Browse Element(s) Details


Os.5860.1.S1_at

Description gb:AK103779.1
DB_XREF= gi:32988988
TID=Os.5860.1
CNT=4
FEA=FLmRNA
TIER=FL
STK=0
UG=Os.5860 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033145C17, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033145C17, full insert sequence.
FL= gb:AK103779.1 gb:AK060029.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g0431011/11basic helix-loop-helix, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g04270Os.25215.1.A1_at11/113+1935970..1938874Leucine Rich Repeat family protein, expressed
LOC_Os03g04290Os.35344.3.S1_x_at10/113+1942665..1946274Transposable element protein, putative, MuDR
LOC_Os03g04290Os.35344.18.S1_x_at9/113+1942665..1946274Transposable element protein, putative, MuDR
LOC_Os03g04290OsAffx.22940.2.S1_s_at8/113+1942665..1946274Transposable element protein, putative, MuDR
LOC_Os03g04290OsAffx.22940.3.S1_x_at6/113+1942665..1946274Transposable element protein, putative, MuDR
LOC_Os03g04290OsAffx.22940.5.S1_x_at3/113+1942665..1946274Transposable element protein, putative, MuDR
LOC_Os03g04290OsAffx.22940.1.S1_s_at2/113+1942665..1946274Transposable element protein, putative, MuDR
LOC_Os03g04300Os.26758.1.A1_a_at11/113+1949407..1958621Ankyrin repeat protein, chloroplast precursor, putative, expressed
LOC_Os03g04310Os.5860.1.S1_at11/113+1962636..1964778basic helix-loop-helix, putative, expressed
LOC_Os03g04320Os.53344.1.S1_at10/113+1969707..1975130hypothetical protein
LOC_Os03g04330OsAffx.24961.1.S1_at11/113+1976054..1976536hypothetical protein
LOC_Os03g04340Os.6433.1.S1_at11/113+1982232..198409524-methylenesterol C-methyltransferase 2, putative, expressed
LOC_Os03g04350OsAffx.24962.1.S1_at11/113+1987355..1987722hypothetical protein
LOC_Os03g04350Os.25910.1.S1_s_at1/113+1987355..1987722hypothetical protein
LOC_Os03g04350OsAffx.16321.1.S1_x_at1/113+1987355..1987722hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0009409biological_processresponse to cold
GO:0045449biological_processregulation of transcription
GO:0045941biological_processpositive regulation of transcription
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0016563molecular_functiontranscriptional activator activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5860.1.S1_at--420--7971Chr03:1963403..1963427 (25 bp)
GGATCGAGATATGCTGCCCGGCGAA
LOC_Os03g04310
Os.5860.1.S1_at--677--7191Chr03:1963314..1963338 (25 bp)
GTCGTGAGCTGCTTCAGTGACTTTG
LOC_Os03g04310
Os.5860.1.S1_at--319--9051Chr03:1963290..1963310 (21 bp)
TGCAGGCCTCCTGCTTACAAGAGGA
LOC_Os03g04310
Os.5860.1.S1_at--339--8231Chr03:1963048..1963072 (25 bp)
GGCAAGTTGTCAGCACCGACGAGAT
LOC_Os03g04310
Os.5860.1.S1_at--201--3711Chr03:1962996..1963020 (25 bp)
CTATGGCGGAAGGTGTCTGTAGCTA
LOC_Os03g04310
Os.5860.1.S1_at--416--9851Chr03:1962963..1962987 (25 bp)
TACAATCCATTGAACGCTGAGCACT
LOC_Os03g04310
Os.5860.1.S1_at--138--2611Chr03:1962951..1962975 (25 bp)
AACGCTGAGCACTGTGAGCAGGTAC
LOC_Os03g04310
Os.5860.1.S1_at--106--251Chr03:1962869..1962893 (25 bp)
ATATGCACTTCGCTCCAGGAATTAT
LOC_Os03g04310
Os.5860.1.S1_at--434--6071Chr03:1962823..1962847 (25 bp)
GAGTTCATATTCATCAGCAGTGGTA
LOC_Os03g04310
Os.5860.1.S1_at--728--11Chr03:1962805..1962829 (25 bp)
AGTGGTAGTACCTCGTTTCTGAACA
LOC_Os03g04310
Os.5860.1.S1_at--1026--4951Chr03:1962646..1962670 (25 bp)
GCATAAGTACTGCTATTGCTTCTTT
LOC_Os03g04310
Target Sequence 
GGATCGAGATATGCTGCCCGGCGAACCCCGGCGTGCTGCTGTCGACGGTGAGCGCGCTGGAGGTGCTGGGGCTAGAGATC
GAGCAGTGCGTCGTGAGCTGCTTCAGTGACTTTGNCATGCAGGCCTCCTGCTTACAAGAGGACGGGAAGAGGCAAGTTGT
CAGCACCGACGAGATCAAGCAGACATTGTTCAGGAGCGCAGGCTATGGCGGAAGGTGTCTGTAGCTAGCTAGCTATACAA
TCCATTGAACGCTGAGCACTGTGAGCAGGTACAGGTTGCATATATATGATCTTCATCATCCATGATATAGGAGTAATAGC
TATACATGCATATGCACTTCGCTCCAGGAATTATAGTAGATCGAGTACCATTTATGAGTTCATATTCATCAGCAGTGGTA
GTACCTCGTTTCTGAACACACCAGAGAGCAAATTAAAGATTTGCTCAAGTATTGTAAGCTTTGCATTTGTGAATCGGTAT
GGGAACCGGCCGTGTGATTTGTCGAACATTGGATTTGAATTAAACGCCAAGGTACCAATTGTTTGTACACTTGCATAAGT
ACTGCTATTGCTTCTTT

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.5860.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis