Browse Element(s) Details


Os.40988.1.S1_at

Description gb:NM_193290.1
DB_XREF= gi:34913663
GEN=OSJNBa0047D12.20
TID=Os.40988.1
CNT=2
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.40988 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) OSJNBa0047D12.20 (OSJNBa0047D12.20), mRNA
DEF=Oryza sativa (japonica cultivar-group) OSJNBa0047D12.20 (OSJNBa0047D12.20), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g3598011/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g35930Os.38208.1.S1_at11/111+20211101..20213199hypothetical protein
LOC_Os01g35930OsAffx.21261.1.S1_x_at10/111+20211101..20213199hypothetical protein
LOC_Os01g35930OsAffx.21261.2.S1_at10/111+20211101..20213199hypothetical protein
LOC_Os01g35930OsAffx.21261.1.S1_at9/111+20211101..20213199hypothetical protein
LOC_Os01g35950OsAffx.23526.1.S1_at9/111+20220487..20221594hypothetical protein
LOC_Os01g35960OsAffx.11342.1.S1_at11/111+20223152..20226101hypothetical protein
LOC_Os01g35970Os.52242.1.S1_at3/111+20230034..20233244transposon protein, putative, Mariner sub-class
LOC_Os01g35970OsAffx.2708.1.S1_x_at1/111+20230034..20233244transposon protein, putative, Mariner sub-class
LOC_Os01g35980Os.40988.1.S1_at11/111+20233891..20236248hypothetical protein
LOC_Os01g35990Os.34335.1.S1_x_at6/111+20238088..20241107expressed protein
LOC_Os01g35990Os.34335.1.S1_at4/111+20238088..20241107expressed protein
LOC_Os01g36000NANA1+20249484..20252212retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g36010NANA1+20252462..20254945retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g36020Os.50255.1.S1_at3/111+20255890..20258796retrotransposon protein, putative, unclassified
LOC_Os01g36020Os.46995.1.S1_x_at1/111+20255890..20258796retrotransposon protein, putative, unclassified
LOC_Os01g36030NANA1+20260716..20261489hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.40988.1.S1_at--893--7511Chr01:20236016..20236040 (25 bp)
GTGGAGGCGGTTCAGATGCGGCAAA
LOC_Os01g35980
Os.40988.1.S1_at--307--5652Chr07:15423462..15423746 (25 bp)
GACAGCAGCGGAGGAGCTTGTTTTA
NONE
Os.40988.1.S1_at--478--5211Chr01:20235488..20235512 (25 bp)
GAATAGGGTCTGGAAAAGTTATCAA
LOC_Os01g35980
Os.40988.1.S1_at--251--2331Chr01:20235474..20235498 (25 bp)
AAAGTTATCAATTCAGCGGCACCAA
LOC_Os01g35980
Os.40988.1.S1_at--303--10511Chr01:20235463..20235487 (25 bp)
TTCAGCGGCACCAAACAAGACCGAG
LOC_Os01g35980
Os.40988.1.S1_at--98--2211Chr01:20235449..20235473 (25 bp)
ACAAGACCGAGTTCTTCTGTTCGTG
LOC_Os01g35980
Os.40988.1.S1_at--883--10571Chr01:20235435..20235459 (25 bp)
TTCTGTTCGTGTGCCGGTTGGCACG
LOC_Os01g35980
Os.40988.1.S1_at--605--8251Chr01:20235416..20235440 (25 bp)
GGCACGCTTTCTTTATAGCTCGTTA
LOC_Os01g35980
Os.40988.1.S1_at--528--9991Chr01:20235403..20235425 (23 bp)
TAGCTCGTTACAATATTGTTCAGAC
LOC_Os01g35980
Os.40988.1.S1_at--344--5851Chr01:20234145..20234169 (25 bp)
GACCACAAGGCCCTGTTCGAGAAGT
LOC_Os01g35980
Os.40988.1.S1_at--235--891Chr01:20234138..20234162 (25 bp)
AGGCCCTGTTCGAGAAGTCACTCGT
LOC_Os01g35980
Target Sequence 
GTGGAGGCGGTTCAGATGCGGCAAAGGCATTGGAGGTTTGCAAGGCGGCGGATGTGATGCACAAGGAGGTGGCGGCGCCT
GCGGATCTGATGCAGGAGGGGACAACGGCGGAGGAGGTGGCGGAGCCCGCGGATCTGATGCAGGAGGGGACAGCAGCGGA
GGAGCTTGTTTTAAGCAATGGAATAGGGTCTGGAAAAGTTATCAATTCAGCGGCACCAAACAAGACCGAGTTCTTCTGTT
CGTGTGCCGGTTGGCACGCTTTCTTTATAGCTCGTTACAATATTGTTCAGACAATATTGGAAGATGATAGCGACCACAAG
GCCCTGTTCGAGAAGTCACTCGT

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.40988.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis