Browse Element(s) Details


OsAffx.3940.1.S1_at

Description tigr:9632.m02753
TID=OsAffx.3940.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=hypothetical protein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g2912011/11hypothetical protein
LOC_Os02g178101/11retrotransposon protein, putative, unclassified
LOC_Os09g142101/11retrotransposon protein, putative, unclassified
LOC_Os03g248001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g230301/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g29090OsAffx.26224.1.S1_s_at11/114+17071286..17075741plant-specific FAD-dependent oxidoreductase family protein, expressed
LOC_Os04g29090OsAffx.26224.2.S1_x_at5/114+17071286..17075741plant-specific FAD-dependent oxidoreductase family protein, expressed
LOC_Os04g29100Os.38751.1.A1_at2/114+17081649..17085028hypothetical protein
LOC_Os04g29100OsAffx.8469.1.S1_x_at1/114+17081649..17085028hypothetical protein
LOC_Os04g29100OsAffx.30338.2.S1_x_at1/114+17081649..17085028hypothetical protein
LOC_Os04g29110OsAffx.26223.1.S1_at11/114+17088606..17089410hypothetical protein
LOC_Os04g29120OsAffx.3940.1.S1_x_at11/114+17092602..17094370hypothetical protein
LOC_Os04g29120OsAffx.3940.1.S1_at11/114+17092602..17094370hypothetical protein
LOC_Os04g29120OsAffx.5752.1.S1_x_at1/114+17092602..17094370hypothetical protein
LOC_Os04g29130NANA4+17095439..17095879retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g29140OsAffx.20387.1.S1_x_at1/114+17096369..17098044transposon protein, putative, unclassified
LOC_Os04g29150NANA4+17098608..17098976retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g29160NANA4+17101764..17104439retrotransposon protein, putative, unclassified
LOC_Os04g29170Os.47983.1.A1_at1/114+17105979..17106675retrotransposon protein, putative, unclassified
LOC_Os04g29180NANA4+17109810..17111876retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g29190Os.38751.1.A1_at3/114+17114505..17121751retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g29190OsAffx.8469.1.S1_x_at1/114+17114505..17121751retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g29190OsAffx.8847.1.S1_x_at1/114+17114505..17121751retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g29190OsAffx.27810.1.S1_x_at1/114+17114505..17121751retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g29190OsAffx.8338.1.S1_x_at1/114+17114505..17121751retrotransposon protein, putative, Ty3-gypsy subclass

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.3940.1.S1_at--176--3531Chr04:17093643..17093667 (25 bp)
CATCGCTGAAAGAGGGTGTCGCACA
LOC_Os04g29120
OsAffx.3940.1.S1_at--922--6131Chr04:17093654..17093678 (25 bp)
GAGGGTGTCGCACAGGAGGCATCCA
LOC_Os04g29120
OsAffx.3940.1.S1_at--121--4291Chr04:17093876..17093900 (25 bp)
CCTCCACGACGACAGAAGTTGGTTA
LOC_Os04g29120
OsAffx.3940.1.S1_at--469--1851Chr04:17093881..17093905 (25 bp)
ACGACGACAGAAGTTGGTTACGCTA
LOC_Os04g29120
OsAffx.3940.1.S1_at--558--2111Chr04:17093887..17093911 (25 bp)
ACAGAAGTTGGTTACGCTAGGCGAG
LOC_Os04g29120
OsAffx.3940.1.S1_at--121--811Chr04:17094024..17094048 (25 bp)
ATGGGTCTGGTGAGACCTCCAGTGC
LOC_Os04g29120
OsAffx.3940.1.S1_at--740--6211Chr04:17094098..17094122 (25 bp)
GAGGCGACGCCCCATGGCCTATCTG
LOC_Os04g29120
OsAffx.3940.1.S1_at--715--8451Chr04:17094112..17094136 (25 bp)
TGGCCTATCTGGTGATCTTGGGCCT
LOC_Os04g29120
OsAffx.3940.1.S1_at--488--10151Chr04:17094117..17094141 (25 bp)
TATCTGGTGATCTTGGGCCTGTTCG
LOC_Os04g29120
OsAffx.3940.1.S1_at--31--4571Chr04:17094210..17094234 (25 bp)
GCGCTCGCGGGATAAGTCGCGATAT
LOC_Os04g29120
OsAffx.3940.1.S1_at--836--2018Chr11:4975561..4975581 (21 bp)
ACTCAGCTCGAAGGCGTCGGCCTGC
NONE
Target Sequence 
CATCGCTGAAAGAGGGTGTCGCACAGGAGGCATCCAACGCGGCCGCTGCTGCTGCTGCCGCGACTAGCGGGAGCCGCCCC
CCGAGGAGGGGAAGGAAGTTCACCTCCGTACTCGGCAGTCGCTGGAAGGCGTCCTCCCCCACGGCCTCGGACGTGTCTCC
GCCACCTCCACGACGACAGAAGTTGGTTACGCTAGGCGAGAAGTGGGCGCGGGCGAAGGCGGCGCAGGATGGGTCTGGTG
AGACCTCCAGTGCGTCTCCTACAGCTGCCTCCACTGACGTCGTGGTTGCCCCACGAAGTCGGGAGGCGACGCCCCATGGC
CTATCTGGTGATCTTGGGCCTGTTCGCGGCCCGCCTGCCGATGTCCTCAGCTGGGGGGAGCTCCAAGTCGGGATGGGGCA
CCTCCTCGAAGCTGGCGCTCGCGGGATAAGTCGCGATATTGCCGAGGCGAGGACAGTGGCGGCGTCGGCCTGTACTCAGC
TCGAAGGCGTCGGCCTGC

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.3940.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis