dissection of a rat model for rheumatoid arthritis: significant gender influences on autosomal modifier loci	Furuya T, etal., Hum Mol Genet 2000 Sep 22;9(15):2241-50
3.	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
4.	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/
5.	Electronic Transfer of SSLP Data	Rat Genetic Mapping Project, Whitehead Institute for Biomedical Research. APR. 2001.
6.	UniSTS Pipeline	RGD automated pipelines
7.	Electronic Submission of SSLP Data Sets	Wilder R. Oct.2000. National Institute of Arthritis and Musculoskeletal and Skin Diseases, ARB Rat Genetic Database

Strains and Sequence

Sequence


Forward Primer	TAGGGACTGCCTGTGTAGGG
Reverse Primer	GGCTTTAGTGGGTGGACAAA

Template	CCAAGCTTGCATGCCTGCAGGTCGACTCTAGAGGATCCCCCCACAATTCCTTGGCAAGGCTTTA GTGGGTGGACAAAGACTCTGACCTCATCAATGTGGACTTCACATGAAGTGTCCTTGGAGGTCCC TACCCTTTGCCTCAAGCCAAACAGATCTTTTCTGGGAACCCCTGGGACTTCAGAAAGACAGGGG TTCACCCAGCTTTCAGCGCGCGCGNTGCGCGCACATCACACACACACACACACACACTCACACA CACTCATAGTCCCTTCCCTACACAGGCAGTCCCTATTAGAGATGCCATGTATCATGAAACAGAT GGGAAAAGTGTGGTTCTGTGGCTACTTGGATCAGAGCTTTGGGCAAGCTGCTCTACCATCCTGG GGGTACCGAGCTCGAATTCGTAATCATGGTCATAGCTGTTTCCTGTGTGAAATTNTTATCCGCT CACAATNCCACACAACATACGAGCCGGAAGCATAAAGTGTAAANCTGGGGTNCTAATGAGTGGC TACTCACATTAATTGCGTGCGTCCTC

Strain Variation

Strain, Expected Size(s)

ACI/N	254
AVN/Orl	254
BBDP/Rhw	242
BBDR/Rhw	242
BC/CpbU	248
BN-Lx/Cub	250
BN/SsNHsd	250
BUF/Pit	242
COP/OlaHsd	242
DA/PitN	254
DON/Melb	254

F344/Pit	254
GH/Omr	242
GK/KyoSwe	242
IS/Kyo	242
LEW/Pit	254
LH/Mav	242
LN/Mav	242
LOU/CHan	254
M520/N	242
MHS/Gib	254
MNR/N	254

MNRA/N	254
MNS/Gib	254
MR/Pit	254
NEDH/K	254
NP9	242
ODU/N	244
OKA/Wsl	244
P5C	242
PVG/Pit	242
SD/Rij	254
SHR/OlaHsd	244

SHRSP/Riv	244
SS/Jr	242
WAG/RijKyo	242
WF/Pit	254
WIST/Nhg	254
WKY/OlaHsd	242
WN/N	254

Region

Genes in Region

The following Genes overlap with this region.

RGD ID	Symbol	Name	Chr	Start	Stop	Species
1311031	Clec3b	C-type lectin domain family 3, member B	8	122810091	122817039	Rat

Nucleotide Sequences


GenBank Nucleotide	CH473954	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CM000238	(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
1554321	Bmd3	Bone mineral density QTL 3	7.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	40952565	123900184	Rat
61437	Cia6	Collagen induced arthritis QTL 6			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	8	82460758	122812818	Rat
738011	Anxrr9	Anxiety related response QTL 9	6.1		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	8	93535351	123900184	Rat
1358893	Bp263	Blood pressure QTL 263	5.01		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	93965141	123900184	Rat
1358903	Bp252	Blood pressure QTL 252	7	0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	93965141	123900184	Rat
738014	Anxrr15	Anxiety related response QTL 15	3.6	0.005	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	8	95718998	123900184	Rat
2300182	Bmd56	Bone mineral density QTL 56	5.4		femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	95718998	123900184	Rat

Additional Information

RGD Curation Notes

Note Type	Note	Reference

External Database Links

Database	Acc Id	Source(s)
NCBI Gene	100912012	UniSTS
	316098	UniSTS
	326442	UniSTS
UniSTS	119130	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: D8Rat71