Browse Element(s) Details


OsAffx.31892.5.S1_x_at

Description gb:NM_184849.1
DB_XREF= gi:34896787
GEN=OSJNBa0015G17.18
TID=OsAffx.31892.5
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gag-pol polyprotein (OSJNBa0015G17.18), mRNA.
PROD=putative gag-pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g4036011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g127005/11hypothetical protein
LOC_Os03g304504/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g139303/11hypothetical protein
LOC_Os12g247403/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g169003/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g180803/11retrotransposon, putative, centromere-specific
LOC_Os12g147203/11retrotransposon, putative, centromere-specific
LOC_Os09g116802/11hypothetical protein
LOC_Os09g221002/11hypothetical protein
LOC_Os05g209502/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g244502/11retrotransposon, putative, centromere-specific
LOC_Os11g204002/11retrotransposon protein, putative, unclassified, expressed
LOC_Os02g216202/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g277302/11transposon protein, putative, Mutator sub-class
LOC_Os02g248902/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g240701/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g117941/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g186801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g262801/11hypothetical protein
LOC_Os11g238001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g052101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g200601/11hypothetical protein
LOC_Os07g182701/11retrotransposon, putative, centromere-specific
LOC_Os08g224001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g193501/11retrotransposon protein, putative, unclassified
LOC_Os06g290001/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g40310Os.37314.1.S1_at4/113+22368427..22373259Peptidyl-prolyl cis-trans isomerase E, putative, expressed
LOC_Os03g40320NANA3+22377728..22378347hypothetical protein
LOC_Os03g40330OsAffx.25450.1.S1_at11/113+22378634..22379450Glycosyl hydrolases family 17 protein
LOC_Os03g40360OsAffx.31892.5.S1_x_at11/113+22384847..22386490retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g40360OsAffx.31892.5.S1_at10/113+22384847..22386490retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g40360OsAffx.31892.1.S1_x_at2/113+22384847..22386490retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g40360OsAffx.31892.3.S1_at1/113+22384847..22386490retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g40370Os.12987.1.S1_at2/113+22389484..22392294F-box domain containing protein
LOC_Os03g40380OsAffx.3598.1.S1_x_at2/113+22395769..22396161expressed protein
LOC_Os03g40390Os.54052.1.S1_at11/113+22397941..22399643expressed protein
LOC_Os03g40400OsAffx.13263.1.S1_at11/113+22400439..22402342Protein kinase domain containing protein
LOC_Os03g40410Os.12987.1.S1_at11/113+22406162..22408570expressed protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.31892.5.S1_x_at--319--73521Chr12:14190512..14190536 (25 bp)
GTGCAACAAGTGCTAAGTTCTCAAA
LOC_Os12g24740
OsAffx.31892.5.S1_x_at--308--80713Chr12:14190547..14190571 (25 bp)
GGAGCAATGGCAGTACCACGAATTA
LOC_Os12g24740
OsAffx.31892.5.S1_x_at--377--5931Chr03:22384965..22384989 (25 bp)
GAGCATGTCATGCTATAATTGATAG
LOC_Os03g40360
OsAffx.31892.5.S1_x_at--194--6671Chr03:22384995..22385019 (25 bp)
GTTGCAACAACTCTGTGAGTTCAGA
LOC_Os03g40360
OsAffx.31892.5.S1_x_at--689--2551Chr03:22385671..22386166 (25 bp)
AACTGCTCAAGAGTACCGCATGCAT
LOC_Os03g40360
OsAffx.31892.5.S1_x_at--612--1799Chr11:11789998..11790022 (25 bp)
ACCGCATGCATATAAGTAATTCTCT
LOC_Os11g20400
OsAffx.31892.5.S1_x_at--664--70716Chr12:8427653..8427770 (25 bp)
GTAATTCTCTATCTATGGCCATCAA
LOC_Os12g14720
OsAffx.31892.5.S1_x_at--125--44113Chr12:12643032..12643056 (25 bp)
GCCATCAAGAAATGTTCCTCACCGG
NONE
OsAffx.31892.5.S1_x_at--916--6693Chr07:5332191..5332211 (21 bp)
GTTCCTCACCGGATGTTGTGATACA
NONE
OsAffx.31892.5.S1_x_at--450--1195Chr03:22386234..22386258 (25 bp)
AGTTCAATACGCTCTATGACAAGGT
LOC_Os03g40360
OsAffx.31892.5.S1_x_at--1124--9935Chr03:22386241..22386451 (25 bp)
TACGCTCTATGACAAGGTACTTGCT
LOC_Os03g40360
Target Sequence 
GTGCAACAAGTGCTAAGTTCTCAAATGGAGAAAGCGGAGCAATGGCAGTACCACGAATTATTTGAAACAAAGTTTGTGGT
TAAGGATAGAGCATGTCATGCTATAATTGATAGTGAAAGTTGCAACAACTCTGTGAGTTCAGATTTGGTTGACAAACTTG
AGTTGCCTACACAACCGCATCCTCATCCATATTACATCGAATGGTTCAACTCTTGTGGTAAGTTCAAGGCATCTGAGAAC
AACCAAGGTAATGAGGAGGAAGAGAAGAAAGACGAAGAGCAAAAAGATCTATCCATAGCTCCATGCATGCTTGAGGAATG
TTTAATTGATCAAGCGCCTACAATTTCAGAAGATGAGAAAAAAGGTAAAGATAATGGTGCTACAACTGCTCAAGAGTACC
GCATGCATATAAGTAATTCTCTATCTATGGCCATCAAGAAATGTTCCTCACCGGATGTTGTGATACATAAAGATAAGTTC
AATACGCTCTATGACAAGGTACTTGCT

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.31892.5.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis