Browse Element(s) Details


Os.10708.2.S1_at

Description gb:AK068051.1
DB_XREF= gi:32978069
TID=Os.10708.2
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.10708 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) histone deacetylase HDAC1 mRNA, complete cds; alternatively spliced
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013135B02, full insert sequence.
FL= gb:AK068051.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os06g3847011/11histone deacetylase, putative, expressed
LOC_Os03g069501/11Ubiquitin carboxyl-terminal hydrolase family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os06g38440OsAffx.5045.1.S1_at11/116+22776169..22777114hypothetical protein
LOC_Os06g38450Os.35456.1.S1_at11/116+22778412..22780112Papain family cysteine protease containing protein, expressed
LOC_Os06g38460OsAffx.15821.2.S1_at11/116+22790491..22790871hypothetical protein
LOC_Os06g38470Os.10708.2.S1_at11/116+22793362..22799199histone deacetylase, putative, expressed
LOC_Os06g38470Os.10708.1.S1_a_at11/116+22793362..22799199histone deacetylase, putative, expressed
LOC_Os06g38470Os.10708.1.S1_at11/116+22793362..22799199histone deacetylase, putative, expressed
LOC_Os06g38470Os.28463.1.S1_x_at1/116+22793362..22799199histone deacetylase, putative, expressed
LOC_Os06g38480Os.54381.1.S1_at11/116+22806541..22808931retrotransposon protein, putative, unclassified, expressed
LOC_Os06g38490OsAffx.15822.1.S1_at11/116+22808654..22812272Leucine Rich Repeat family protein
LOC_Os06g38490Os.54901.1.S1_at1/116+22808654..22812272Leucine Rich Repeat family protein
LOC_Os06g38500NANA6+22816834..22817166hypothetical protein
LOC_Os06g38510Os.18224.1.S1_at11/116+22820120..22822391Pectate lyase precursor, putative, expressed
LOC_Os06g38520OsAffx.27990.1.S1_at11/116+22823679..22825322Pectate lyase family protein

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Gene Ontology Classification
GO idTypeName
GO:0006511biological_processubiquitin-dependent protein catabolism
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:0004221molecular_functionubiquitin thiolesterase activity
GO:0004407molecular_functionhistone deacetylase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.10708.2.S1_at--304--6531Chr06:22795979..22796003 (25 bp)
GATTTCTCAAATGTTCTGATGCACA
LOC_Os06g38470
Os.10708.2.S1_at--745--2991Chr06:22795970..22795994 (25 bp)
AATGTTCTGATGCACATTTGCACCC
LOC_Os06g38470
Os.10708.2.S1_at--334--6471Chr06:22795912..22795936 (25 bp)
GATAAGTGATTTGCATAGGCTTCAA
LOC_Os06g38470
Os.10708.2.S1_at--160--6851Chr06:22795872..22795896 (25 bp)
GTTTGACCATTAACTTCTCTTACAA
LOC_Os06g38470
Os.10708.2.S1_at--92--1711Chr06:22795826..22795850 (25 bp)
ACCAATTCATGTGGAAGCACTTCCG
LOC_Os06g38470
Os.10708.2.S1_at--867--1491Chr06:22795811..22795835 (25 bp)
AGCACTTCCGAATATGAATCCACTG
LOC_Os06g38470
Os.10708.2.S1_at--1032--8951Chr06:22795797..22795821 (25 bp)
TGAATCCACTGGTACAACTTTTGTA
LOC_Os06g38470
Os.10708.2.S1_at--664--5711Chr06:22795749..22795773 (25 bp)
GACTCATTGTTGGTTAGAGCTTACA
LOC_Os06g38470
Os.10708.2.S1_at--3--5691Chr06:22795718..22795742 (25 bp)
GACTTTTCAAGTACATGGACGAGTT
LOC_Os06g38470
Os.10708.2.S1_at--955--9051Chr06:22795533..22795557 (25 bp)
TGCATTGATCATTTAACGTCTTATA
LOC_Os06g38470
Os.10708.2.S1_at--614--1892Chr06:22795518..22795542 (25 bp)
ACGTCTTATAGTGAATCCTTTATTG
LOC_Os06g38470
Target Sequence 
GATTTCTCAAATGTTCTGATGCACATTTGCACCCNGTTGGGACTTATTTCTAATAGTAATTCTANTTGATAAGTGATTTG
CATAGGCTTCAAAAGTATAATTTGACAGTTTGACCATTAACTTCTCTTACAATATATTGTNANTGGCAACAAAACCAATT
CATGTGGAAGCACTTCCGAATATGAATCCACTGGTACAACTTTTGTACAGTNAACTTGCAAATATAATTTGACTCATTGT
TGGTTAGAGCTTACAAAATTTGACTTTTCAAGTACATGGACGAGTTAGGGNAANGGGAATANCTNNTCTTTGCAAGTGCA
ANTCTAATTTATCAATTCACTGNGGNTATGTATATCAAATAATNTCCTCGGACTTGNGAAAGNTTTGATGCTCCNNTGNT
CTACCGNTGGTCNTTTGCTGNTGGNGCAGNTCTAGNAAAAGNATTGNTGCATTGATCATTTAACGTCTTATAGTGAATCC
TTTATTG

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.10708.2.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis