Browse Element(s) Details


Os.28346.1.S1_x_at

Description gb:NM_185193.1
DB_XREF= gi:34897471
GEN=OSJNBb0096M04.110
TID=Os.28346.1
CNT=9
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.28346 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) putative gag-pol polyprotein (OSJNBb0096M04.110), mRNA.
PROD=putative gag-pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g1584011/11retrotransposon protein, putative, unclassified, expressed
LOC_Os09g286807/11retrotransposon protein, putative, unclassified
LOC_Os09g286706/11hypothetical protein
LOC_Os03g016846/11retrotransposon protein, putative, unclassified
LOC_Os06g413405/11retrotransposon protein, putative, unclassified
LOC_Os04g575705/11retrotransposon protein, putative, unclassified
LOC_Os01g038304/11retrotransposon protein, putative, unclassified
LOC_Os11g069904/11expressed protein
LOC_Os08g306704/11retrotransposon protein, putative, unclassified
LOC_Os08g307102/11retrotransposon protein, putative, unclassified
LOC_Os12g025701/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g15780OsAffx.29861.1.S1_at11/119+9637865..9641416expressed protein
LOC_Os09g15790Os.53227.1.S1_at11/119+9642565..9645171Ras-related protein Rab11B, putative, expressed
LOC_Os09g15790Os.57489.1.S1_x_at1/119+9642565..9645171Ras-related protein Rab11B, putative, expressed
LOC_Os09g15800OsAffx.29862.1.S1_at11/119+9646716..9649346pentatricopeptide, putative
LOC_Os09g15810Os.7067.1.S1_at11/119+9651208..9653971Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD-binding domain containing protein, expressed
LOC_Os09g15820Os.9769.1.S1_at11/119+9654423..9658103Aldose 1-epimerase family protein, expressed
LOC_Os09g15830OsAffx.29863.1.S1_at10/119+9660772..9661911hypothetical protein
LOC_Os09g15840Os.57109.1.S1_at11/119+9662733..9676305retrotransposon protein, putative, unclassified, expressed
LOC_Os09g15840Os.28346.1.S1_x_at11/119+9662733..9676305retrotransposon protein, putative, unclassified, expressed
LOC_Os09g15840Os.28346.1.S1_at10/119+9662733..9676305retrotransposon protein, putative, unclassified, expressed
LOC_Os09g15840OsAffx.17950.1.S1_at8/119+9662733..9676305retrotransposon protein, putative, unclassified, expressed
LOC_Os09g15840Os.24761.1.A1_at3/119+9662733..9676305retrotransposon protein, putative, unclassified, expressed
LOC_Os09g15840Os.28346.5.S1_x_at1/119+9662733..9676305retrotransposon protein, putative, unclassified, expressed
LOC_Os09g15850OsAffx.6289.1.S1_at11/119+9680879..9688737Leucine Rich Repeat family protein, expressed
LOC_Os09g15850Os.9606.1.A1_s_at11/119+9680879..9688737Leucine Rich Repeat family protein, expressed
LOC_Os09g15850Os.9606.2.S1_s_at11/119+9680879..9688737Leucine Rich Repeat family protein, expressed
LOC_Os09g15860OsAffx.17723.1.S1_at11/119+9692656..9694069expressed protein
LOC_Os09g15870NANA9+9697514..9697813hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.28346.1.S1_x_at--391--61133Chr08:18777381..18777405 (25 bp)
GAGTGTGTTTGTCCGAGAGATTTTA
LOC_Os08g30670
Os.28346.1.S1_x_at--428--31527Chr07:1147292..1147316 (25 bp)
AATTCCGCTTGCAATTTGAACTTTG
NONE
Os.28346.1.S1_x_at--294--107124Chr08:18777555..18777579 (25 bp)
TTGCGATGATGAGTTTTGCTCTCTC
LOC_Os08g30670
Os.28346.1.S1_x_at--1010--96726Chr08:18777467..18777641 (25 bp)
TCACCTCTCTTCTAGTTTCGGGAAT
LOC_Os08g30670
Os.28346.1.S1_x_at--22--105931Chr08:18777658..18777682 (25 bp)
TTCTCTCTTCTTTTCTAGATCCGGC
LOC_Os08g30670
Os.28346.1.S1_x_at--160--4912Chr09:17442993..17443017 (25 bp)
GCTTCTCTAATAGCTGCGGTTCTAG
LOC_Os09g28680
Os.28346.1.S1_x_at--1096--22727Chr08:18768975..18768999 (25 bp)
AAATCCGGCTTGATGAGTATTTTCG
NONE
Os.28346.1.S1_x_at--752--1612Chr03:403671..403878 (25 bp)
AGCTGTTCTTGGTCTTTCATTGAGT
LOC_Os03g01684
Os.28346.1.S1_x_at--709--8591Chr09:9669577..9669601 (25 bp)
TGGTCTTTCATTGAGTCCAAACATG
LOC_Os09g15840
Os.28346.1.S1_x_at--911--7251Chr09:9669563..9669587 (25 bp)
GTCCAAACATGGAACCTTGCCACTT
LOC_Os09g15840
Os.28346.1.S1_x_at--704--4311Chr09:9669549..9669573 (25 bp)
CCTTGCCACTTGATGTAACTGCGGA
LOC_Os09g15840
Target Sequence 
GAGTGTGTTTGTCCGAGAGATTTTAAGTTTGTGTTAATGTTCCTCTGAAGGTGTATGTTTGCTCCTAGTTGAGCGGTTAT
TTTGCATCACCTATNAATGAAATGATTTGAAGGATTTCNTTTTTGCCTTGTCCATTTAAATTCCGCAATTTAAATTCCGC
TTGCAATTTGAACTTTGCGATGATGAGTTTTGCTCTCTCTTNCTCACCTCTCTTCTAGTTTCGGGAATTCNTTTTCTCTT
CCTCCTCTAGTNTCGGGAATTCCTTNTCTCTTCTTTTTCTCTCTTCTTTTCTAGATCCGGCTTCTCTAATAGCTGCGGTT
CTAGTAAGGATTTTGAGAAATCCGGCTTGATGAGTATTTTCGGGGGTAAGATTTGAATTGCTATATTCACCCCCCCCCCC
CCTCTATAGCTGTTCTTGGTCTTTCATTGAGTCCAAACATGGAACCTTGCCACTTGATGTAACTGCGGA

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.28346.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis