Browse Element(s) Details


Os.54038.1.S1_at

Description gb:AK101440.1
DB_XREF= gi:32986649
TID=Os.54038.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54038 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033039D22, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033039D22, full insert sequence.
FL= gb:AK101440.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g5033010/11RNA-directed RNA polymerase 2, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g50300NANA2+30699155..30699565expressed protein
LOC_Os02g50310NANA2+30700973..30702611BED zinc finger family protein
LOC_Os02g50320Os.47336.1.S1_at11/112+30714987..30720585expressed protein
LOC_Os02g50330OsAffx.12575.1.S1_at11/112+30723201..30730508RNA-directed RNA polymerase 2, putative, expressed
LOC_Os02g50330Os.54038.1.S1_at10/112+30723201..30730508RNA-directed RNA polymerase 2, putative, expressed
LOC_Os02g50340Os.49577.1.S1_at11/112+30730821..30737755MAC/Perforin domain containing protein, expressed
LOC_Os02g50340OsAffx.20484.1.S1_x_at1/112+30730821..30737755MAC/Perforin domain containing protein, expressed
LOC_Os02g50340OsAffx.20484.1.S1_at1/112+30730821..30737755MAC/Perforin domain containing protein, expressed
LOC_Os02g50350Os.4862.1.S1_at11/112+30739743..30743502Dihydroorotate dehydrogenase family protein, expressed
LOC_Os02g50360Os.15647.1.S1_at11/112+30744715..30750643nicastrin, putative, expressed
LOC_Os02g50370Os.25200.1.S1_at10/112+30750806..30756896Helicase associated domain family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0009615biological_processresponse to virus
GO:0009751biological_processresponse to salicylic acid stimulus
GO:0016246biological_processRNA interference
GO:0016441biological_processposttranscriptional gene silencing
GO:0016458biological_processgene silencing
GO:0030422biological_processRNA interference, production of siRNA
GO:0003676molecular_functionnucleic acid binding
GO:0003968molecular_functionRNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54038.1.S1_at--315--3011Chr02:30728122..30728146 (25 bp)
AATGACAATGACAGGTTCACCGTGA
LOC_Os02g50330
Os.54038.1.S1_at--983--10791Chr02:30728156..30728180 (25 bp)
TTGTGATTGCCAAAAACCCTTGCCT
LOC_Os02g50330
Os.54038.1.S1_at--17--10691Chr02:30728175..30728199 (25 bp)
TTGCCTCCACCCAGGTGATATACGG
LOC_Os02g50330
Os.54038.1.S1_at--928--1811Chr02:30728183..30728207 (25 bp)
ACCCAGGTGATATACGGATTCTCCA
LOC_Os02g50330
Os.54038.1.S1_at--487--9931Chr02:30728195..30728219 (25 bp)
TACGGATTCTCCATGCTGTTGATGT
LOC_Os02g50330
Os.54038.1.S1_at--686--111Chr02:30728200..30728224 (25 bp)
ATTCTCCATGCTGTTGATGTTCCTG
LOC_Os02g50330
Os.54038.1.S1_at--584--8871Chr02:30728214..30728238 (25 bp)
TGATGTTCCTGTTTTGCACCACATG
LOC_Os02g50330
Os.54038.1.S1_at--768--9271Chr02:30728220..30728244 (25 bp)
TCCTGTTTTGCACCACATGTTTAAC
LOC_Os02g50330
Os.54038.1.S1_at--874--3491Chr02:30728235..30728259 (25 bp)
CATGTTTAACTGTGTCGTCTTTCCA
LOC_Os02g50330
Os.54038.1.S1_at--83--2571Chr02:30728242..30728266 (25 bp)
AACTGTGTCGTCTTTCCACAGCAAG
LOC_Os02g50330
Os.54038.1.S1_at--1066--1471NONE
AGCAAGGACCAAGGCCGCATCCTAA
NONE
Target Sequence 
AATGACAATGACAGGTTCACCGTGACAGGAAAAGTTGTGATTGCCAAAAACCCTTGCCTCCACCCAGGTGATATACGGAT
TCTCCATGCTGTTGATGTTCCTGTTTTGCACCACATGTTTAACTGTGTCGTCTTTCCACAGCAAGGACCAAGGCCGCATC
CTAA

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.54038.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis