Browse Element(s) Details


Os.55340.1.S1_at

Description gb:AK107902.1
DB_XREF= gi:32993111
TID=Os.55340.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.55340 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-134-F09, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-134-F09, full insert sequence.
FL= gb:AK107902.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g5713011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g57070OsAffx.26643.2.S1_at11/114+33795025..33796687SAM dependent carboxyl methyltransferase family protein
LOC_Os04g57080OsAffx.14453.1.S1_at11/114+33798360..33800490SAM dependent carboxyl methyltransferase family protein
LOC_Os04g57090NANA4+33803567..33805014SAM dependent carboxyl methyltransferase family protein, expressed
LOC_Os04g57100Os.53479.1.S1_x_at1/114+33806379..33809394retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g57100OsAffx.22004.1.S1_at1/114+33806379..33809394retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g57110OsAffx.20387.1.S1_x_at2/114+33810010..33815670retrotransposon protein, putative, unclassified
LOC_Os04g57130Os.55340.1.S1_at11/114+33819310..33820364expressed protein
LOC_Os04g57140Os.14699.1.S1_at8/114+33821058..33830470kinesin-like calmodulin binding protein, putative, expressed
LOC_Os04g57150Os.27939.1.A1_at11/114+33835254..33839085Tafazzin, putative, expressed
LOC_Os04g57160NANA4+33840976..33843492oxidoreductase, 2OG-Fe oxygenase family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006952biological_processdefense response
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.55340.1.S1_at--1138--7351Chr04:33819846..33819870 (25 bp)
GTGAACGTGTTGGACAACGCGCTGC
LOC_Os04g57130
Os.55340.1.S1_at--706--7691Chr04:33819601..33819625 (25 bp)
GGGTACATGACCAGCAAGCTTCTCA
LOC_Os04g57130
Os.55340.1.S1_at--292--9671Chr04:33819534..33819558 (25 bp)
TCACCCTCGACCATTGAATACTACT
LOC_Os04g57130
Os.55340.1.S1_at--1057--5231Chr04:33819519..33819543 (25 bp)
GAATACTACTCCGTGGTGTGTTATA
LOC_Os04g57130
Os.55340.1.S1_at--415--7431Chr04:33819502..33819526 (25 bp)
GTGTTATATATCGTGCAGTGCTTGC
LOC_Os04g57130
Os.55340.1.S1_at--733--9051Chr04:33819484..33819508 (25 bp)
TGCTTGCTTTGGTGTTCGGTTGAAC
LOC_Os04g57130
Os.55340.1.S1_at--471--5491Chr04:33819463..33819487 (25 bp)
GAACATATGTATGCACGGCGATCGT
LOC_Os04g57130
Os.55340.1.S1_at--863--8032Chr04:33819421..33819445 (25 bp)
GGAGAATTCTTTTCCGACCCATCGT
LOC_Os04g57130
Os.55340.1.S1_at--517--9951Chr04:33819372..33819396 (25 bp)
TACGCTGTACTGACACACTCATGTA
LOC_Os04g57130
Os.55340.1.S1_at--1154--3771Chr04:33819339..33819363 (25 bp)
CTCGGTGTTATAATTGCTCAGGGCA
LOC_Os04g57130
Os.55340.1.S1_at--919--4811Chr04:33819324..33819348 (25 bp)
GCTCAGGGCAAAGCATCCTTATAAA
LOC_Os04g57130
Target Sequence 
GTGAACGTGTTGGACAACGCGCTGCGGGAGGGGCCGGACCCGGCGTCGCGGCTGATCGGGAGGGCGCACGGCCTCGCGGT
GCACGCGTCGCTGGACGAGACGGGCGGCCTCACGGCCATCAACTTCGTCTTCTCCGACTACGGCGCGTACAGCGGCAGCA
CGCTGGCCACGCAGGGCCACTTCATCACGACGGGCCCGTCGGAGCGGAGCATCGTCGGCGGCACGGGCAAGCTCCGGTTC
GCGCGCGGGTACATGACCAGCAAGCTTCTCAGCTCCACGGACACCGCCATCGTCGTCGTCTTCGACATGTACTTCACCCT
CGACCATTGAATACTACTCCGTGGTGTGTTATATATCGTGCAGTGCTTGCTTTGGTGTTCGGTTGAACATATGTATGCAC
GGCGATCGTGACGAATACTGGGGTTCGGAGAATTCTTTTCCGACCCATCGTCTCATAGGCCCAATTCACCACTCCTACGC
TGTACTGACACACTCATGTAAAAATAAACTCGGTGTTATAATTGCTCAGGGCAAAGCATCCTTATAAA

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.55340.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis