Browse Element(s) Details


OsAffx.20517.2.S1_x_at

Description gb:NM_195793.1
DB_XREF= gi:37532945
TID=OsAffx.20517.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNBa0027A14.28), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g123107/11retrotransposon protein, putative, unclassified
LOC_Os12g083301/11retrotransposon protein, putative, unclassified
LOC_Os03g372101/11retrotransposon protein, putative, unclassified
LOC_Os07g116701/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g12270Os.45954.1.S1_at11/113+6432197..6434699mannitol dehydrogenase, putative, expressed
LOC_Os03g12280NANA3+6435583..6436190hypothetical protein
LOC_Os03g12290Os.12728.1.S1_at11/113+6437026..6441842Glutamine synthetase root isozyme 5, putative, expressed
LOC_Os03g12300Os.11686.2.S1_x_at11/113+6447427..6455524HEAT repeat family protein, expressed
LOC_Os03g12300Os.11686.1.S1_at11/113+6447427..6455524HEAT repeat family protein, expressed
LOC_Os03g12300Os.52150.1.S1_at2/113+6447427..6455524HEAT repeat family protein, expressed
LOC_Os03g12300Os.52150.1.S1_x_at1/113+6447427..6455524HEAT repeat family protein, expressed
LOC_Os03g12310OsAffx.20517.1.S1_at11/113+6459539..6466629retrotransposon protein, putative, unclassified
LOC_Os03g12310OsAffx.20517.2.S1_x_at7/113+6459539..6466629retrotransposon protein, putative, unclassified
LOC_Os03g12320Os.38092.1.S1_at11/113+6473023..6478089UDP-3-0-acyl N-acetylglucosamine deacetylase family protein, expressed
LOC_Os03g12330NANA3+6484157..6484597hypothetical protein
LOC_Os03g12340Os.47130.4.A1_x_at5/113+6485933..6486190retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20517.2.S1_x_at--1136--7752Chr10:9223798..9223822 (25 bp)
GGTGATGACACAATTCTCTTGATGG
NONE
OsAffx.20517.2.S1_x_at--37--6092Chr10:9223951..9223975 (25 bp)
GAGTATGTCATGCTTTTTGGGTGTA
NONE
OsAffx.20517.2.S1_x_at--463--7632Chr10:9223981..9224005 (25 bp)
GGGACTTACCCATTTAGATACCTAG
NONE
OsAffx.20517.2.S1_x_at--510--10092Chr10:9224003..9224027 (25 bp)
TAGGAATTCCTATGCACCACAAGAA
NONE
OsAffx.20517.2.S1_x_at--1075--912Chr10:9224116..9224140 (25 bp)
AGGCTTGTGTTGATTAATTCGGTGC
NONE
OsAffx.20517.2.S1_x_at--722--3151Chr10:9224131..9224155 (25 bp)
AATTCGGTGCTGAGTAGCCTAGCCA
NONE
OsAffx.20517.2.S1_x_at--258--1692Chr10:9224146..9224170 (25 bp)
AGCCTAGCCATGTTTATGTTGTCCT
NONE
OsAffx.20517.2.S1_x_at--975--10072Chr10:9224160..9224184 (25 bp)
TATGTTGTCCTTCTTTGAGGTACCT
NONE
OsAffx.20517.2.S1_x_at--970--7831Chr10:9224178..9224202 (25 bp)
GGTACCTAAATGTATCCTCAAGAAG
NONE
OsAffx.20517.2.S1_x_at--1152--3714Chr10:9224211..9224235 (25 bp)
CTACAGGTCTAGATTCTTTTGGCAA
NONE
OsAffx.20517.2.S1_x_at--204--3411Chr10:9224332..9224492 (25 bp)
CAGAACAAACGGCTGATGGAGGTTA
NONE
Target Sequence 
GGTGATGACACAATTCTCTTGATGGAACATGATCTTGATGAAGCAAAAAATCTCAAACTTGTACTTAGTACATTTGAGAA
ACTTGCGGGTTTAAAGATCAATTTTCATAAAAGTGAATTGTTTTTTTATGGCAAGGCAAAAGATGTAGAGAATGAGTATG
TCATGCTTTTTGGGTGTAGATCTGGGACTTACCCATTTAGATACCTAGGAATTCCTATGCACCACAAGAAGCTCTCTAAT
AAGGATTGGCAAATTATCGAGGAGAGGTTCCAATGGATGTTGAGTAGTTGGAAAGGGAAATGTCTCTTAGTAGGAGGAAG
GCTTGTGTTGATTAATTCGGTGCTGAGTAGCCTAGCCATGTTTATGTTGTCCTTCTTTGAGGTACCTAAATGTATCCTCA
AGAAGCTAGACTACTACAGGTCTAGATTCTTTTGGCAAAGTGATGGTCATAAAAGAAAATATAGGTTGGCGAGATGGAGT
GTGATTTGTACACCTAAGGATTGTGGGGGTCTTGGAATACATAATCTAAATGTGCAGAACAAACGGCTGATGGAGGTTA

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 OsAffx.20517.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis