Browse Element(s) Details


Os.41248.4.S1_x_at

Description gb:NM_195514.1
DB_XREF= gi:37532387
TID=Os.41248.4
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.41248 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) P0516D04.15 (P0516D04.15), mRNA
DEF=Oryza sativa (japonica cultivar-group) hypothetical protein (OSJNBa0082N11.12), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g176703/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g394003/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g282703/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g207103/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g196703/11F-box domain containing protein
LOC_Os12g324403/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g223363/11Peroxidase family protein, expressed
LOC_Os03g290353/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g129502/11transposon protein, putative, Mutator sub-class
LOC_Os12g270962/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g171202/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g237502/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g076102/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g220901/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g375541/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g226001/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g089901/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g160601/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g260801/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os02g254801/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g355601/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g244401/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g158901/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g258391/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g17630OsAffx.22947.1.S1_x_at1/115+10121633..10128643retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g17630Os.23638.1.A1_x_at1/115+10121633..10128643retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g17640Os.31497.2.S1_x_at1/115+10132756..10135922retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g17650NANA5+10136131..10138813hypothetical protein
LOC_Os05g17660NANA5+10142043..10142821hypothetical protein
LOC_Os05g17670Os.41248.4.S1_x_at3/115+10148013..10151448retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g17680NANA5+10156059..10156616transposon protein, putative, unclassified
LOC_Os05g17690NANA5+10158177..10158699hypothetical protein
LOC_Os05g17700Os.24831.1.S1_x_at11/115+10160339..10163137retrotransposon protein, putative, unclassified
LOC_Os05g17700Os.24831.3.S1_x_at7/115+10160339..10163137retrotransposon protein, putative, unclassified
LOC_Os05g17700Os.53142.1.S1_at3/115+10160339..10163137retrotransposon protein, putative, unclassified
LOC_Os05g17700Os.24831.4.S1_x_at2/115+10160339..10163137retrotransposon protein, putative, unclassified
LOC_Os05g17700Os.24831.3.S1_s_at1/115+10160339..10163137retrotransposon protein, putative, unclassified
LOC_Os05g17710NANA5+10165523..10165873hypothetical protein
LOC_Os05g17720Os.24831.3.S1_s_at10/115+10170316..10173011retrotransposon protein, putative, unclassified
LOC_Os05g17720Os.24831.1.S1_x_at9/115+10170316..10173011retrotransposon protein, putative, unclassified
LOC_Os05g17720Os.24831.3.S1_x_at8/115+10170316..10173011retrotransposon protein, putative, unclassified
LOC_Os05g17720Os.24831.4.S1_x_at2/115+10170316..10173011retrotransposon protein, putative, unclassified
LOC_Os05g17720Os.53142.1.S1_at2/115+10170316..10173011retrotransposon protein, putative, unclassified
LOC_Os05g17720Os.55127.1.S1_at1/115+10170316..10173011retrotransposon protein, putative, unclassified
LOC_Os05g17720Os.23706.1.A1_x_at1/115+10170316..10173011retrotransposon protein, putative, unclassified
LOC_Os05g17730NANA5+10174867..10175373hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0009269biological_processresponse to desiccation
GO:0009409biological_processresponse to cold
GO:0009624biological_processresponse to nematode
GO:0042538biological_processhyperosmotic salinity response
GO:0045449biological_processregulation of transcription
GO:0005783cellular_componentendoplasmic reticulum
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0004601molecular_functionperoxidase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.41248.4.S1_x_at--106--8351Chr10:7549776..7549800 (25 bp)
GGCGGCGCTTGGCACGGGTGGAACG
NONE
Os.41248.4.S1_x_at--592--10711Chr10:7549784..7549808 (25 bp)
TTGGCACGGGTGGAACGGCGGGAGC
NONE
Os.41248.4.S1_x_at--922--41510Chr10:7550205..7550224 (20 bp)
CGCCCGGTCGTTTTGGGACATGACA
NONE
Os.41248.4.S1_x_at--1014--4194Chr10:7550205..7550226 (22 bp)
CCCGGTCGTTTTGGGACATGACAGA
NONE
Os.41248.4.S1_x_at--667--8131Chr10:7550215..7550239 (25 bp)
GGACATGACAGAGGAGAACGCACGA
NONE
Os.41248.4.S1_x_at--1120--3511Chr10:7550218..7550242 (25 bp)
CATGACAGAGGAGAACGCACGAGGC
NONE
Os.41248.4.S1_x_at--575--77913Chr12:11208971..11208995 (25 bp)
GGTCGAGCTGGTGCGATCGACTACT
NONE
Os.41248.4.S1_x_at--718--93790Chr12:14145710..14145734 (25 bp)
TCGACGCGCGCTACTTCGCGAGAGT
NONE
Os.41248.4.S1_x_at--841--403100Chr12:14145718..14145742 (25 bp)
CGCTACTTCGCGAGAGTTCCTTCGA
NONE
Os.41248.4.S1_x_at--958--459119Chr12:14145727..14145750 (24 bp)
GCGAGAGTTCCTTCGACTTCTCAGT
NONE
Os.41248.4.S1_x_at--1116--9237Chr10:7550308..7550332 (25 bp)
TCCTTCGACTTCTCAGTGTCTTCTT
NONE
Target Sequence 
GGCGGCGCTTGGCACGGGTGGAACGGCGGGAGCGGCGGGAGGACGGGGATGACGGGTGGGCCCCACCCGTCAGCGAGGGT
GGCGGGCGGGCCCGCCCGGTCGTTTTGGGACATGACAGAGGAGAACGCACGAGGCGGAGAAGGTCGAGCTGGTGCGATCG
ACTACTTCCTCTACATCGACGCGCGCTACTTCGCGAGAGTTCCTTCGACTTCTCAGTGTCTTCTT

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 Os.41248.4.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis