Browse Element(s) Details


Os.20204.1.S1_x_at

Description gb:AF513383.1
DB_XREF= gi:31324094
TID=Os.20204.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.20204 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) histone deacetylase HDAC2 mRNA, complete cds; alternatively spliced.
PROD=histone deacetylase HDAC2
FL= gb:AF513383.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g1238010/11histone deacetylase, putative, expressed
LOC_Os02g123503/11histone deacetylase, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g12340OsAffx.12003.2.S1_at11/112+6422491..6424004hypothetical protein
LOC_Os02g12340OsAffx.12003.2.S1_s_at11/112+6422491..6424004hypothetical protein
LOC_Os02g12340OsAffx.12003.1.S1_at9/112+6422491..6424004hypothetical protein
LOC_Os02g12350Os.20204.2.S1_a_at11/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12350Os.20204.1.S1_s_at10/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12350Os.20204.1.S1_x_at3/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12350Os.28463.1.S1_x_at1/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12360Os.53409.1.A1_at11/112+6433220..6441415nuclear protein ZAP, putative, expressed
LOC_Os02g12370Os.53540.1.S1_at11/112+6443131..6445361expressed protein
LOC_Os02g12380Os.20204.1.S1_at11/112+6447083..6453145histone deacetylase, putative, expressed
LOC_Os02g12380Os.20204.3.S1_a_at11/112+6447083..6453145histone deacetylase, putative, expressed
LOC_Os02g12380Os.20204.1.S1_s_at10/112+6447083..6453145histone deacetylase, putative, expressed
LOC_Os02g12380Os.20204.1.S1_x_at10/112+6447083..6453145histone deacetylase, putative, expressed
LOC_Os02g12390OsAffx.30226.4.S1_x_at5/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.2.S1_s_at5/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.4.S1_at4/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.24587.1.S1_x_at4/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.442.1.S1_x_at4/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.1.S1_x_at3/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.2.S1_x_at3/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.30226.1.S1_at2/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.19052.1.S1_at1/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12390OsAffx.442.1.S1_at1/112+6454045..6458106retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g12400Os.54164.1.S1_at11/112+6468826..6472843Leucine Rich Repeat family protein, expressed
LOC_Os02g12410Os.53025.1.S1_at1/112+6474514..6474992U-box domain-containing protein, putative
LOC_Os02g12420Os.53706.1.S1_at11/112+6476683..6480097Leucine Rich Repeat family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0007275biological_processdevelopment
GO:0009861biological_processjasmonic acid and ethylene-dependent systemic resistance
GO:0016441biological_processposttranscriptional gene silencing
GO:0016575biological_processhistone deacetylation
GO:0005634cellular_componentnucleus
GO:0004407molecular_functionhistone deacetylase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.20204.1.S1_x_at--345--3352Chr02:6449157..6449176 (20 bp)
CACGCTGCTGGTGTTACGAGACAGG
LOC_Os02g12380
Os.20204.1.S1_x_at--1143--3891NONE
CTGGTGTTACGAGACAGGAGTTGCA
NONE
Os.20204.1.S1_x_at--2--8052Chr02:6449938..6449962 (25 bp)
GGAGTTGCACTTGGTGAAGAGCTAC
LOC_Os02g12380
Os.20204.1.S1_x_at--607--4851Chr02:6449958..6449982 (25 bp)
GCTACGGGAGAAGTTGCCTTATAAC
LOC_Os02g12380
Os.20204.1.S1_x_at--816--7631Chr02:6449963..6449987 (25 bp)
GGGAGAAGTTGCCTTATAACGAGTA
LOC_Os02g12380
Os.20204.1.S1_x_at--268--10472Chr02:6450490..6450514 (25 bp)
TTACTGAAACAGAGACCAAAGATCA
LOC_Os02g12380
Os.20204.1.S1_x_at--1137--9231Chr02:6452551..6452575 (25 bp)
TCCATAGCACAAACTCTGCATTGCA
LOC_Os02g12380
Os.20204.1.S1_x_at--283--2011Chr02:6452563..6452587 (25 bp)
ACTCTGCATTGCATAATGCCTATAT
LOC_Os02g12380
Os.20204.1.S1_x_at--286--6471Chr02:6452589..6452613 (25 bp)
GATATAGAATTATCCAACACCATGG
LOC_Os02g12380
Os.20204.1.S1_x_at--989--5151Chr02:6452595..6452619 (25 bp)
GAATTATCCAACACCATGGTTTAAT
LOC_Os02g12380
Os.20204.1.S1_x_at--491--151Chr02:6452597..6452621 (25 bp)
ATTATCCAACACCATGGTTTAATCT
LOC_Os02g12380
Target Sequence 
CACGCTGCTGGTGTTACGAGACAGGAGTTGCACTTGGTGAAGAGCTACGGGAGAAGTTGCCTTATAACGAGTATTATGAA
TATTTTGGTCCAGAATACAGTCTTTACGTTGCAGCAAGTAACATGGAGAACAGAAATACAAACAAGCAATTGGAGGAAAT
AAAATGCAACATTCTGGACAATCTCTCAAAACTTCAACATGCTCCTAGTGTCCAATTTGAAGAGCGAATTCCTGAAACAA
AGCTACCTGAGCCAGATGAAGATCAAGATGATCCAGATGAAAGGCACGACCCTGACTCTGATATGCTGTTGGATGATCAC
AAACCTATGGGACACTCAGCAAGAAGCCTTATTCACAACATCGGAGTTAAGAGAGAAATTACTGAAACAGAGACCAAAGA
TCAGCATGGTAAGAGATTAACAACTGAACATAAAGTACCAGAACCGATGGCAGACGATCTTGGTTCCTCCAAGCAAGTTC
CTGTAAGTCGTCGTCTTCTCTATCCATCTGCAAATCCATAGCACAAACTCTGCATTGCATAATGCCTATATGGATATAGA
ATTATCCAACACCATGGTTTAATCT

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.20204.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis