Browse Element(s) Details


OsAffx.10426.1.S1_at

Description gb:NM_185011.1
DB_XREF= gi:34897107
GEN=OSJNBa0091J19.18
TID=OsAffx.10426.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative copia-like retrotransposon Hopscotch polyprotein (OSJNBa0091J19.18), mRNA.
PROD=putative copia-like retrotransposon Hopscotchpolyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g5699011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g372903/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g56960Os.7686.1.S1_at11/113+32379821..32382915pentatricopeptide, putative, expressed
LOC_Os03g56970Os.2803.1.S1_a_at1/113+32383301..32387843actin-related protein 7, putative, expressed
LOC_Os03g56974Os.57386.1.S1_at6/113+32395806..32396621hypothetical protein
LOC_Os03g56980NANA3+32402194..32402910transposon protein, putative, unclassified
LOC_Os03g56990OsAffx.10426.1.S1_at11/113+32403911..32408032retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g57000OsAffx.25735.1.S1_x_at11/113+32409119..32411140hypothetical protein
LOC_Os03g57000OsAffx.25735.2.S1_x_at7/113+32409119..32411140hypothetical protein
LOC_Os03g57010NANA3+32412705..32413133hypothetical protein
LOC_Os03g57020NANA3+32424108..32424651hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.10426.1.S1_at--207--1431Chr03:32404933..32404957 (25 bp)
AGAACTGTTCTATCCTTAGTAGCTT
LOC_Os03g56990
OsAffx.10426.1.S1_at--571--9591Chr03:32404614..32404638 (25 bp)
TCATTGTGTCTAGCTCTTCCGAAAA
LOC_Os03g56990
OsAffx.10426.1.S1_at--776--7931Chr03:32404541..32404565 (25 bp)
GGATTTGGGAGATCTTCACTTCTTC
LOC_Os03g56990
OsAffx.10426.1.S1_at--553--6412Chr06:22013037..22013061 (25 bp)
GATCTTCACTTCTTCCTAGGAATTG
LOC_Os06g37290
OsAffx.10426.1.S1_at--638--6251Chr03:32404489..32404513 (25 bp)
GATGGGCTAGTGCTAACACAGGAAA
LOC_Os03g56990
OsAffx.10426.1.S1_at--825--5512Chr06:22013100..22013124 (25 bp)
GAAAAGTATGCCTCAGATGTCCTGA
LOC_Os06g37290
OsAffx.10426.1.S1_at--15--1211Chr03:32404415..32404439 (25 bp)
AGTTAATACACCTCTGTCCATCTCT
LOC_Os03g56990
OsAffx.10426.1.S1_at--485--5911Chr03:32404368..32404392 (25 bp)
GAGCTCTCCTTGGTCCCAATGATAG
LOC_Os03g56990
OsAffx.10426.1.S1_at--926--711Chr03:32404350..32404374 (25 bp)
ATGATAGCACTCAGTACCGCAGCAT
LOC_Os03g56990
OsAffx.10426.1.S1_at--143--1191Chr03:32404338..32404362 (25 bp)
AGTACCGCAGCATAGTTGGAGCATT
LOC_Os03g56990
OsAffx.10426.1.S1_at--928--2632Chr06:22013508..22013532 (25 bp)
AACCTTGTATCTTGGAGTGCACGAA
LOC_Os06g37290
Target Sequence 
AGAACTGTTCTATCCTTAGTAGCTTCTAAAGATACATCTCTGTTTTTCTATGATAAGAATGGAGTTACTATGTTTATGCT
TGTATATGTTGATGACATCATTGTGTCTAGCTCTTCCGAAAAGGCCACCTCAGCTCTTCTGCAGGATTTGAATCAGGAGT
TTGCACTGAAGGATTTGGGAGATCTTCACTTCTTCCTAGGAATTGAGGTTAAAAAGGTAAATGATGGGCTAGTGCTAACA
CAGGAAAAGTATGCCTCAGATGTCCTGAGAAGGGTAGGTATGAGTGACTGTAAACCAGTTAATACACCTCTGTCCATCTC
TGAAAAGTTGTCAAGTCAAGGGGGAGCTCTCCTTGGTCCCAATGATAGCACTCAGTACCGCAGCATAGTTGGAGCATTGC
AGTATTTGACATTGACAAGACCGGATATATCATTTTCAGTAAACAAGGACCCAACCTTGTATCTTGGAGTGCACGAA

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.10426.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis