Browse Element(s) Details


OsAffx.20820.1.S1_at

Description gb:NM_194486.1
DB_XREF= gi:37530331
TID=OsAffx.20820.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative non-LTR retroelement reverse transcriptase (OSJNBa0046L02.15), mRNA.
PROD=putative non-LTR retroelement reversetranscriptase
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0123011/11retrotransposon protein, putative, unclassified
LOC_Os04g088001/11Zinc knuckle family protein, expressed
LOC_Os12g347601/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g01180OsAffx.20631.1.S1_x_at2/1110+112811..113521retrotransposon protein, putative, unclassified
LOC_Os10g01180Os.33601.3.S1_x_at1/1110+112811..113521retrotransposon protein, putative, unclassified
LOC_Os10g01200OsAffx.447.1.S1_at11/1110+116265..117206retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g01210NANA10+118261..119952retrotransposon protein, putative, unclassified
LOC_Os10g01230OsAffx.20820.1.S1_at11/1110+137336..138703retrotransposon protein, putative, unclassified
LOC_Os10g01240OsAffx.20819.1.S1_at11/1110+144062..144352VQ motif family protein
LOC_Os10g01250NANA10+149922..150228hypothetical protein
LOC_Os10g01260OsAffx.8585.1.S1_at11/1110+153666..155744retrotransposon, putative, centromere-specific
LOC_Os10g01260Os.52447.1.S1_x_at1/1110+153666..155744retrotransposon, putative, centromere-specific
LOC_Os10g01274OsAffx.30220.2.S1_x_at11/1110+159237..168736retrotransposon protein, putative, unclassified
LOC_Os10g01274OsAffx.30220.1.S1_at11/1110+159237..168736retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20820.1.S1_at--504--591Chr10:137823..138159 (25 bp)
ATGCCATTGACAAGTTGGTAGCCAA
LOC_Os10g01230
OsAffx.20820.1.S1_at--380--4351Chr10:138199..138223 (25 bp)
CCAGACTGCTTTTATCCCAAGGAGA
LOC_Os10g01230
OsAffx.20820.1.S1_at--1029--5291Chr10:138233..138257 (25 bp)
GAAGGCTGTGTTATTCTCCATGAGG
LOC_Os10g01230
OsAffx.20820.1.S1_at--118--10592Chr10:138246..138270 (25 bp)
TTCTCCATGAGGTGCTCCATGAGTT
LOC_Os10g01230
OsAffx.20820.1.S1_at--916--6811Chr10:138457..138481 (25 bp)
GTTTTTCAAGACCTATAGAGGCCTT
LOC_Os10g01230
OsAffx.20820.1.S1_at--702--3751Chr10:138497..138521 (25 bp)
CTCTCTCCCTTGTTGTTTAACTTAG
LOC_Os10g01230
OsAffx.20820.1.S1_at--413--811Chr10:138564..138588 (25 bp)
ATGGTTTGTTGACTGGTCTGGTTCC
LOC_Os10g01230
OsAffx.20820.1.S1_at--865--7171Chr10:138579..138603 (25 bp)
GTCTGGTTCCTGATATTTTCGCTGG
LOC_Os10g01230
OsAffx.20820.1.S1_at--838--8213Chr12:21068741..21068761 (21 bp)
GGAATAACTCACCTTCAATATGCTG
LOC_Os12g34760
OsAffx.20820.1.S1_at--791--671Chr10:138630..138654 (25 bp)
ATGACACCGTCATCTTTATTCCTTA
LOC_Os10g01230
OsAffx.20820.1.S1_at--261--10411Chr10:138645..138669 (25 bp)
TTATTCCTTATGACTCCTCCCAAAT
LOC_Os10g01230
Target Sequence 
ATGCCATTGACAAGTTGGTAGCCAATAGGCTAACTGAGGTGATTCATACAATCATCTCCCCCACCCAGACTGCTTTTATC
CCAAGGAGATTTATCCTGGAAGGCTGTGTTATTCTCCATGAGGTGCTCCATGAGTTAAAAATTAAGAAACAAAAAGGGAT
CATCATGAGGATAGACTTCGAGAAGGCCTATGATAGAGTTAGTTGGAGCTTTTTGTTTGAGGTTCTTCAAAAGAAAAAAT
TCCCTGAGATTTGGATAGATTGGATCAAGGCTTGTGATATAGGAGGTAGGGTTTGTGTCAATACCAGTGGAGAGAGAAGT
GAGTTTTTCAAGACCTATAGAGGCCTTAGGCAGGGTGACCCCCTCTCTCCCTTGTTGTTTAACTTAGTGAGTGATGTTTT
GGCTGCTATTTTTGATTCTGCTAAGAAAAATGGTTTGTTGACTGGTCTGGTTCCTGATATTTTCGCTGGAGGAATAACTC
ACCTTCAATATGCTGATGACACCGTCATCTTTATTCCTTATGACTCCTCCCAAAT

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 OsAffx.20820.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis