Browse Element(s) Details


Os.5342.2.S1_x_at

Description gb:AK058986.1
DB_XREF= gi:32969004
TID=Os.5342.2
CNT=3
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.5342 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) putative transcription factor VIP2 protein (B1051E10.31), mRNA
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-020-E07, full insert sequence.
FL= gb:AK058986.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g2488010/11VIP2 protein, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g24840OsAffx.23376.2.S1_at11/111+13969219..13971192mariner transposase, putative
LOC_Os01g24840OsAffx.23376.1.S1_at11/111+13969219..13971192mariner transposase, putative
LOC_Os01g24849NANA1+13978325..13979411NA
LOC_Os01g24860NANA1+13981312..13986602retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g24870NANA1+13987521..13989505hypothetical protein
LOC_Os01g24880Os.5342.2.S1_x_at10/111+13994996..14001917VIP2 protein, putative, expressed
LOC_Os01g24890NANA1+14003761..14006639transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g24900OsAffx.23377.2.S1_at11/111+14008548..14009041hypothetical protein
LOC_Os01g24910OsAffx.7362.1.S1_x_at1/111+14009272..14011314transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g24920OsAffx.23378.1.S1_at5/111+14013845..14021269WGR domain containing protein, expressed
LOC_Os01g24930OsAffx.11196.1.S1_s_at11/111+14025570..14026564hypothetical protein
LOC_Os01g24930OsAffx.11196.2.S1_at3/111+14025570..14026564hypothetical protein
LOC_Os01g24930OsAffx.11196.1.S1_at1/111+14025570..14026564hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0003677molecular_functionDNA binding
GO:0005515molecular_functionprotein binding
GO:0008270molecular_functionzinc ion binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5342.2.S1_x_at--400--2571Chr01:14001354..14001378 (25 bp)
AACTGGCCCTAATTCAATGGAGACG
LOC_Os01g24880
Os.5342.2.S1_x_at--891--6351Chr01:14001382..14001406 (25 bp)
GATGCCGGAGGCAACCAGTTCTATG
LOC_Os01g24880
Os.5342.2.S1_x_at--11--9551Chr01:14001401..14001425 (25 bp)
TCTATGCCTGGGAGAGGGACCGCTT
LOC_Os01g24880
Os.5342.2.S1_x_at--246--871Chr01:14001491..14001515 (25 bp)
ATGGCGTGACGGATCATTCAGCTGC
LOC_Os01g24880
Os.5342.2.S1_x_at--1068--3671Chr01:14001529..14001553 (25 bp)
CTATTTGGTCAATGGATCGGCGCCG
LOC_Os01g24880
Os.5342.2.S1_x_at--534--5811Chr01:14001642..14001666 (25 bp)
GACCGTCGCCTGAACCAACAAAGTT
LOC_Os01g24880
Os.5342.2.S1_x_at--202--5951NONE
GAGAAAACCCCTGTTTGGCTGTAAG
NONE
Os.5342.2.S1_x_at--284--5371Chr01:14001717..14001741 (25 bp)
GAAGACACCGGTTGTATGTCGTCCT
LOC_Os01g24880
Os.5342.2.S1_x_at--395--771Chr01:14001732..14001756 (25 bp)
ATGTCGTCCTGTGTTTGCGTGGTAA
LOC_Os01g24880
Os.5342.2.S1_x_at--773--9131Chr01:14001747..14001771 (25 bp)
TGCGTGGTAATTAGACTCCCGAGAC
LOC_Os01g24880
Os.5342.2.S1_x_at--588--5211Chr01:14001861..14001885 (25 bp)
GAATTCGGTTCGGTGAAGCATCATA
LOC_Os01g24880
Target Sequence 
AACTGGCCCTAATTCAATGGAGACGGAGGATGCCGGAGGCAACCAGTTCTATGCCTGGGAGAGGGACCGCTTCGCCCCTT
ACCCGCTAATGCCCGTAGATTCTGAAGCAAACTGGTGGGGCAGCACGCCGCAATCCCATGGCGTGACGGATCATTCAGCT
GCCCCCGGTAGGAGGCTATTTGGTCAATGGATCGGCGCCGGGAGGTCGCCACCGCCGCCTCCACCGCCACCAGCGGACAA
CTCGTCGTACCGACAGATGCACATCCCTCGGATGTAGCTTAGCCCCCCGACCGTCGCCTGAACCAACAAAGTTAAATATA
AGAACCTGGAGAAAACCCCTGTTTGGCTGTAAGAAAGTAGGGTGAAGACACCGGTTGTATGTCGTCCTGTGTTTGCGTGG
TAATTAGACTCCCGAGACAAATATGCAGGCAGGTGAAAAAAGAACACCAAGAACGCAAACCCAAACTACCCAAGGAGGAA
AAACGTTTCAGCTTGGGTGTTTATGTGGAATTCGGTTCGGTGAAGCATCATA

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.5342.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis