Browse Element(s) Details


OsAffx.5057.1.S1_s_at

Description tigr:9634.m03722
TID=OsAffx.5057.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=poly(A) binding protein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os06g3898011/11polyadenylate binding protein, types 1, 2, 3, 4 family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os06g38950Os.52171.1.S1_at11/116+23104231..23112077ABC transporter family protein, putative, expressed
LOC_Os06g38960Os.9684.1.S1_at11/116+23118062..23121172expressed protein
LOC_Os06g38970OsAffx.5056.1.S1_x_at11/116+23130664..23135276Leucine Rich Repeat family protein, expressed
LOC_Os06g38970Os.12667.1.S1_at11/116+23130664..23135276Leucine Rich Repeat family protein, expressed
LOC_Os06g38970Os.13590.1.S1_x_at1/116+23130664..23135276Leucine Rich Repeat family protein, expressed
LOC_Os06g38980Os.51905.1.S1_at11/116+23135427..23139967polyadenylate binding protein, types 1, 2, 3, 4 family protein, expressed
LOC_Os06g38980OsAffx.5057.1.S1_s_at11/116+23135427..23139967polyadenylate binding protein, types 1, 2, 3, 4 family protein, expressed
LOC_Os06g38990Os.51310.1.S1_at11/116+23143732..23147848leucine-rich repeat transmembrane protein kinase, putative, expressed
LOC_Os06g38990Os.55583.1.S1_x_at1/116+23143732..23147848leucine-rich repeat transmembrane protein kinase, putative, expressed
LOC_Os06g38990OsAffx.4190.1.S1_x_at1/116+23143732..23147848leucine-rich repeat transmembrane protein kinase, putative, expressed
LOC_Os06g39000OsAffx.15829.1.S1_at11/116+23155212..23155634hypothetical protein
LOC_Os06g39010OsAffx.15830.1.S1_at11/116+23156564..23157463hypothetical protein
LOC_Os06g39020NANA6+23164710..23169275retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
GO:0000289biological_processpoly(A) tail shortening
GO:0006397biological_processmRNA processing
GO:0006413biological_processtranslational initiation
GO:0003723molecular_functionRNA binding
GO:0003743molecular_functiontranslation initiation factor activity
GO:0008143molecular_functionpoly(A) binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.5057.1.S1_s_at--563--9311Chr06:23135889..23135913 (25 bp)
TCCCGCTCGTCGAACAGCTGGTGAA
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--248--2151Chr06:23135876..23135900 (25 bp)
ACAGCTGGTGAACGAGAAAGCTTAT
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--1162--3651Chr06:23135856..23135880 (25 bp)
CTTATAAGGTGACTGGGATGCTGCT
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--916--3891Chr06:23135844..23135868 (25 bp)
CTGGGATGCTGCTTGAGCTGGACAA
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--569--5891Chr06:23135830..23135854 (25 bp)
GAGCTGGACAAGACTGAAGTTCTGA
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--1102--8991Chr06:23135816..23135840 (25 bp)
TGAAGTTCTGAACCTCGTAGAGTCT
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--615--5431Chr06:23135807..23135831 (25 bp)
GAACCTCGTAGAGTCTCCAGATACT
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--1--10051Chr06:23135799..23135823 (25 bp)
TAGAGTCTCCAGATACTCTCCGGGA
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--606--311Chr06:23135787..23135811 (25 bp)
ATACTCTCCGGGACAAGGTTGCTGA
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--225--2231Chr06:23135775..23135799 (25 bp)
ACAAGGTTGCTGAGGCCATGAAGGT
LOC_Os06g38980
OsAffx.5057.1.S1_s_at--349--7311Chr06:23135752..23135776 (25 bp)
GTGCTGGAGTTGGAGGCTACCGCCA
LOC_Os06g38980
Target Sequence 
TCCCGCTCGTCGAACAGCTGGTGAACGAGAAAGCTTATAAGGTGACTGGGATGCTGCTTGAGCTGGACAAGACTGAAGTT
CTGAACCTCGTAGAGTCTCCAGATACTCTCCGGGACAAGGTTGCTGAGGCCATGAAGGTGCTGGAGTTGGAGGCTACCGC
CA

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.5057.1.S1_s_at     

Putative homologies in rice

Putative homologies in arabidopsis