Browse Element(s) Details


Os.53954.1.S1_at

Description gb:AK101001.1
DB_XREF= gi:32986210
TID=Os.53954.1
CNT=3
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53954 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-008-F02, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023147E24, full insert sequence.
FL= gb:AK105016.2 gb:AK101001.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g1347011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g13430NANA9+7769806..7772168retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g13440OsAffx.29832.2.S1_s_at11/119+7772027..7776015expressed protein
LOC_Os09g13440OsAffx.29832.2.S1_at11/119+7772027..7776015expressed protein
LOC_Os09g13440Os.6976.2.A1_at11/119+7772027..7776015expressed protein
LOC_Os09g13440Os.6976.1.S1_s_at11/119+7772027..7776015expressed protein
LOC_Os09g13450OsAffx.17685.1.S1_at11/119+7778360..7778914hypothetical protein
LOC_Os09g13460OsAffx.17686.1.S1_at10/119+7780270..7781314hypothetical protein
LOC_Os09g13470Os.53954.1.S1_at11/119+7796868..7799107expressed protein
LOC_Os09g13480Os.14491.2.S1_x_at4/119+7803064..7806239transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g13480Os.47463.1.S1_x_at1/119+7803064..7806239transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g13490NANA9+7807303..7807764transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g13500NANA9+7809086..7812418transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g13510OsAffx.20650.2.S1_at3/119+7818822..7823483retrotransposon protein, putative, unclassified
LOC_Os09g13510OsAffx.20650.1.S1_at3/119+7818822..7823483retrotransposon protein, putative, unclassified
LOC_Os09g13510Os.27088.1.A1_x_at2/119+7818822..7823483retrotransposon protein, putative, unclassified
LOC_Os09g13510OsAffx.30387.1.S1_at1/119+7818822..7823483retrotransposon protein, putative, unclassified
LOC_Os09g13510Os.46012.2.S1_x_at1/119+7818822..7823483retrotransposon protein, putative, unclassified
LOC_Os09g13510Os.46012.3.S1_x_at1/119+7818822..7823483retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53954.1.S1_at--484--4731Chr09:7798680..7798704 (25 bp)
GCTGTGTATGCCGTCAAGAGCTACA
LOC_Os09g13470
Os.53954.1.S1_at--997--10011Chr09:7798709..7798733 (25 bp)
TAGAAGCTAAGCCACTGAGACGTAT
LOC_Os09g13470
Os.53954.1.S1_at--27--531Chr09:7798766..7798790 (25 bp)
ATCGAAGTACCAATCATTCTCCGCT
LOC_Os09g13470
Os.53954.1.S1_at--685--111Chr09:7798781..7798805 (25 bp)
ATTCTCCGCTGCGTTGGATTCTACT
LOC_Os09g13470
Os.53954.1.S1_at--405--6231Chr09:7798818..7798842 (25 bp)
GATGGCCAAAATGAGTCGCCCGACA
LOC_Os09g13470
Os.53954.1.S1_at--974--4791Chr09:7798892..7798916 (25 bp)
GCTCGGCCTGAGATTAACCATGTCG
LOC_Os09g13470
Os.53954.1.S1_at--374--917Chr09:7798957..7798981 (25 bp)
AGGCATGGCCCAATAAGACTCGGAT
LOC_Os09g13470
Os.53954.1.S1_at--393--9791Chr09:7798970..7798994 (25 bp)
TAAGACTCGGATCATGCCATGCTGG
LOC_Os09g13470
Os.53954.1.S1_at--154--3531Chr09:7798987..7799011 (25 bp)
CATGCTGGCTCGAAGGCACGACTAG
LOC_Os09g13470
Os.53954.1.S1_at--810--10011Chr09:7799009..7799033 (25 bp)
TAGCATACCGTATTGATCCTTGGAA
LOC_Os09g13470
Os.53954.1.S1_at--390--2951Chr09:7799063..7799087 (25 bp)
AAGGCCGTGCCTTATATGGCTAGAA
LOC_Os09g13470
Target Sequence 
GCTGTGTATGCCGTCAAGAGCTACAAGACTAGAAGCTAAGCCACTGAGACGTATGCCNNCTGTATGCCTACCGATTTTAC
GTTNATTATCGAAGTACCAATCATTCTCCGCTGCGTTGGATTCTACTCCACTATGTATAGATGGCCAAAATGAGTCGCCC
GACACGGCCTGGCCGGGACACGACTAAGGCACGGTCCAAGATCAGTCGGACCGGCTCGGCCTGAGATTAACCATGTCGCG
CCGTGCCCATCCACGGCGGGCGCCTACACCTATATCCCAGGCATGGCCCAATAAGACTCGGATCATGCCATGCTGGCTCG
AAGGCACGACTAGCATACCGTATTGATCCTTGGAATAAGTTTATTTTGCCTCCCTCATTTTTTTAAGGCCGTGCCTTATA
TGGCTAGAA

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.53954.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis