Browse Element(s) Details


Os.27345.1.S1_at

Description gb:AK070633.1
DB_XREF= gi:32980657
TID=Os.27345.1
CNT=7
FEA=FLmRNA
TIER=FL
STK=4
UG=Os.27345 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-115-C10, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023058B16, full insert sequence.
FL= gb:AK104960.1 gb:AK070633.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g1694011/11transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os08g448901/11retrotransposon protein, putative, unclassified
LOC_Os02g530201/11transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os08g022401/11retrotransposon protein, putative, unclassified
LOC_Os06g028801/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g16880NANA4+9216982..9217885retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g16890OsAffx.15648.1.S1_at1/114+9220091..9221476Zinc knuckle family protein
LOC_Os04g16900NANA4+9224325..9224579transposon protein, putative, unclassified
LOC_Os04g16910Os.45173.1.S1_x_at1/114+9226996..9233789retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g16910OsAffx.31869.5.S1_x_at1/114+9226996..9233789retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g16924OsAffx.30405.1.S1_x_at1/114+9235663..9238922hypothetical protein
LOC_Os04g16940Os.27345.1.S1_at11/114+9242538..9245211transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os04g16950NANA4+9255317..9264974retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.27345.1.S1_at--1076--10592Chr02:32443461..32443481 (21 bp)
TTCTGCTTGTGCACCTGGAGAGGAT
LOC_Os02g53020
Os.27345.1.S1_at--999--9851Chr04:9243068..9243092 (25 bp)
TACAAAGCCTTGATGACACACCAGT
LOC_Os04g16940
Os.27345.1.S1_at--1161--2151Chr04:9243051..9243075 (25 bp)
ACACCAGTGGACATCTCATTGCATA
LOC_Os04g16940
Os.27345.1.S1_at--127--5551Chr04:9243001..9243025 (25 bp)
GAAACGAGGGTGTATTACCACTGAA
LOC_Os04g16940
Os.27345.1.S1_at--684--5431Chr04:9242953..9242977 (25 bp)
GAACCCCATGGTTAAGGTGATGAAG
LOC_Os04g16940
Os.27345.1.S1_at--1119--5375Chr06:1056620..1056639 (20 bp)
GAAGAATATTCAGTCCACTTTGGAC
LOC_Os06g02880
Os.27345.1.S1_at--577--8131Chr04:9242911..9242935 (25 bp)
GGACACCAATTGTAGTATTGCCAAC
LOC_Os04g16940
Os.27345.1.S1_at--601--4951Chr04:9242797..9242821 (25 bp)
GCATTTCATGGCTACGCAATTATTT
LOC_Os04g16940
Os.27345.1.S1_at--1018--5571Chr04:9242770..9242794 (25 bp)
GAAATCTTTTCACATCGTGACGTGT
LOC_Os04g16940
Os.27345.1.S1_at--406--5751Chr04:9242752..9242776 (25 bp)
GACGTGTTCAAGACTTTTACCACCA
LOC_Os04g16940
Os.27345.1.S1_at--220--5211Chr04:9242568..9242592 (25 bp)
GAATTGCCCATGTAATATGACGCTT
LOC_Os04g16940
Target Sequence 
TTCTGCTTGTGCACCTGGAGAGGATGTTGGAGGGGCTGGTGTACAAAGCCTTGATGACACACCAGTGGACATCTCATTGC
ATAGATACACAACGAATAACAAATCAGTGAAACGAGGGTGTATTACCACTGAAAATAGTCCACTGAAGAAGGTTAAGAAC
CCCATGGTTAAGGTGATGAAGAATATTCAGTCCACTTTGGACACCAATTGTAGTATTGCCAACAAGGTGATGCAAGGTGA
ATTTAGGTACAACTCTATTAAGGAAGTGATGGACTTGGTAGTGGAGTGTGGGGCAGCAGAAGGAAGTGCCGAGCATTTCA
TGGCTACGCAATTATTTGTGAAATCTTTTCACATCGTGACGTGTTCAAGACTTTTACCACCAAGGAGGGAAGGCTCAGTT
GGTTGAAGAGGTGGTGCATGAAGGAAGGCTTGGAGTAGGATAGTGCTAATTATTTATATGCATGAACTTATCATCTTTGT
TTAAATTTTGTGAGACAATATGTATTAGCAAGACAACTTCTATTTATATGCATGAACTAATGAATTGCCCATGTAATATG
ACGCTT

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.27345.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis