Browse Element(s) Details


Os.49417.1.S1_at

Description gb:AK120075.1
DB_XREF= gi:37989698
TID=Os.49417.1
CNT=5
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.49417 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013008L07, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013008L07, full insert sequence.
FL= gb:AK120075.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g6812011/11RNase3 domain containing protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g68060Os.11396.1.S1_at11/111+39892600..39896895Copine family protein, expressed
LOC_Os01g68070Os.52250.1.A1_at11/111+39903897..39907035salt-inducible protein, putative, expressed
LOC_Os01g68080OsAffx.23965.1.S1_at11/111+39907344..39908254Harpin-induced protein 1 containing protein
LOC_Os01g68090OsAffx.11785.1.S1_at11/111+39909204..39910571Harpin-induced protein 1 containing protein
LOC_Os01g68104OsAffx.2432.1.S1_at11/111+39913524..39918095Zinc finger, C2H2 type family protein, expressed
LOC_Os01g68104Os.19434.1.S1_at9/111+39913524..39918095Zinc finger, C2H2 type family protein, expressed
LOC_Os01g68104OsAffx.28308.3.S1_at7/111+39913524..39918095Zinc finger, C2H2 type family protein, expressed
LOC_Os01g68104OsAffx.28308.2.S1_x_at2/111+39913524..39918095Zinc finger, C2H2 type family protein, expressed
LOC_Os01g68104OsAffx.28308.1.S1_at1/111+39913524..39918095Zinc finger, C2H2 type family protein, expressed
LOC_Os01g68120Os.49417.1.S1_at11/111+39919469..39932566RNase3 domain containing protein, expressed
LOC_Os01g68130OsAffx.2433.1.S1_at9/111+39935234..39938852hypothetical protein
LOC_Os01g68140Os.10675.1.A1_at11/111+39939872..39941187expressed protein
LOC_Os01g68160Os.9025.2.S1_at11/111+39943052..39960668Zinc finger, C2H2 type family protein, expressed
LOC_Os01g68160Os.9025.1.A1_s_at11/111+39943052..39960668Zinc finger, C2H2 type family protein, expressed
LOC_Os01g68160OsAffx.21304.1.S1_at2/111+39943052..39960668Zinc finger, C2H2 type family protein, expressed
LOC_Os01g68150Os.9025.3.S1_at10/111+39943995..39947432retrotransposon protein, putative, unclassified, expressed

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Gene Ontology Classification
GO idTypeName
GO:0000910biological_processcytokinesis
GO:0006396biological_processRNA processing
GO:0009880biological_processembryonic pattern specification
GO:0009908biological_processflower development
GO:0010050biological_processvegetative phase change
GO:0010098biological_processsuspensor development
GO:0010228biological_processvegetative to reproductive phase transition
GO:0030422biological_processRNA interference, production of siRNA
GO:0031053biological_processprimary microRNA processing
GO:0035279biological_processmiRNA-mediated gene silencing, mRNA cleavage
GO:0005634cellular_componentnucleus
GO:0003723molecular_functionRNA binding
GO:0003725molecular_functiondouble-stranded RNA binding
GO:0004525molecular_functionribonuclease III activity
GO:0005515molecular_functionprotein binding
GO:0008026molecular_functionATP-dependent helicase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.49417.1.S1_at--379--8611Chr01:39923106..39923130 (25 bp)
TGGTGGTTCCTCTCAGAAAGCTACC
LOC_Os01g68120
Os.49417.1.S1_at--11--10651Chr01:39923072..39923096 (25 bp)
TTCGCTTTCGCTTCAACCATTACAT
LOC_Os01g68120
Os.49417.1.S1_at--651--391Chr01:39923024..39923048 (25 bp)
ATCAGCCTCACAGGAGATGGCCGTG
LOC_Os01g68120
Os.49417.1.S1_at--146--3071Chr01:39922865..39922889 (25 bp)
AATAATAGACCAACCAGTTGCTTGC
LOC_Os01g68120
Os.49417.1.S1_at--939--10711Chr01:39922848..39922872 (25 bp)
TTGCTTGCCACCACTCAGCTTTGTA
LOC_Os01g68120
Os.49417.1.S1_at--1122--1551Chr01:39922832..39922856 (25 bp)
AGCTTTGTACATCTTCTCCAGTGTT
LOC_Os01g68120
Os.49417.1.S1_at--942--9491Chr01:39922818..39922842 (25 bp)
TCTCCAGTGTTCACCTTCTGAATTA
LOC_Os01g68120
Os.49417.1.S1_at--64--1251Chr01:39922681..39922705 (25 bp)
AGTTGTTGCTGACGATAAACACGCA
LOC_Os01g68120
Os.49417.1.S1_at--813--2471Chr01:39922664..39922688 (25 bp)
AACACGCAAATATCATGCCCCTGTA
LOC_Os01g68120
Os.49417.1.S1_at--614--4531Chr01:39922648..39922672 (25 bp)
GCCCCTGTAGCCTGTAGGTGTTAAA
LOC_Os01g68120
Os.49417.1.S1_at--337--5831Chr01:39922598..39922622 (25 bp)
GACCATTTTCAAATCATGTTTCCTT
LOC_Os01g68120
Target Sequence 
TGGTGGTTCCTCTCAGAAAGCTACCCCCCAAGCGTTCGCTTTCGCTTCAACCATTACATTGCATATACCAAATGCTGATG
TGATCAGCCTCACAGGAGATGGCCGTGCAGATAAGAAGAGCTCACAGGATTCTGCTGCCCTGTTCTTGCTCTATGAGNTT
CAGCGGCGAGGTACTTTGCAACTCCAGGAGGTGTGAAGGAACGACAACTGATTGCTTGCCAACCAGTTGCTTGGAAGTTG
GAATAATAGACCAACCAGTTGCTTGCCACCACTCAGCTTTGTACATCTTCTCCAGTGTTCACCTTCTGAATTATGATAAG
AGGGTACCCAAAGAATGGAGAACAGCTGACCTGGTTCTGGTGTGTGTCAGTTGTTATGTGTGTTTGTCCATATGTTATCT
GCGTAGAAACTGAATAAGCCCCCAAAGTTGTTGCTGACGATAAACACGCAAATATCATGCCCCTGTAGCCTGTAGGTGTT
AAACCAATTGTTCAAGGATAAAAAGAGAGACCATTTTCAAATCATGTTTCCTT

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.49417.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis