Browse Element(s) Details


OsAffx.9818.1.S1_x_at

Description gb:NM_188975.1
DB_XREF= gi:34905033
GEN=P0456B03.25
TID=OsAffx.9818.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) P0456B03.25 (P0456B03.25), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g586301/11DNA mismatch repair protein MSH3, putative, expressed
LOC_Os07g478601/11tRNA synthetases class I family protein, expressed
LOC_Os03g315941/11jmjC domain containing protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g58610Os.51336.1.S1_at11/114+34633903..34635823retrotransposon protein, putative, unclassified, expressed
LOC_Os04g58620Os.5720.1.S1_s_at11/114+34641351..34650524K+ efflux antiporter, putative, expressed
LOC_Os04g58620Os.5720.1.S2_at11/114+34641351..34650524K+ efflux antiporter, putative, expressed
LOC_Os04g58620Os.51073.1.S1_at11/114+34641351..34650524K+ efflux antiporter, putative, expressed
LOC_Os04g58630Os.27360.1.A1_at10/114+34650932..34658107DNA mismatch repair protein MSH3, putative, expressed
LOC_Os04g58630OsAffx.9818.1.S1_x_at1/114+34650932..34658107DNA mismatch repair protein MSH3, putative, expressed
LOC_Os04g58640Os.12933.1.S1_at11/114+34658756..34662553nudix type motif 21, putative, expressed
LOC_Os04g58650NANA4+34665348..34666184retrotransposon protein, putative, unclassified
LOC_Os04g58660NANA4+34666530..34668162retrotransposon protein, putative, unclassified
LOC_Os04g58669NANA4+34671809..34672070NA
LOC_Os04g58680NANA4+34672753..34673130Histone-like transcription factor and archaeal histone family protein, expressed
LOC_Os04g58690Os.54739.1.S1_at11/114+34673898..34679728Adenosine-deaminase domain containing protein, expressed
LOC_Os04g58690Os.53243.1.S1_x_at11/114+34673898..34679728Adenosine-deaminase domain containing protein, expressed
LOC_Os04g58700Os.10107.1.S1_at11/114+34682562..34688298leucine-rich repeat transmembrane protein kinase, putative, expressed
LOC_Os04g58700Os.10107.2.S1_x_at10/114+34682562..34688298leucine-rich repeat transmembrane protein kinase, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006298biological_processmismatch repair
GO:0006418biological_processtRNA aminoacylation for protein translation
GO:0003684molecular_functiondamaged DNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0004812molecular_functionaminoacyl-tRNA ligase activity
GO:0005524molecular_functionATP binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.9818.1.S1_x_at--597--9031Chr08:20376471..20376495 (25 bp)
TGCACCGGCCACTCTAGCGGCAATG
NONE
OsAffx.9818.1.S1_x_at--557--1631Chr08:20376456..20376480 (25 bp)
AGCGGCAATGCCTCCGTGCCTCGCA
NONE
OsAffx.9818.1.S1_x_at--35--1751Chr08:20376432..20376456 (25 bp)
ACCTTCTCAGCCAGCGGTGCCTTCA
NONE
OsAffx.9818.1.S1_x_at--451--1611Chr08:20376420..20376444 (25 bp)
AGCGGTGCCTTCACCATCGTCGAGC
NONE
OsAffx.9818.1.S1_x_at--669--3371Chr08:20376409..20376433 (25 bp)
CACCATCGTCGAGCCACGGGAGGAG
NONE
OsAffx.9818.1.S1_x_at--1062--3531Chr08:20376406..20376430 (25 bp)
CATCGTCGAGCCACGGGAGGAGTCC
NONE
OsAffx.9818.1.S1_x_at--1026--1691Chr08:20376398..20376422 (25 bp)
AGCCACGGGAGGAGTCCATGGACAT
NONE
OsAffx.9818.1.S1_x_at--176--4411Chr08:20376397..20376421 (25 bp)
GCCACGGGAGGAGTCCATGGACATC
NONE
OsAffx.9818.1.S1_x_at--199--3351Chr08:20376395..20376419 (25 bp)
CACGGGAGGAGTCCATGGACATCAT
NONE
OsAffx.9818.1.S1_x_at--317--991Chr08:20376389..20376413 (25 bp)
AGGAGTCCATGGACATCATCTCCAC
NONE
OsAffx.9818.1.S1_x_at--794--105712Chr11:14027151..14027337 (25 bp)
TTGTTCGGTTAATCCCCATGAGGGA
NONE
Target Sequence 
TGCACCGGCCACTCTAGCGGCAATGCCTCCGTGCCTCGCACCTTCTCAGCCAGCGGTGCCTTCACCATCGTCGAGCCACG
GGAGGAGTCCATGGACATCATCTCCACCCTCGGGCCTTGTTCGGTTAATCCCCATGAGGGA

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.9818.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis