Browse Element(s) Details


Os.5878.1.S1_at

Description gb:AK105754.1
DB_XREF= gi:32990963
TID=Os.5878.1
CNT=17
FEA=FLmRNA
TIER=FL
STK=3
UG=Os.5878 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-202-C07, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-202-C07, full insert sequence.
FL= gb:AK100410.1 gb:AK105754.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g2135010/11cig3, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g21280Os.52609.1.S1_at2/118+12693399..12697190retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g21280OsAffx.22947.2.S1_x_at1/118+12693399..12697190retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g21290Os.46715.1.S1_x_at2/118+12700347..12700895retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g21290Os.46715.1.S1_at1/118+12700347..12700895retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g21300Os.33601.3.S1_x_at3/118+12701822..12703610retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g21300Os.49936.2.A1_at1/118+12701822..12703610retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g21320OsAffx.5886.1.S1_at11/118+12704826..12705059hypothetical protein
LOC_Os08g21330Os.49203.1.S1_at11/118+12705751..12714144formamidopyrimidine-DNA glycosylase family protein, expressed
LOC_Os08g21350Os.5878.1.S1_at10/118+12719182..12727478cig3, putative, expressed
LOC_Os08g21350OsAffx.25413.1.S1_at1/118+12719182..12727478cig3, putative, expressed
LOC_Os08g21360Os.45173.1.S1_x_at3/118+12731477..12739402retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g21370NANA8+12744014..12746488retrotransposon protein, putative, unclassified
LOC_Os08g21380Os.52238.1.S1_at2/118+12749117..12755076retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5878.1.S1_at--288--10111Chr08:12719696..12719720 (25 bp)
TATGGCAGGTCTTCCAGGCTATGAA
LOC_Os08g21350
Os.5878.1.S1_at--792--8851Chr08:12719659..12719683 (25 bp)
TGATCCCTTCCATTGTCTGATGAGA
LOC_Os08g21350
Os.5878.1.S1_at--127--6071Chr08:12719623..12719647 (25 bp)
GAGTTCTTTAACTTCTCAGACCCAG
LOC_Os08g21350
Os.5878.1.S1_at--788--9591Chr08:12719608..12719632 (25 bp)
TCAGACCCAGGGTTTTGACCTAATG
LOC_Os08g21350
Os.5878.1.S1_at--458--9751Chr08:12719581..12719605 (25 bp)
TAATCTGCAATTCTGCATACGGGCA
LOC_Os08g21350
Os.5878.1.S1_at--409--2851Chr08:12719536..12719560 (25 bp)
AAGTCCGTGGATTGGTTGCTGCCGT
LOC_Os08g21350
Os.5878.1.S1_at--433--10711Chr08:12719521..12719545 (25 bp)
TTGCTGCCGTGGAAACTGAAGCCTT
LOC_Os08g21350
Os.5878.1.S1_at--528--10411Chr08:12719471..12719495 (25 bp)
TTTTGGTGGTACTCTTGTCGATCAG
LOC_Os08g21350
Os.5878.1.S1_at--960--9611Chr08:12719417..12719441 (25 bp)
TCATGCTTGTGGATGTTCTTTCCAG
LOC_Os08g21350
Os.5878.1.S1_at--696--5451Chr08:12719200..12719224 (25 bp)
GAACGTCTTGCTTGTTTTAATACCG
LOC_Os08g21350
Os.5878.1.S1_at--878--9751NONE
TAATACCGAATGTCGTGCCTTGTTT
NONE
Target Sequence 
TATGGCAGGTCTTCCAGGCTATGAAGGGGATTTTAGATGATCCCTTCCATTGTCTGATGAGAATATGTACGGAGAGTTCT
TTAACTTCTCAGACCCAGGGTTTTGACCTAATGAGTAATCTGCAATTCTGCATACGGGCAGTTACTGAGATGCGTCAGGT
AAGTCCGTGGATTGGTTGCTGCCGTGGAAACTGAAGCCTTCACGAACGAATGGATGAAATTCTGTTTTTGGTGGTACTCT
TGTCGATCAGAGCTATGAATAAAGTTGGTGATGACTNCTTCATGCTTGTGGATGTTCTTTCCAGCTATATTGTTCANTGT
GGTACATTGTTACTGCAAAGTCATTAAATACACTTAAGGATAAATCATTATGCAGTTGCTATCATATGATGTGCTATGGT
AGCAACGTTTCGTGTTGGTATTTGTGTGTGAACCAAATGTATTATCAGCTTGATGAGCTGATCTTTTAAAACGTATTGAC
TTGTAATATGTTGTACNNGAACGTCTTGCTTGTTTTAATACCGAATGTCGTGCCTTGTTT

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.5878.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis