Browse Element(s) Details


Os.53842.1.S1_x_at

Description gb:AK106958.1
DB_XREF= gi:32992167
TID=Os.53842.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53842 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-119-G07, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-119-E11, full insert sequence.
FL= gb:AK100359.1 gb:AK106958.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g2062011/11expressed protein
LOC_Os07g253601/11retrotransposon protein, putative, unclassified, expressed
LOC_Os11g474411/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g069601/11retrotransposon protein, putative, unclassified
LOC_Os11g264701/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g20570Os.22396.1.S1_at11/115+12048811..12049866pectinesterase inhibitor domain containing protein, expressed
LOC_Os05g20579NANA5+12053572..12053991NA
LOC_Os05g20590OsAffx.14771.1.S1_at11/115+12064091..12065637hypothetical protein
LOC_Os05g20590Os.39596.1.A1_x_at1/115+12064091..12065637hypothetical protein
LOC_Os05g20590Os.31845.2.S1_x_at1/115+12064091..12065637hypothetical protein
LOC_Os05g20600NANA5+12068562..12068888hypothetical protein
LOC_Os05g20610NANA5+12070423..12071679retrotransposon protein, putative, unclassified, expressed
LOC_Os05g20620Os.53842.1.S2_at11/115+12073230..12081647expressed protein
LOC_Os05g20620Os.53842.1.S1_x_at11/115+12073230..12081647expressed protein
LOC_Os05g20620Os.53842.2.S1_x_at11/115+12073230..12081647expressed protein
LOC_Os05g20620Os.46610.1.A1_x_at1/115+12073230..12081647expressed protein
LOC_Os05g20620OsAffx.22452.1.S1_x_at1/115+12073230..12081647expressed protein
LOC_Os05g20620OsAffx.27810.1.S1_x_at1/115+12073230..12081647expressed protein
LOC_Os05g20630Os.46610.1.A1_x_at3/115+12080425..12084817hypothetical protein
LOC_Os05g20630OsAffx.3347.1.S1_at1/115+12080425..12084817hypothetical protein
LOC_Os05g20640NANA5+12085539..12085985hypothetical protein
LOC_Os05g20650Os.24831.1.S1_x_at9/115+12092317..12092954retrotransposon protein, putative, unclassified
LOC_Os05g20650Os.24831.3.S1_x_at5/115+12092317..12092954retrotransposon protein, putative, unclassified
LOC_Os05g20650Os.24831.4.S1_x_at2/115+12092317..12092954retrotransposon protein, putative, unclassified
LOC_Os05g20660OsAffx.14773.2.S1_at11/115+12095510..12096947hypothetical protein
LOC_Os05g20660OsAffx.14773.1.S1_at4/115+12095510..12096947hypothetical protein
LOC_Os05g20670NANA5+12098052..12098840retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g20680NANA5+12103527..12107032retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53842.1.S1_x_at--416--8451Chr05:12074301..12074325 (25 bp)
GGCCACTGGGCCAAATATTGCAGGA
LOC_Os05g20620
Os.53842.1.S1_x_at--490--2351Chr05:12074333..12074357 (25 bp)
AAAGCAGGAGCAAGCGCACGTGGCC
LOC_Os05g20620
Os.53842.1.S1_x_at--903--3473Chr07:14493859..14493883 (25 bp)
CAGGAGGAGGATGAGCCCACGCTCA
LOC_Os07g25360
Os.53842.1.S1_x_at--187--3431Chr05:12074470..12074494 (25 bp)
CAGACGTCATCGAGTTTGTGGAGCA
LOC_Os05g20620
Os.53842.1.S1_x_at--1153--5611Chr05:12074532..12074556 (25 bp)
GACAACAAGCGCTAGATCCTCGACA
LOC_Os05g20620
Os.53842.1.S1_x_at--947--5631Chr05:12074553..12074577 (25 bp)
GACACCGACGCGTCGAACCACATGA
LOC_Os05g20620
Os.53842.1.S1_x_at--27--9711Chr05:12074583..12074607 (25 bp)
TCAACACCAACGTCACCGGCAATGT
LOC_Os05g20620
Os.53842.1.S1_x_at--593--9231Chr05:12074655..12074676 (22 bp)
TCCTATTCGCCTGCAAGAATGGATG
LOC_Os05g20620
Os.53842.1.S1_x_at--109--7953Chr12:16743312..16743336 (25 bp)
ATGTGATACAAGTTACCTCAGTGGG
NONE
Os.53842.1.S1_x_at--266--108348Chr12:16743360..16743384 (25 bp)
TTGGCTTTCGCTCAGGGTCCTTGAT
NONE
Os.53842.1.S1_x_at--540--3545Chr12:8628234..8628257 (24 bp)
ATAAGGATTGAACCCCTGAAAGCGA
NONE
Target Sequence 
GGCCACTGGGCCAAATATTGCAGGAGCAAACCAAAGCAGGAGCAAGCGCACGTGGCCCAGGAGGAGGATGAGCCCACGCT
CATGCTCATGACGGGCGGCTGCATTGATGTGGTGGAGGAGACGGGCGCGCCGTGCGCGACACCGTCGCCGCCCNCATTGC
GGCCTCGCCCAGACGTCATCGAGTTTGTGGAGCAGAAGGTGATCGCCGCGCTGGACGACGCCACCGACCACGACAACAAG
CGCTAGATCCTCGACACCGACGCGTCGAACCACATGACCGGCTCAACACCAACGTCACCGGCAATGTCCGACTCGGGGAT
GGCTCGCTCGTCCACATCGGAGGGCGCGGCACCATCCTATTCGCCTGCAAGAATGGATGCAATTGGAAAGCAAATATGCA
ATTGGAAAGGGAAATATGCAATGTGATACAAGTTACCTCAGTGGGGGGAGCGTCGCTCCCCCCAAGCTTGGCTTTCGCTC
AGGGTCCTTGATAAGGATTGAACCCCTGAAAGCGA

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.53842.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis