Browse Element(s) Details


OsAffx.10458.1.S1_at

Description gb:NM_184815.1
DB_XREF= gi:34896719
GEN=OSJNBa0087M10.28
TID=OsAffx.10458.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative reverse transcriptase (OSJNBa0087M10.28), mRNA.
PROD=putative reverse transcriptase
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g3990011/11retrotransposon protein, putative, unclassified
LOC_Os04g013407/11retrotransposon protein, putative, LINE subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g39840Os.41695.4.S1_x_at11/113+22108226..22114252transposon protein, putative, Mutator sub-class
LOC_Os03g39840Os.41695.15.S1_s_at2/113+22108226..22114252transposon protein, putative, Mutator sub-class
LOC_Os03g39850OsAffx.13256.1.S1_at11/113+22114876..22116121Glutathione S-transferase, N-terminal domain containing protein, expressed
LOC_Os03g39860Os.37594.2.S1_at11/113+22119282..22124546expressed protein
LOC_Os03g39860Os.37594.2.S1_x_at11/113+22119282..22124546expressed protein
LOC_Os03g39860Os.37594.1.S1_at11/113+22119282..22124546expressed protein
LOC_Os03g39870NANA3+22126936..22127262hypothetical protein
LOC_Os03g39880Os.56311.1.S1_at11/113+22127740..22129574Zinc knuckle family protein, expressed
LOC_Os03g39890NANA3+22129958..22131740retrotransposon, putative, centromere-specific
LOC_Os03g39900OsAffx.10458.1.S1_at11/113+22133882..22138659retrotransposon protein, putative, unclassified
LOC_Os03g39900Os.45088.1.A1_at8/113+22133882..22138659retrotransposon protein, putative, unclassified
LOC_Os03g39910Os.47130.1.S1_at11/113+22138826..22142570XH domain containing protein, expressed
LOC_Os03g39910Os.47130.4.A1_x_at5/113+22138826..22142570XH domain containing protein, expressed
LOC_Os03g39920NANA3+22141835..22147797retrotransposon protein, putative, unclassified
LOC_Os03g39930Os.28943.1.S1_x_at11/113+22148304..22150264retrotransposon protein, putative, unclassified, expressed
LOC_Os03g39930Os.28943.1.S1_at9/113+22148304..22150264retrotransposon protein, putative, unclassified, expressed
LOC_Os03g39940Os.47130.4.A1_at9/113+22152522..22154748retrotransposon protein, putative, unclassified
LOC_Os03g39940Os.47130.4.A1_x_at9/113+22152522..22154748retrotransposon protein, putative, unclassified
LOC_Os03g39950OsAffx.22690.1.S1_at10/113+22158332..22158834hypothetical protein
LOC_Os03g39960Os.32194.2.S1_x_at11/113+22158657..22161827expressed protein
LOC_Os03g39960Os.32194.1.S1_at11/113+22158657..22161827expressed protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.10458.1.S1_at--455--5213Chr08:24339422..24339445 (24 bp)
GAATTTACACCTTTGTGGAGCGCGT
NONE
OsAffx.10458.1.S1_at--913--8533Chr08:24339436..24339460 (25 bp)
TGGAGCGCGTTTGCGGAACCAAAAC
NONE
OsAffx.10458.1.S1_at--146--8013Chr08:24339472..24339496 (25 bp)
GGATGGCTTATCCTTCATCAACGAA
NONE
OsAffx.10458.1.S1_at--667--9591Chr03:22138266..22138290 (25 bp)
TCATCAACGAACTCTCACTGCTGAA
LOC_Os03g39900
OsAffx.10458.1.S1_at--760--5513Chr08:24339508..24339532 (25 bp)
GAAAATTTGCTTCGACGTCACTGGC
NONE
OsAffx.10458.1.S1_at--976--1133Chr08:24339562..24339586 (25 bp)
AGTGCCTTTGAAGATGCAGCCCACC
NONE
OsAffx.10458.1.S1_at--12--2132Chr03:22138387..22138411 (25 bp)
ACAGTGACCGTGTGGACGCAGATTT
LOC_Os03g39900
OsAffx.10458.1.S1_at--1133--6311Chr03:22138419..22138443 (25 bp)
GATGAATTTTCAGCTTCCTCAACAT
LOC_Os03g39900
OsAffx.10458.1.S1_at--347--1213Chr08:24339697..24339721 (25 bp)
AGTTTCTGCACTATTTCGCCAAGAC
NONE
OsAffx.10458.1.S1_at--71--8651Chr03:22138520..22138544 (25 bp)
TGGGAGCTCTCATCACAACATGGTG
LOC_Os03g39900
OsAffx.10458.1.S1_at--408--3011Chr03:22138594..22138618 (25 bp)
AATGAACTCCAAGTCGCCATTCTGG
LOC_Os03g39900
Target Sequence 
GAATTTACACCTTTGTGGAGCGCGTTTGCGGAACCAAAACATCATTTCTTTGGATGGCTTATCCTTCATCAACGAACTCT
CACTGCTGAAAATTTGCTTCGACGTCACTGGCCATGTGATTGGATATGTAGTTTGTGCAATAGTGCCTTTGAAGATGCAG
CCCACCTTGCAAAAGAATGCCCTTTCACAGTGACCGTGTGGACGCAGATTTGTATTTGGATGAATTTTCAGCTTCCTCAA
CATCATTTGCAAGGAAATCTATCAGACTGGTGGAGCAGTTTCTGCACTATTTCGCCAAGACAAAACAGGAACAAGGTTCT
GGGAGCTCTCATCACAACATGGTGGAACGTTTGGCTAGAGCGAAACAGAAGAATTTTTCAACAGATTTCAAAGAATGAAC
TCCAAGTCGCCATTCTGG

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 OsAffx.10458.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis