Browse Element(s) Details


OsAffx.1412.2.S1_at

Description gb:NM_193254.1
DB_XREF= gi:34913591
GEN=P0014E04.10
TID=OsAffx.1412.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) similar to retrotransposon (P0014E04.10), mRNA.
PROD=similar to retrotransposon
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g3538011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g039502/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g044301/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g077201/11retrotransposon protein, putative, unclassified, expressed
LOC_Os09g223501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g072501/11retrotransposon protein, putative, unclassified
LOC_Os04g052601/11retrotransposon protein, putative, unclassified
LOC_Os08g273001/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g35320NANA1+19874147..19874975hypothetical protein
LOC_Os01g35330Os.46604.1.S1_s_at11/111+19876035..19876948expressed protein
LOC_Os01g35330Os.46431.1.S1_at10/111+19876035..19876948expressed protein
LOC_Os01g35340OsAffx.21272.1.S1_x_at11/111+19878442..19878675hypothetical protein
LOC_Os01g35360NANA1+19887181..19888530retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g35370Os.40360.1.S1_x_at1/111+19894933..19895958hypothetical protein
LOC_Os01g35380OsAffx.1412.2.S1_at11/111+19897053..19899511retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g35390NANA1+19899835..19903567retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g35400Os.24831.1.S1_x_at10/111+19910859..19913575retrotransposon protein, putative, unclassified
LOC_Os01g35400Os.24831.3.S1_x_at9/111+19910859..19913575retrotransposon protein, putative, unclassified
LOC_Os01g35400Os.24831.3.S1_s_at5/111+19910859..19913575retrotransposon protein, putative, unclassified
LOC_Os01g35400Os.53142.1.S1_at2/111+19910859..19913575retrotransposon protein, putative, unclassified
LOC_Os01g35400Os.24831.4.S1_x_at2/111+19910859..19913575retrotransposon protein, putative, unclassified
LOC_Os01g35410NANA1+19915874..19918193hypothetical protein
LOC_Os01g35420Os.56216.1.S1_at1/111+19920756..19925104retrotransposon protein, putative, unclassified

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.1412.2.S1_at--245--3911Chr01:19899095..19899119 (25 bp)
CTGGTCAGTAAGATCAAAAGACTTG
LOC_Os01g35380
OsAffx.1412.2.S1_at--687--3451Chr01:19899127..19899151 (25 bp)
CAGGGATGAAGTCGCAAATGCCACT
LOC_Os01g35380
OsAffx.1412.2.S1_at--1042--8991Chr01:19899133..19899157 (25 bp)
TGAAGTCGCAAATGCCACTACCCCA
LOC_Os01g35380
OsAffx.1412.2.S1_at--934--9953Chr01:19899151..19899175 (25 bp)
TACCCCACTTGTCCAGGCAATGTTC
LOC_Os01g35380
OsAffx.1412.2.S1_at--929--8693Chr11:3934509..3934531 (23 bp)
TGTCCAGGCAATGTTCTTCAATAAC
LOC_Os11g07720
OsAffx.1412.2.S1_at--677--7791Chr01:19899188..19899212 (25 bp)
GGTCCGAGTAGATTTGACGCGACTG
LOC_Os01g35380
OsAffx.1412.2.S1_at--275--10271Chr01:19899200..19899224 (25 bp)
TTTGACGCGACTGAAGTTTTTGACA
LOC_Os01g35380
OsAffx.1412.2.S1_at--769--7551Chr01:19899282..19899306 (25 bp)
GGGCGAGTTTAGCATTAGCAATGAC
LOC_Os01g35380
OsAffx.1412.2.S1_at--420--6994Chr09:3558441..3558465 (25 bp)
GTACCCGAAGATTGATATTAATGCC
LOC_Os09g07250
OsAffx.1412.2.S1_at--185--231Chr01:19899330..19899354 (25 bp)
ATATTAATGCCGTCAATGGTTTTGC
LOC_Os01g35380
OsAffx.1412.2.S1_at--309--7074Chr09:13507748..13507768 (21 bp)
GTCAATGGTTTTGCGGACGGGACAA
LOC_Os09g22350
Target Sequence 
CTGGTCAGTAAGATCAAAAGACTTGAAGGAGCCAGGGATGAAGTCGCAAATGCCACTACCCCACTTGTCCAGGCAATGTT
CTTCAATAACAATGGTCCGAGTAGATTTGACGCGACTGAAGTTTTTGACAAGCTGAGAGTCGCTCCGGACACCTACTTCA
AGAACATTAAAGAAGCCGGAAGTATGGGGGCGAGTTTAGCATTAGCAATGACCAAATCCCTGTACCCGAAGATTGATATT
AATGCCGTCAATGGTTTTGCGGACGGGACAA

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.1412.2.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis