Browse Element(s) Details


Os.6438.2.S1_x_at

Description gb:NM_189139.1
DB_XREF= gi:34905361
GEN=OJ1126_G08.9
TID=Os.6438.2
CNT=3
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.6438 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) OJ1126_G08.9 (OJ1126_G08.9), mRNA
DEF=Oryza sativa (japonica cultivar-group) OJ1126_G08.9 (OJ1126_G08.9), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g3122011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g31160OsAffx.1198.1.S1_at11/111+17364579..17369123retrotransposon protein, putative, unclassified
LOC_Os01g31160Os.38751.1.A1_at2/111+17364579..17369123retrotransposon protein, putative, unclassified
LOC_Os01g31160OsAffx.28492.1.S1_at1/111+17364579..17369123retrotransposon protein, putative, unclassified
LOC_Os01g31160Os.49802.1.S2_at1/111+17364579..17369123retrotransposon protein, putative, unclassified
LOC_Os01g31160OsAffx.30280.1.S1_x_at1/111+17364579..17369123retrotransposon protein, putative, unclassified
LOC_Os01g31170NANA1+17370713..17371162hypothetical protein
LOC_Os01g31180NANA1+17372372..17374191retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g31190NANA1+17381361..17385224retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31200NANA1+17386130..17388895retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31210OsAffx.23460.1.S1_at8/111+17391926..17392381hypothetical protein
LOC_Os01g31220Os.6438.1.S1_a_at11/111+17393803..17397678expressed protein
LOC_Os01g31220Os.6438.2.S1_x_at11/111+17393803..17397678expressed protein
LOC_Os01g31230OsAffx.22633.1.S1_at1/111+17404852..17408465retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31240Os.24648.1.A1_at1/111+17409517..17413264retrotransposon, putative, centromere-specific
LOC_Os01g31250NANA1+17418308..17419549retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31260NANA1+17420345..17423747retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.6438.2.S1_x_at--595--6112Chr02:19933280..19933299 (20 bp)
GAGTGCTTGTTTTCTTTGATGATCA
NONE
Os.6438.2.S1_x_at--845--8291Chr01:17395756..17395780 (25 bp)
GGCTTCAATAGTTGGATTCCGACAT
LOC_Os01g31220
Os.6438.2.S1_x_at--147--8371Chr01:17395698..17395722 (25 bp)
GGCGATCATTACTCCTTAAGACAGA
LOC_Os01g31220
Os.6438.2.S1_x_at--329--5931Chr01:17394347..17394371 (25 bp)
GAGCATTTCCAGAACAGCAGACTTG
LOC_Os01g31220
Os.6438.2.S1_x_at--243--5051Chr01:17394331..17394355 (25 bp)
GCAGACTTGTTGAATCCGTGTTGGA
LOC_Os01g31220
Os.6438.2.S1_x_at--283--8771Chr01:17394304..17394328 (25 bp)
TGTATTGGGAGCTACCTCCAGTTGC
LOC_Os01g31220
Os.6438.2.S1_x_at--834--2391Chr01:17394259..17394283 (25 bp)
AAACAAGATATGACCCAGCCCGTGC
LOC_Os01g31220
Os.6438.2.S1_x_at--811--7331Chr01:17394238..17394262 (25 bp)
GTGCATCTGATCCTATCATCGAAGA
LOC_Os01g31220
Os.6438.2.S1_x_at--677--6251Chr01:17394215..17394239 (25 bp)
GATGGTCGTTTTGGCATGTTTCAAC
LOC_Os01g31220
Os.6438.2.S1_x_at--1102--4611Chr01:17394179..17394203 (25 bp)
GCGAGATTGGATGCCTCAGTTTTCA
LOC_Os01g31220
Os.6438.2.S1_x_at--1150--6791Chr01:17394161..17394185 (25 bp)
GTTTTCAATGGCTACACTCAGATGT
LOC_Os01g31220
Target Sequence 
GAGTGCTTGTTTTCTTTGATGATCACCAAAGTNNNNNNNNNNNNNTAAAACAGGCTTCAATAGTTGGATTCCGACATATC
ATATTTGAGGACAATTATGACACTGGTACAGGCGATCATTACTCCTTAAGACAGATCTGCGATCAGGAACACATCAGAGG
TGGTGGACATAGCTGCTTTTGGGATAGTGACGAAGCAAGATTAAGGTCGAGACGAAAGAGTTTTTGGGAGAAANCTGTGG
NAAACANANTGAGCNTTNTGGNAAANGATGATGCATGGTNGGGGAGTTAGAGGTTATATGCGTGACAATTTCAACCATAG
CAACAAAGCCATCTCATACAAAGAGCATTTCCAGAACAGCAGACTTGTTGAATCCGTGTTGGATTTGTATTGGGAGCTAC
CTCCAGTTGCTGGTCCATCCTTAACCCACCAAACAAGATATGACCCAGCCCGTGCATCTGATCCTATCATCGAAGATGGT
CGTTTTGGCATGTTTCAACGAATTGGTCTAGCGAGATTGGATGCCTCAGTTTTCAATGGCTACACTCAGATGT

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.6438.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis