Browse Element(s) Details


OsAffx.20947.1.S1_x_at

Description gb:XM_354200.1
DB_XREF= gi:35189833
TID=OsAffx.20947.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group).
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g176102/11hypothetical protein
LOC_Os03g105702/11meiotic asynaptic mutant 1, putative
LOC_Os04g094601/11hypothetical protein
LOC_Os10g244301/11transposon protein, putative, unclassified
LOC_Os04g095101/11hypothetical protein
LOC_Os01g294881/11retrotransposon, putative, centromere-specific
LOC_Os11g225101/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g17574Os.47004.1.S1_at1/114+9579439..9582925retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g17574OsAffx.8215.1.S1_at1/114+9579439..9582925retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g17590NANA4+9588040..9588423hypothetical protein
LOC_Os04g17600OsAffx.2719.1.S1_at4/114+9590885..9592177retrotransposon protein, putative, unclassified
LOC_Os04g17610OsAffx.20947.1.S1_x_at2/114+9605703..9608990hypothetical protein
LOC_Os04g17610Os.36056.1.A1_at1/114+9605703..9608990hypothetical protein
LOC_Os04g17610OsAffx.9652.1.S1_x_at1/114+9605703..9608990hypothetical protein
LOC_Os04g17620NANA4+9617245..9622604retrotransposon, putative, centromere-specific
LOC_Os04g17630OsAffx.8464.1.S1_at1/114+9623823..9625922retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g17640NANA4+9631803..9635943retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
GO:0007129biological_processsynapsis
GO:0007130biological_processsynaptonemal complex formation
GO:0000794cellular_componentcondensed nuclear chromosome
GO:0003677molecular_functionDNA binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20947.1.S1_x_at--548--24352Chr12:26377854..26378109 (25 bp)
AACAAAACGAAAGACTCTATCCATG
NONE
OsAffx.20947.1.S1_x_at--863--5117Chr12:198560..198584 (25 bp)
GCACATCAACCTAAACCGACAACAT
NONE
OsAffx.20947.1.S1_x_at--210--1798Chr11:6562898..6562919 (22 bp)
AACCTAAACCGACAACATATGCCGT
NONE
OsAffx.20947.1.S1_x_at--522--4177Chr11:6562900..6562919 (20 bp)
CCTAAACCGACAACATATGCCGTGT
NONE
OsAffx.20947.1.S1_x_at--710--9833Chr07:7803689..7803713 (25 bp)
TAAACCGACAACATATGCCGTGTCA
NONE
OsAffx.20947.1.S1_x_at--686--2372Chr07:7803690..7803714 (25 bp)
AAACCGACAACATATGCCGTGTCAT
NONE
OsAffx.20947.1.S1_x_at--1151--2612Chr07:7803691..7803715 (25 bp)
AACCGACAACATATGCCGTGTCATA
NONE
OsAffx.20947.1.S1_x_at--587--17910Chr07:7803692..7803716 (25 bp)
ACCGACAACATATGCCGTGTCATAT
NONE
OsAffx.20947.1.S1_x_at--475--42536Chr11:12482583..12482604 (22 bp)
CCGTGTCATATTGTCGGATTCGGCT
NONE
OsAffx.20947.1.S1_x_at--718--7911Chr07:7803721..7803745 (25 bp)
GGATTCGGCTCAACCGGCTAACCTC
NONE
OsAffx.20947.1.S1_x_at--910--6571Chr07:7803722..7803746 (25 bp)
GATTCGGCTCAACCGGCTAACCTCG
NONE
Target Sequence 
AACAAAACGAAAGACTCTATCCATGCGTGGCAATCATCATGAAGCACATCAACCTAAACCGACAACATATGCCGTGTCAT
ATTGTCGGATTCGGCTCAACCGGCTAACCTCG

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.20947.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis