Browse Element(s) Details


Os.49642.1.S1_x_at

Description gb:AK063624.1
DB_XREF= gi:32973642
TID=Os.49642.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.49642 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-118-E10, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-118-E10, full insert sequence.
FL= gb:AK063624.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g461007/11Cupin family protein, expressed
LOC_Os06g040204/11linker histone H1 and H5 family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g46080Os.41695.5.S1_x_at10/113+26011884..26016524Transposable element protein, putative, MuDR
LOC_Os03g46080Os.41695.3.S1_x_at10/113+26011884..26016524Transposable element protein, putative, MuDR
LOC_Os03g46080Os.41695.2.S1_x_at9/113+26011884..26016524Transposable element protein, putative, MuDR
LOC_Os03g46080Os.41695.4.S1_x_at1/113+26011884..26016524Transposable element protein, putative, MuDR
LOC_Os03g46090Os.22486.1.A1_at5/113+26019165..26022817Endonuclease/Exonuclease/phosphatase family protein, expressed
LOC_Os03g46100Os.5503.2.S1_at11/113+26024686..26027067Cupin family protein, expressed
LOC_Os03g46100Os.5503.1.S1_at11/113+26024686..26027067Cupin family protein, expressed
LOC_Os03g46100Os.49642.1.S1_x_at7/113+26024686..26027067Cupin family protein, expressed
LOC_Os03g46110OsAffx.13376.1.S1_s_at11/113+26027787..26030746expressed protein
LOC_Os03g46120OsAffx.25572.1.S1_at11/113+26032915..26035358F-box domain containing protein
LOC_Os03g46130NANA3+26037960..26038328retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g46134OsAffx.16205.1.S1_at1/113+26043990..26046315hypothetical protein
LOC_Os03g46134Os.31535.1.A1_at1/113+26043990..26046315hypothetical protein
LOC_Os03g46140OsAffx.25573.1.S1_at11/113+26048006..26049494F-box domain containing protein
LOC_Os03g46150Os.50969.1.S1_x_at11/113+26050181..26051131Protease inhibitor/seed storage/LTP family protein, expressed
LOC_Os03g46150Os.50969.1.S1_at11/113+26050181..26051131Protease inhibitor/seed storage/LTP family protein, expressed
LOC_Os03g46150Os.50796.1.S1_at11/113+26050181..26051131Protease inhibitor/seed storage/LTP family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006334biological_processnucleosome assembly
GO:0000786cellular_componentnucleosome
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0045735molecular_functionnutrient reservoir activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.49642.1.S1_x_at--250--1191Chr06:1642735..1642759 (25 bp)
AGTAGTAGCACTCTGGTATTCTCCC
LOC_Os06g04020
Os.49642.1.S1_x_at--380--8591Chr06:1642722..1642746 (25 bp)
TGGTATTCTCCCATGGCGACTGCGA
LOC_Os06g04020
Os.49642.1.S1_x_at--746--5511Chr06:1642448..1642472 (25 bp)
GAAAATCAATTGATCGATCGATGCA
LOC_Os06g04020
Os.49642.1.S1_x_at--863--3511Chr06:1642418..1642442 (25 bp)
CATGTATTGGGTTGATTCGAGTTTG
LOC_Os06g04020
Os.49642.1.S1_x_at--730--9831Chr03:26026173..26026197 (25 bp)
TAAACTCTAATCAACTCTCTACGCA
LOC_Os03g46100
Os.49642.1.S1_x_at--381--371Chr03:26026126..26026150 (25 bp)
ATCAATGTTGCAGTTCTTCTTCGCC
LOC_Os03g46100
Os.49642.1.S1_x_at--470--7991Chr03:26026094..26026118 (25 bp)
GGAGGAACCCGGAGTCATTCTTGTC
LOC_Os03g46100
Os.49642.1.S1_x_at--129--1171Chr03:26026082..26026106 (25 bp)
AGTCATTCTTGTCGAGCTTCAGCAA
LOC_Os03g46100
Os.49642.1.S1_x_at--374--3431Chr03:26026050..26026074 (25 bp)
CAGAGAGCTGCTTTCAAGGCACGTA
LOC_Os03g46100
Os.49642.1.S1_x_at--722--8231Chr03:26026033..26026057 (25 bp)
GGCACGTAGTAGCATTAATCCGATC
LOC_Os03g46100
Os.49642.1.S1_x_at--903--551Chr03:26026016..26026040 (25 bp)
ATCCGATCAATCTGTCACTTAAGTA
LOC_Os03g46100
Target Sequence 
AGTAGTAGCACTCTGGTATTCTCCCATGGCGACTGCGACCGAGGAGGTTGCCGCTGCGGCTGCTGCCNCCGGCGANGGCG
CCGNCGCCGCCGCCGCCAGCGGTGGTNAGAGGAGGCGAAGGAGGCTTTGGAGGCACCGAAGCCNGAGGAGGCGCCGAAGG
CTGANGGAGGGGGAGGAGAAGAAGGCNGANGGTGAGAAGGAGAAGGAGAAGGCGAAGAAGGAGAGGAAACCGAGGGCGAG
GAAGCCCCGATCGGCGGGGCCACACCACCCGCCCTACTTCGAGGTGAGGGGAAAATCAATTGATCGATCGATGCAGTGAT
CATGTATTGGGTTGATTCGAGTTTGTGAGAATTCATAAACTCTAATCAACTCTCTACGCACAAGTAATCAATCAATCAAT
CAATCAATGTTGCAGTTCTTCTTCGCCCCAGGCGGGAGGAACCCGGAGTCATTCTTGTCGAGCTTCAGCAAGGGCGTGCA
GAGAGCTGCTTTCAAGGCACGTAGTAGCATTAATCCGATCAATCTGTCACTTAAGTA

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.49642.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis