Browse Element(s) Details


Os.53978.1.S1_at

Description gb:AK101117.1
DB_XREF= gi:32986326
TID=Os.53978.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53978 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033025H14, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033025H14, full insert sequence.
FL= gb:AK101117.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g1488011/11transposon protein, putative, Pong sub-class, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g14850OsAffx.30350.1.S1_at2/119+8857599..8862586retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g14860OsAffx.6276.1.S1_at10/119+8863337..8866726hypothetical protein
LOC_Os09g14870OsAffx.18887.1.S1_at3/119+8867795..8872867hypothetical protein
LOC_Os09g14870OsAffx.19675.1.S1_at3/119+8867795..8872867hypothetical protein
LOC_Os09g14870OsAffx.19675.1.S1_x_at3/119+8867795..8872867hypothetical protein
LOC_Os09g14880Os.53978.1.S1_at11/119+8878453..8882844transposon protein, putative, Pong sub-class, expressed
LOC_Os09g14890OsAffx.24469.1.S1_x_at11/119+8888532..8889134hypothetical protein
LOC_Os09g14890OsAffx.24469.1.S1_at11/119+8888532..8889134hypothetical protein
LOC_Os09g14900Os.46012.3.S1_x_at5/119+8898671..8903527retrotransposon protein, putative, unclassified
LOC_Os09g14900Os.27088.1.A1_x_at2/119+8898671..8903527retrotransposon protein, putative, unclassified
LOC_Os09g14900Os.46012.2.S1_x_at2/119+8898671..8903527retrotransposon protein, putative, unclassified
LOC_Os09g14900Os.43516.1.S1_at1/119+8898671..8903527retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53978.1.S1_at--187--2511Chr09:8879001..8879025 (25 bp)
AACATGCATTATATCTTCAGACCAT
LOC_Os09g14880
Os.53978.1.S1_at--535--2911Chr09:8878753..8878777 (25 bp)
AAGGATGTCAATTAGTGCCCTCGCA
LOC_Os09g14880
Os.53978.1.S1_at--811--7291Chr09:8878739..8878763 (25 bp)
GTGCCCTCGCAACAATTTATCTTAA
LOC_Os09g14880
Os.53978.1.S1_at--73--7351Chr09:8878702..8878726 (25 bp)
GTGCAAATATCATCCCAACAACTAG
LOC_Os09g14880
Os.53978.1.S1_at--185--6371Chr09:8878672..8878696 (25 bp)
GATCGTTTTGTTCTACTTAACTGAA
LOC_Os09g14880
Os.53978.1.S1_at--1090--2511Chr09:8878654..8878678 (25 bp)
AACTGAAGGATTGCCTCCACTAACA
LOC_Os09g14880
Os.53978.1.S1_at--278--2131Chr09:8878632..8878656 (25 bp)
ACACCTGTGTCTGTGTTAGGTTTAA
LOC_Os09g14880
Os.53978.1.S1_at--888--7871Chr09:8878614..8878638 (25 bp)
GGTTTAATCATCTCTAGCAAGATTT
LOC_Os09g14880
Os.53978.1.S1_at--1024--7531Chr09:8878529..8878553 (25 bp)
GTGGCTTATCTAATTTGCAACTGAC
LOC_Os09g14880
Os.53978.1.S1_at--970--2551Chr09:8878511..8878535 (25 bp)
AACTGACCTGTGCAAAGAATGAACT
LOC_Os09g14880
Os.53978.1.S1_at--1095--5471Chr09:8878491..8878515 (25 bp)
GAACTAGTGGCTTGTCTTGGAGTGA
LOC_Os09g14880
Target Sequence 
AACATGCATTATATCTTCAGACCATGCTTAACAATGATCGTGAGAAAATGTCAGAGGTACAGCTCCGCCTCTCGAAAGAG
CAGCTTGAATTGGCCAGAATAAAGCAGGATGAAGCGAATGTAAAGAAAGAAACAGCACTTTACATGAAATACACAGAGCT
GTTGCTGGCAGACACTTCAAGGTTTGATGAGTTTCAGAAGGCAGAGTATGAGAAAGCATTGAAGCATATAGGAGGGATAC
TATTTAGCAAGGATGTCAATTAGTGCCCTCGCAACAATTTATCTTAAGCATGCATTTCTGTGCAAATATCATCCCAACAA
CTAGTAATAGATCGTTTTGTTCTACTTAACTGAAGGATTGCCTCCACTAACACCTGTGTCTGTGTTAGGTTTAATCATCT
CTAGCAAGATTTAACAGAGATTAGTACTGATTGAATCGTGGAAGTGATGGATCAATATGTATTTAGCTATTAGTGGCTTA
TCTAATTTGCAACTGACCTGTGCAAAGAATGAACTAGTGGCTTGTCTTGGAGTGA

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.53978.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis