Browse Element(s) Details


Os.28346.3.S1_x_at

Description gb:NM_184218.1
DB_XREF= gi:34895527
TID=Os.28346.3
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.28346 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) Putative Zea mays retrotransposon Opie-2 (OSJNBa0009C08.22), mRNA
DEF=Oryza sativa (japonica cultivar-group) unnamed protein product (Gene), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g0383011/11retrotransposon protein, putative, unclassified
LOC_Os03g6312410/11retrotransposon protein, putative, unclassified
LOC_Os03g0168410/11retrotransposon protein, putative, unclassified
LOC_Os03g1326010/11retrotransposon protein, putative, unclassified
LOC_Os05g2706010/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os04g5757010/11retrotransposon protein, putative, unclassified
LOC_Os02g204709/11retrotransposon protein, putative, unclassified
LOC_Os06g413409/11retrotransposon protein, putative, unclassified
LOC_Os05g306108/11retrotransposon protein, putative, unclassified
LOC_Os08g306707/11retrotransposon protein, putative, unclassified
LOC_Os07g351007/11retrotransposon protein, putative, unclassified
LOC_Os09g286806/11retrotransposon protein, putative, unclassified
LOC_Os12g246301/11hypothetical protein
LOC_Os02g140591/1160S ribosomal protein L11-1, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g03780NANA1+1582793..1588757retrotransposon protein, putative, unclassified, expressed
LOC_Os01g03790Os.28943.1.S1_x_at3/111+1589377..1589781retrotransposon protein, putative, unclassified
LOC_Os01g03800NANA1+1590426..1592961transposon protein, putative, Mutator sub-class
LOC_Os01g03810Os.51198.1.S1_at11/111+1594288..1595312expressed protein
LOC_Os01g03820NANA1+1596496..1601412C2 domain containing protein, expressed
LOC_Os01g03830Os.28346.3.S1_x_at11/111+1605786..1614707retrotransposon protein, putative, unclassified
LOC_Os01g03830OsAffx.17950.1.S1_at7/111+1605786..1614707retrotransposon protein, putative, unclassified
LOC_Os01g03830Os.28346.1.S1_x_at4/111+1605786..1614707retrotransposon protein, putative, unclassified
LOC_Os01g03830Os.28346.5.S1_x_at1/111+1605786..1614707retrotransposon protein, putative, unclassified
LOC_Os01g03840Os.38390.1.S1_at3/111+1621961..1623376expressed protein
LOC_Os01g03850OsAffx.10584.1.S1_at7/111+1628808..1629835hypothetical protein
LOC_Os01g03850Os.52655.1.S1_at1/111+1628808..1629835hypothetical protein
LOC_Os01g03860NANA1+1634909..1635838hypothetical protein
LOC_Os01g03870Os.20597.1.S1_at11/111+1638036..1640953expressed protein

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Gene Ontology Classification
GO idTypeName
GO:0006412biological_processprotein biosynthesis
GO:0007049biological_processcell cycle
GO:0010102biological_processlateral root morphogenesis
GO:0005842cellular_componentcytosolic large ribosomal subunit (sensu Eukaryota)
GO:0003735molecular_functionstructural constituent of ribosome
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.28346.3.S1_x_at--1101--4058Chr05:15659730..15659754 (25 bp)
CGAGGTTTCAGGCTTCTCCAAGAAC
LOC_Os05g27060
Os.28346.3.S1_x_at--485--27512Chr08:18774228..18774252 (25 bp)
AAGAACATCACATCGCCAAGCAGTC
LOC_Os08g30670
Os.28346.3.S1_x_at--380--4973Chr01:1611000..1611024 (25 bp)
GCATCTTTCGCTACATCAAGTCTAC
LOC_Os01g03830
Os.28346.3.S1_x_at--529--99312Chr08:18774289..18774313 (25 bp)
TACGGTATTTGGTACTCCTGCTCTT
LOC_Os08g30670
Os.28346.3.S1_x_at--368--41911Chr08:18774317..18774341 (25 bp)
CCCTTTCAGTTCGAGCTTTTTCAGA
LOC_Os08g30670
Os.28346.3.S1_x_at--492--85111Chr08:18774384..18774407 (24 bp)
TGGCACTTGTCATTTTCTTGGCACG
LOC_Os08g30670
Os.28346.3.S1_x_at--146--70712Chr05:15659952..15659976 (25 bp)
GTAAGCAGTCTTCTGTTGCTCAATC
LOC_Os05g27060
Os.28346.3.S1_x_at--716--62113Chr08:18774463..18774487 (25 bp)
GAGGCTGAGTACGTAGCTGCTGCTA
LOC_Os08g30670
Os.28346.3.S1_x_at--964--1511Chr08:18774530..18774554 (25 bp)
ATTATGGTCTGTCTTTCTCTGGTGT
LOC_Os08g30670
Os.28346.3.S1_x_at--462--77512Chr05:15660071..15660095 (25 bp)
GGTGTTCCTCTGCTTTGTGATAATA
LOC_Os05g27060
Os.28346.3.S1_x_at--814--88913Chr08:18774630..18774654 (25 bp)
TGAGATACGGTACCACTTTCTCCGA
LOC_Os08g30670
Target Sequence 
CGAGGTTTCAGGCTTCTCCAAGAACATCACATCGCCAAGCAGTCAAGCGCATCTTTCGCTACATCAAGTCTACACTTGAG
TACGGTATTTGGTACTCCTGCTCTTCTGCCCTTTCAGTTCGAGCTTTTTCAGATGCTGATTTTGCTGGGTGTAAGATTGA
TCGCAAAAGTACTTCTGGCACTTGTCATTTTCTTGGCACGTCTTTGGTCTCTTGGTCCTCTCGTAAGCAGTCTTCTGTTG
CTCAATCAACAGCTGAGGCTGAGTACGTAGCTGCTGCTAGTGCATGTAGTCAAGTTCTTTGGATGATTTCAACTCTGAAA
GATTATGGTCTGTCTTTCTCTGGTGTTCCTCTGCTTTGTGATAATACAAGTGCAATCAATATTGCAAAAAATCCAGTTCA
ACACTCCAGGACCAAGCACATTGAGATACGGTACCACTTTCTCCGA

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.28346.3.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis