Browse Element(s) Details


Os.53960.1.S1_at

Description gb:AK101042.1
DB_XREF= gi:32986251
TID=Os.53960.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53960 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033003J10, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033003J10, full insert sequence.
FL= gb:AK101042.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os12g1266411/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os12g12620NANA12+6955174..6956448retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g12630OsAffx.18440.1.S1_at1/1112+6956627..6958063hypothetical protein
LOC_Os12g12640OsAffx.19634.1.S1_at10/1112+6964506..6966110hypothetical protein
LOC_Os12g12640OsAffx.20040.1.S1_x_at1/1112+6964506..6966110hypothetical protein
LOC_Os12g12650Os.46184.1.A1_at1/1112+6970547..6976644hypothetical protein
LOC_Os12g12650OsAffx.12703.1.S1_at1/1112+6970547..6976644hypothetical protein
LOC_Os12g12664Os.53960.1.S1_at11/1112+6975799..6980990expressed protein
LOC_Os12g12664Os.50231.1.S1_x_at10/1112+6975799..6980990expressed protein
LOC_Os12g12680OsAffx.24099.1.S1_x_at1/1112+6980808..6983825transposon protein, putative, Pong sub-class
LOC_Os12g12690Os.26430.1.A1_at11/1112+6983900..6985966expressed protein
LOC_Os12g12700NANA12+6996744..7002779retrotransposon protein, putative, unclassified
LOC_Os12g12710NANA12+7003544..7006810transposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53960.1.S1_at--1135--4731Chr12:6975988..6976012 (25 bp)
GCTGTTACATGTAGTTTCTTTCCTT
LOC_Os12g12664
Os.53960.1.S1_at--509--10671Chr12:6975942..6975966 (25 bp)
TTGCCTTTTTGGTCCATACGACCCG
LOC_Os12g12664
Os.53960.1.S1_at--942--311Chr12:6975927..6975951 (25 bp)
ATACGACCCGTGTTCTAACCATACT
LOC_Os12g12664
Os.53960.1.S1_at--915--6711Chr12:6975916..6975940 (25 bp)
GTTCTAACCATACTTTGGGTTCTCT
LOC_Os12g12664
Os.53960.1.S1_at--926--8631Chr12:6975901..6975925 (25 bp)
TGGGTTCTCTAATCATTCAGCTTTG
LOC_Os12g12664
Os.53960.1.S1_at--552--3591Chr12:6975888..6975912 (25 bp)
CATTCAGCTTTGTAGATTTTTGCGT
LOC_Os12g12664
Os.53960.1.S1_at--57--6551Chr12:6975874..6975898 (25 bp)
GATTTTTGCGTTTGGCTGTGTACAC
LOC_Os12g12664
Os.53960.1.S1_at--906--8671Chr12:6975858..6975882 (25 bp)
TGTGTACACTCTTGACTCTTGTGGA
LOC_Os12g12664
Os.53960.1.S1_at--885--9571Chr12:6975849..6975873 (25 bp)
TCTTGACTCTTGTGGAAAACTGGAC
LOC_Os12g12664
Os.53960.1.S1_at--306--2431Chr12:6975834..6975858 (25 bp)
AAAACTGGACTGTACAGGCTGGAAT
LOC_Os12g12664
Os.53960.1.S1_at--97--3491Chr12:6975820..6975844 (25 bp)
CAGGCTGGAATGATATCCATTATCT
LOC_Os12g12664
Target Sequence 
GCTGTTACATGTAGTTTCTTTCCTTTAATTTTACAGATTGAGGAACTTGCCTTTTTGGTCCATACGACCCGTGTTCTAAC
CATACTTTGGGTTCTCTAATCATTCAGCTTTGTAGATTTTTGCGTTTGGCTGTGTACACTCTTGACTCTTGTGGAAAACT
GGACTGTACAGGCTGGAATGATATCCATTATCT

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.53960.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis