Browse Element(s) Details


Os.9549.1.S1_at

Description gb:AK066372.1
DB_XREF= gi:32976390
TID=Os.9549.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.9549 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013064K08, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013064K08, full insert sequence.
FL= gb:AK066372.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g4201011/11DNA-directed polymerase kappa, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g41960Os.45173.1.S1_x_at6/113+23257839..23273135retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g41960OsAffx.8473.1.S1_x_at5/113+23257839..23273135retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g41960OsAffx.10632.1.S1_at1/113+23257839..23273135retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g41970NANA3+23274806..23275786hypothetical protein
LOC_Os03g41980NANA3+23276929..23283089retrotransposon protein, putative, unclassified
LOC_Os03g41990Os.28943.1.S1_x_at1/113+23283475..23286707retrotransposon protein, putative, unclassified
LOC_Os03g42000Os.47130.4.A1_x_at2/113+23287647..23287970retrotransposon protein, putative, unclassified
LOC_Os03g42010Os.9549.1.S1_at11/113+23289271..23295195DNA-directed polymerase kappa, putative, expressed
LOC_Os03g42010Os.54266.1.S1_at10/113+23289271..23295195DNA-directed polymerase kappa, putative, expressed
LOC_Os03g42020Os.24860.1.S1_at11/113+23296127..23301619Calcium-transporting ATPase 2, plasma membrane-type, putative, expressed
LOC_Os03g42030OsAffx.13297.1.S1_at11/113+23305796..23306107hypothetical protein
LOC_Os03g42040OsAffx.13298.1.S1_at11/113+23307741..23314974HEAT repeat family protein

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Gene Ontology Classification
GO idTypeName
GO:0006281biological_processDNA repair
GO:0006974biological_processresponse to DNA damage stimulus
GO:0010224biological_processresponse to UV-B
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.9549.1.S1_at--705--6291Chr03:23294248..23294269 (22 bp)
GATGACTCCTCCAGTTCGAAGGGTA
LOC_Os03g42010
Os.9549.1.S1_at--633--2831Chr03:23294412..23294436 (25 bp)
AAGTTTGATGGCCAGCTCACCAGCT
LOC_Os03g42010
Os.9549.1.S1_at--42--1591Chr03:23294433..23294457 (25 bp)
AGCTCTAACGCAACTACTTCATCGA
LOC_Os03g42010
Os.9549.1.S1_at--301--7051Chr03:23294458..23294482 (25 bp)
GTAAACCTGATCAGCTTTTCTGGAT
LOC_Os03g42010
Os.9549.1.S1_at--408--8491Chr03:23294486..23294510 (25 bp)
TGGCTACATTTGTTCCATTTGTGGA
LOC_Os03g42010
Os.9549.1.S1_at--375--7511Chr03:23294506..23294530 (25 bp)
GTGGATTTGAACTACCTCCAGGTTT
LOC_Os03g42010
Os.9549.1.S1_at--403--1611Chr03:23294909..23294933 (25 bp)
AGCTGAAAGGCCATGCTCTAGCACA
LOC_Os03g42010
Os.9549.1.S1_at--579--311Chr03:23294979..23295003 (25 bp)
ATACCTATTGATGCTTTCTTTCACA
LOC_Os03g42010
Os.9549.1.S1_at--1131--6951Chr03:23295030..23295054 (25 bp)
GTAGCTACCTATTCAGGCACTCTTT
LOC_Os03g42010
Os.9549.1.S1_at--545--9851Chr03:23295062..23295086 (25 bp)
TACAGAGCGATTTGCCCACTTGAAA
LOC_Os03g42010
Os.9549.1.S1_at--972--3651Chr03:23295104..23295128 (25 bp)
CTTCATTCCATGTTCTTTTCAGACT
LOC_Os03g42010
Target Sequence 
GATGACTCCTCCAGTTCGAAGGGTACACATACTGTAAAGTTTGATGGCCAGCTCACCAGCTCTAACGCAACTACTTCATC
GAGTAAACCTGATCAGCTTTTCTGGATAAATGGCTACATTTGTTCCATTTGTGGATTTGAACTACCTCCAGGTTTTGAGG
AGGAGAGACAAGAACATTCAGATTTCCACTTGGCTGAAATGCTTCAGCAGGAAGAGGCAGTGGACAGCACAGGCCCCCTC
TCGAAAGAGAGGTTAGCTGAAAGGCCATGCTCTAGCACACCCACACCAAAGAAGAAGCTCAAGTCTTCAAAAGAAGGAAA
ACACATACCTATTGATGCTTTCTTTCACAAGGTTAACAAGAACTTGTAACATACTGTAGCTACCTATTCAGGCACTCTTT
TTAATCCTACAGAGCGATTTGCCCACTTGAAAAACTGCTGTACATGTAACTTCATTCCATGTTCTTTTCAGACT

BLASTn GenBank NR

Expression Profiles Gene Chronologer
Gene Chronologer (Grouped)
Heterosis View
Gene Correlator (coexpression analysis)
SALK RiceGE
Rice MPSS  MPSS logo
RiceArray Coexpression Database
Miscellaneous SNP data between Minghui 63 and Zhenshan 97 from OryzaSNP project:
extend bp around Os.9549.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis