Browse Element(s) Details


Os.52447.1.S1_x_at

Description gb:AK067185.1
DB_XREF= gi:32977203
TID=Os.52447.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.52447 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013095H05, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013095H05, full insert sequence.
FL= gb:AK067185.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g3613011/11retrotransposon, putative, centromere-specific, expressed
LOC_Os06g253502/11retrotransposon, putative, centromere-specific
LOC_Os04g183602/11retrotransposon, putative, centromere-specific
LOC_Os11g226802/11retrotransposon, putative, centromere-specific
LOC_Os01g313501/11retrotransposon, putative, centromere-specific
LOC_Os08g218041/11retrotransposon, putative, centromere-specific
LOC_Os12g362301/11retrotransposon, putative, centromere-specific
LOC_Os10g012601/11retrotransposon, putative, centromere-specific
LOC_Os03g373771/11retrotransposon, putative, centromere-specific
LOC_Os04g206401/11retrotransposon, putative, centromere-specific
LOC_Os03g315421/11retrotransposon, putative, centromere-specific
LOC_Os01g294881/11retrotransposon, putative, centromere-specific
LOC_Os06g279901/11retrotransposon, putative, centromere-specific
LOC_Os07g209301/11retrotransposon, putative, centromere-specific
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g36080OsAffx.13195.1.S1_at11/113+19973414..19974321expressed protein
LOC_Os03g36100NANA3+19981970..19982779retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g36110Os.31380.1.A1_x_at11/113+19984903..19988342expressed protein
LOC_Os03g36110Os.23106.1.A1_at11/113+19984903..19988342expressed protein
LOC_Os03g36120NANA3+19993202..19995816retrotransposon protein, putative, unclassified
LOC_Os03g36130Os.52447.1.S1_x_at11/113+19997422..20002222retrotransposon, putative, centromere-specific, expressed
LOC_Os03g36130Os.52447.1.S1_at11/113+19997422..20002222retrotransposon, putative, centromere-specific, expressed
LOC_Os03g36130Os.52172.1.S1_x_at5/113+19997422..20002222retrotransposon, putative, centromere-specific, expressed
LOC_Os03g36140NANA3+20003870..20005497retrotransposon protein, putative, unclassified
LOC_Os03g36150Os.51397.1.S1_at10/113+20008178..20012539hypothetical protein
LOC_Os03g36150Os.40855.4.S1_x_at1/113+20008178..20012539hypothetical protein
LOC_Os03g36160OsAffx.25376.1.S1_at11/113+20016308..20017186DnaJ domain containing protein, expressed
LOC_Os03g36170NANA3+20020269..20024659retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g36180OsAffx.31892.1.S1_x_at1/113+20026892..20028086retrotransposon, putative, centromere-specific

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.52447.1.S1_x_at--320--8513Chr08:13012619..13012638 (20 bp)
TGGACTATGTGACGAGCACCGTATA
LOC_Os08g21804
Os.52447.1.S1_x_at--611--2011Chr03:19997827..19997851 (25 bp)
ACTACACTGCTAAATTCAATCGGCC
LOC_Os03g36130
Os.52447.1.S1_x_at--782--8811Chr03:19997820..19997844 (25 bp)
TGCTAAATTCAATCGGCCGCCGAAT
LOC_Os03g36130
Os.52447.1.S1_x_at--387--67911Chr07:12107863..12107883 (21 bp)
TTTTTGACCCGTGAGTACTTGGTAG
LOC_Os07g20930
Os.52447.1.S1_x_at--562--9551Chr03:19997738..19997762 (25 bp)
TCTTTCCAGCAGATCTGGCCTCATA
LOC_Os03g36130
Os.52447.1.S1_x_at--964--472Chr03:24509242..24509266 (25 bp)
ATCTGGCCTCATATCCAAATTCCAT
NONE
Os.52447.1.S1_x_at--475--7311Chr03:19997673..19997697 (25 bp)
GTGCTGCATCGCTAGTCATGGGCCT
LOC_Os03g36130
Os.52447.1.S1_x_at--959--47713Chr12:22167941..22168039 (25 bp)
GCTGCGCCCCAAACAGAGGGAGGAC
LOC_Os12g36230
Os.52447.1.S1_x_at--841--1331Chr03:19997583..19997607 (25 bp)
AGAGGGAGGACACCCTTCTGATCTC
LOC_Os03g36130
Os.52447.1.S1_x_at--376--92714Chr12:22168052..22168076 (25 bp)
TCCTCCATCCCTTAAATAGCTAGTA
NONE
Os.52447.1.S1_x_at--181--10051Chr03:19997540..19997564 (25 bp)
TAGTAATCCCTCCAAGGTTAGTCGG
LOC_Os03g36130
Target Sequence 
TGGACTATGTGACGAGCACCGTATAGAAAAATCGAGGACGGTTTTCCGTGAAGAAGGGGAGGATGATGTGACCATGGCTA
CTACGGATACAACCATTGCTCACATCATGGAAGAACAAGATAACATCAAGATCAAGTCCTCCAAGTGCTGGAATCCGATT
CGGCCACCTACTACACTGCTAAATTCAATCGGCCGCCGAATCTGCATACAACCTCCGTTTTTGACCCGTGAGTACTTGGT
AGAAAGCTCTCGGAGTCCTCTTTCCAGCAGATCTGGCCTCATATCCAAATTCCATCCCAGTCATCCACAAATGAAGAAAC
AAGGTGCTGCATCGCTAGTCATGGGCCTTTGGGCTTGTAACTTTGTTTGGGACCCCGGCCCAAGTGGGGCCCAAGGGGGG
CTGCGCCCCAAACAGAGGGAGGACACCCTTCTGATCTCCTCCATCCCTTAAATAGCTAGTAATCCCTCCAAGGTTAGTCG
G

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.52447.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis