Browse Element(s) Details


OsAffx.10496.1.S1_at

Description gb:NM_184700.1
DB_XREF= gi:34896489
GEN=OSJNBa0057E11.14
TID=OsAffx.10496.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gypsy-type retrotransposon RIRE2 protein (OSJNBa0057E11.14), mRNA.
PROD=putative gypsy-type retrotransposon RIRE2protein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g3571011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g217904/11retrotransposon protein, putative, unclassified
LOC_Os06g227903/11retrotransposon protein, putative, unclassified
LOC_Os04g148703/11retrotransposon protein, putative, unclassified
LOC_Os11g287902/11retrotransposon protein, putative, unclassified
LOC_Os01g231442/11retrotransposon protein, putative, unclassified
LOC_Os02g352802/11retrotransposon protein, putative, unclassified
LOC_Os08g229002/11retrotransposon protein, putative, unclassified
LOC_Os11g356902/11retrotransposon protein, putative, unclassified
LOC_Os11g261102/11retrotransposon protein, putative, unclassified
LOC_Os12g168201/11retrotransposon protein, putative, unclassified
LOC_Os03g301901/11retrotransposon protein, putative, unclassified
LOC_Os12g247701/11retrotransposon protein, putative, unclassified
LOC_Os12g217701/11retrotransposon protein, putative, unclassified
LOC_Os12g235401/11retrotransposon protein, putative, unclassified
LOC_Os05g285601/11retrotransposon protein, putative, unclassified
LOC_Os11g220201/11retrotransposon protein, putative, unclassified
LOC_Os09g151401/11retrotransposon protein, putative, unclassified
LOC_Os12g169601/11retrotransposon protein, putative, unclassified
LOC_Os02g254401/11retrotransposon protein, putative, unclassified
LOC_Os04g434801/11retrotransposon protein, putative, unclassified
LOC_Os11g230901/11retrotransposon protein, putative, unclassified
LOC_Os07g149701/11retrotransposon protein, putative, unclassified
LOC_Os09g076901/11retrotransposon protein, putative, unclassified
LOC_Os11g460301/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g35670NANA3+19711240..19713776retrotransposon protein, putative, unclassified
LOC_Os03g35690OsAffx.1646.1.S1_x_at1/113+19721635..19724601retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os03g35700OsAffx.22722.1.S1_x_at11/113+19728264..19729481retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35700OsAffx.22722.1.S1_at11/113+19728264..19729481retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35710OsAffx.10496.1.S1_at11/113+19731268..19735740retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35710OsAffx.20628.2.S1_at2/113+19731268..19735740retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35710OsAffx.20628.2.S1_x_at2/113+19731268..19735740retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35710OsAffx.30582.1.S1_s_at2/113+19731268..19735740retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35720OsAffx.1647.1.S1_at11/113+19738530..19741290retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35720OsAffx.29148.1.S1_at2/113+19738530..19741290retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35730NANA3+19749058..19751728hypothetical protein
LOC_Os03g35740OsAffx.22699.1.S1_x_at3/113+19753467..19758173retrotransposon protein, putative, unclassified
LOC_Os03g35740Os.45161.1.A1_x_at1/113+19753467..19758173retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.10496.1.S1_at--752--7891Chr03:19732366..19732390 (25 bp)
GGTTCTTTGGATACAATCAGCTGAG
LOC_Os03g35710
OsAffx.10496.1.S1_at--724--37913Chr12:12246331..12246350 (20 bp)
CTCGCCCACCCATTTTAGTCAAGTG
LOC_Os12g21770
OsAffx.10496.1.S1_at--1063--3231Chr03:19732228..19732248 (21 bp)
CAAGCTACTCACCTCGTAAATAAGT
LOC_Os03g35710
OsAffx.10496.1.S1_at--223--9855Chr11:14441108..14441317 (25 bp)
TAAATAAGTTAGTTCCCCATCTTGG
LOC_Os11g26110
OsAffx.10496.1.S1_at--531--2553Chr11:16187506..16187526 (21 bp)
AACTGAGCGGTTCATCAAAAGCTGA
LOC_Os11g28790
OsAffx.10496.1.S1_at--313--1651Chr03:19731472..19731496 (25 bp)
AGCGAGCTTGGCGTTGGCAATAACC
LOC_Os03g35710
OsAffx.10496.1.S1_at--411--9791Chr03:19731452..19731476 (25 bp)
TAACCAAGTCTTTGTACCCGAAGAT
LOC_Os03g35710
OsAffx.10496.1.S1_at--318--53510Chr11:20426340..20426448 (25 bp)
GAAGATTGACATTGACGCCGTTGAT
LOC_Os11g35690
OsAffx.10496.1.S1_at--669--2992Chr03:19731363..19731387 (25 bp)
AATGACGCGCAAAAAGCTGCCGATA
LOC_Os03g35710
OsAffx.10496.1.S1_at--984--60313Chr12:9644506..9644529 (24 bp)
GAGATTCCAGGACAACGACCTTCGG
LOC_Os12g16820
OsAffx.10496.1.S1_at--49--5851Chr03:19731300..19731324 (25 bp)
GACCTTCGGCCAACTAGATCTAATA
LOC_Os03g35710
Target Sequence 
GGTTCTTTGGATACAATCAGCTGAGGATTCTCGCCCACCCATTTTAGTCAAGTGGTGGGATGACAACATGCAACCTCAGG
GGATTGTGATAAATAAGCAAAAGGAAGACGAGGAAGTATGCCTGCTGAAAAAGGCACTCGGCCAAGCTACTCACCTCGTA
AATAAGTTAGTTCCCCATCTTGGAACCCTTGAGGCCACCAGAAACCAGCTGTACGAAGCTAAGGAGCTTGCCAGGAAAAC
TGAGCATGATCTGAGGGACCGGATCGCCGAGCTTCAAGACTCCAACTTTGAACTGAGCGGTTCATCAAAAGCTGAGAATC
GCTCCGGATATATCAAGAACATCAAGGAAGCTAGAAGTATGGGAGCGAGCTTGGCGTTGGCAATAACCAAGTCTTTGTAC
CCGAAGATTGACATTGACGCCGTTGATGGCTTTGCGGACGGGACGAGCGAAGAAGCCACCCTTGACCTCATCAATGACGC
GCAAAAAGCTGCCGATAAGATAGCCGTTGATGTAGTTGAGAGATTCCAGGACAACGACCTTCGGCCAACTAGATCTAATA

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.10496.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis