Browse Element(s) Details


Os.54399.1.S1_at

Description gb:AK103907.1
DB_XREF= gi:32989116
TID=Os.54399.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54399 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033150N21, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033150N21, full insert sequence.
FL= gb:AK103907.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g0694011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g06880OsAffx.29070.2.S1_at10/118+3832845..3836002expressed protein
LOC_Os08g06880OsAffx.29070.2.S1_x_at10/118+3832845..3836002expressed protein
LOC_Os08g06890OsAffx.21982.1.S1_x_at11/118+3842143..3843911hypothetical protein
LOC_Os08g06900NANA8+3845652..3847833retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g06910NANA8+3849211..3849896retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g06920OsAffx.15664.2.S1_at11/118+3850119..3851159hypothetical protein
LOC_Os08g06930Os.57048.1.S1_at11/118+3853298..3856803transposon protein, putative, unclassified, expressed
LOC_Os08g06930OsAffx.16864.1.S1_at3/118+3853298..3856803transposon protein, putative, unclassified, expressed
LOC_Os08g06940Os.6416.1.A1_s_at11/118+3857733..3859597expressed protein
LOC_Os08g06940Os.54399.1.S1_at11/118+3857733..3859597expressed protein
LOC_Os08g06949NANA8+3860300..3860626NA
LOC_Os08g06960OsAffx.32056.1.S1_at11/118+3869410..3873889transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g06960OsAffx.32056.1.S1_x_at11/118+3869410..3873889transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g06960OsAffx.30536.1.S1_x_at1/118+3869410..3873889transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g06970OsAffx.10637.3.S1_s_at11/118+3875422..3879108transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g06970OsAffx.10637.1.S1_s_at11/118+3875422..3879108transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g06970OsAffx.10637.4.S1_s_at8/118+3875422..3879108transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g06980NANA8+3880058..3881154retrotransposon protein, putative, Ty1-copia subclass

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54399.1.S1_at--254--7831Chr08:3859066..3859090 (25 bp)
GGCTAACCGATAGTGCTCTAAAACT
LOC_Os08g06940
Os.54399.1.S1_at--1069--2951Chr08:3859118..3859142 (25 bp)
AATGGCATACTTTGTACCTCAGGAT
LOC_Os08g06940
Os.54399.1.S1_at--163--6811Chr08:3859154..3859178 (25 bp)
GTTTTCAGTTCAGTCGTAACACGCA
LOC_Os08g06940
Os.54399.1.S1_at--16--2591Chr08:3859189..3859213 (25 bp)
AAGCGAGATGACACCCTCTAAGTGT
LOC_Os08g06940
Os.54399.1.S1_at--760--2851Chr08:3859215..3859239 (25 bp)
AAGTGATATCCTCAATCTCTTTTGG
LOC_Os08g06940
Os.54399.1.S1_at--1043--5031Chr08:3859297..3859321 (25 bp)
GCAGATGTGCATGCTCACTCAAGTA
LOC_Os08g06940
Os.54399.1.S1_at--510--6031Chr08:3859354..3859378 (25 bp)
GAGATCAGATCAGCTTTGGGAGTTT
LOC_Os08g06940
Os.54399.1.S1_at--431--7651Chr08:3859371..3859395 (25 bp)
GGGAGTTTGATGCAACTAGCCTAGT
LOC_Os08g06940
Os.54399.1.S1_at--979--11Chr08:3859400..3859424 (25 bp)
ATTGGGCCTGCCTCTTAAAACTAAT
LOC_Os08g06940
Os.54399.1.S1_at--465--571Chr08:3859423..3859447 (25 bp)
ATCCAAGAACTAACTCCTCAACTCG
LOC_Os08g06940
Os.54399.1.S1_at--717--3291Chr08:3859508..3859532 (25 bp)
CAAAGTGCCATTTGCTTTTCTTTTG
LOC_Os08g06940
Target Sequence 
GGCTAACCGATAGTGCTCTAAAACTACTTGAATTTGGAATCGGAGAGAGTGCAATGGCATACTTTGTACCTCAGGATGGT
GGTGAAGAGTTTTCAGTTCAGTCGTAACACGCAATGTGCGAAAAAGCGAGATGACACCCTCTAAGTGTCAAGTGATATCC
TCAATCTCTTTTGGAAACTCAAATGATATCTTCACTTTCATTTAACAATTCCATGGTACAAGAAAGGATGAGCAGATGTG
CATGCTCACTCAAGTAAAGTTGCTGGAGATGAAGAAGATGAAGAAAGAGAGATCAGATCAGCTTTGGGAGTTTGATGCAA
CTAGCCTAGTTGGTATTGGGCCTGCCTCTTAAAACTAATCCAAGAACTAACTCCTCAACTCGCCCACGCTGCAAAATGAT
TCCGTCACCAAATAAAACTATATATGCGTAATGCATGCTGATCAAAGTGCCATTTGCTTTTCTTTTG

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.54399.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis