Browse Element(s) Details


Os.56554.1.S1_at

Description gb:AK110145.1
DB_XREF= gi:32995354
TID=Os.56554.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.56554 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-161-D11, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-161-D11, full insert sequence.
FL= gb:AK110145.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g3647011/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g36430OsAffx.30151.1.S1_at10/119+21025775..21026385hypothetical protein
LOC_Os09g36440Os.10851.1.S1_at11/119+21028491..21031530Transcription initiation factor IIB, putative, expressed
LOC_Os09g36450Os.9513.1.S1_at11/119+21032598..21036014Triosephosphate isomerase, chloroplast precursor, putative, expressed
LOC_Os09g36450Os.9513.1.S2_a_at10/119+21032598..21036014Triosephosphate isomerase, chloroplast precursor, putative, expressed
LOC_Os09g36460Os.37915.1.S1_at10/119+21037643..21041112Zinc finger, C3HC4 type family protein, expressed
LOC_Os09g36470Os.56554.1.S1_at11/119+21045812..21049546retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os09g36480Os.11434.1.S1_at11/119+21050153..21053503XAP5 protein, expressed
LOC_Os09g36490OsAffx.30152.1.S1_s_at11/119+21054103..21055610expressed protein
LOC_Os09g36500Os.9138.1.S1_at11/119+21056064..21056955Zinc finger, C3HC4 type family protein, expressed
LOC_Os09g36510OsAffx.30153.2.S1_x_at11/119+21059113..21059642hypothetical protein
LOC_Os09g36520Os.5337.1.S1_at7/119+21060635..21062217Ki1 protein, putative, expressed
LOC_Os09g36530Os.54288.1.S1_at11/119+21063533..21068244exodeoxyribonuclease III family protein, expressed
LOC_Os09g36530OsAffx.13934.1.S1_at1/119+21063533..21068244exodeoxyribonuclease III family protein, expressed
LOC_Os09g36540OsAffx.5106.1.S1_at2/119+21069425..21077599retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.56554.1.S1_at--733--9931Chr09:21048872..21048896 (25 bp)
TACGGTCGACGATATGCCATGGGAG
LOC_Os09g36470
Os.56554.1.S1_at--265--5971Chr09:21048914..21048938 (25 bp)
GAGAACTGGTGGACCCATGTTTGCG
LOC_Os09g36470
Os.56554.1.S1_at--336--8531Chr09:21049000..21049024 (25 bp)
TGGACAAGAGTAAGACCGCCGCCGC
LOC_Os09g36470
Os.56554.1.S1_at--644--4011Chr09:21049242..21049266 (25 bp)
CGTCGTCAATCCATTTGGTGCCGAA
LOC_Os09g36470
Os.56554.1.S1_at--299--7791Chr09:21049258..21049282 (25 bp)
GGTGCCGAAGATTTCGTCTGCATCA
LOC_Os09g36470
Os.56554.1.S1_at--705--7171Chr09:21049273..21049297 (25 bp)
GTCTGCATCATTTCCGTTTCAACGA
LOC_Os09g36470
Os.56554.1.S1_at--151--3132Chr09:21049300..21049324 (25 bp)
AATTTAGCCATGTCGTTTCCTGACT
LOC_Os09g36470
Os.56554.1.S1_at--955--5193Chr09:21049381..21049405 (25 bp)
GCAATTCTTGCATGGGTCGTCGAAC
LOC_Os09g36470
Os.56554.1.S1_at--331--7772Chr09:21049395..21049419 (25 bp)
GGTCGTCGAACTATGTTTCTGGAGT
LOC_Os09g36470
Os.56554.1.S1_at--1157--6611Chr09:21049446..21049470 (25 bp)
GTTGGGTTTCATTTATTCTCGGTCG
LOC_Os09g36470
Os.56554.1.S1_at--525--10591Chr09:21049461..21049485 (25 bp)
TTCTCGGTCGAATCATGCTTGTGTA
LOC_Os09g36470
Target Sequence 
TACGGTCGACGATATGCCATGGGAGATGATCGGCAGCAGCAGGAGAACTGGTGGACCCATGTTTGCGGTGGCAGGTGGTG
GCCGCGACAGGGTGGAGCTGGAGGCCAGGGAGCGTCGCAAGAACAGGATGGACAAGAGTAAGACCGCCGCCGCCTCTCGC
GCCCAGCAGCCACCGCCGCCGGCAGATGCTCCGGGGAGCTCAGGTGGCGGTAGCAAGAAGCGTGGAGGTGGGATGAAGAA
GAAGCAAGCTTAATCATCAAGAAGCTGGATTGTTCGTCGTCAATCCATTTGGTGCCGAAGATTTCGTCTGCATCATTTCC
GTTTCAACGAATAATTTAGCCATGTCGTTTCCTGACTCGGCGTGTGGCTCTGTGAGCCTTAGGGAGCTTTGCTCCATTGA
TGTTGTTGTGCATGCAATTCTTGCATGGGTCGTCGAACTATGTTTCTGGAGTTGTTTGTGTTAAAGTCCCAAACTTATGT
TGGGTTTCATTTATTCTCGGTCGAATCATGCTTGTGTA

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.56554.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis