Browse Element(s) Details


OsAffx.20812.1.S1_at

Description gb:NM_194536.1
DB_XREF= gi:37530431
TID=OsAffx.20812.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNBa0015O22.2), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0186011/11retrotransposon protein, putative, LINE subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g01830OsAffx.8570.1.S1_at10/1110+520105..522173hypothetical protein
LOC_Os10g01840OsAffx.18079.1.S1_at11/1110+525039..526779hypothetical protein
LOC_Os10g01850Os.19099.1.S1_x_at11/1110+535554..542282retrotransposon, putative, centromere-specific
LOC_Os10g01850OsAffx.30486.1.S1_at1/1110+535554..542282retrotransposon, putative, centromere-specific
LOC_Os10g01850Os.49373.1.S1_at1/1110+535554..542282retrotransposon, putative, centromere-specific
LOC_Os10g01860OsAffx.20812.1.S1_at11/1110+544493..545748retrotransposon protein, putative, LINE subclass
LOC_Os10g01870OsAffx.18080.1.S1_at11/1110+546822..548871hypothetical protein
LOC_Os10g01880NANA10+551558..553967hypothetical protein
LOC_Os10g01890OsAffx.435.1.S1_at11/1110+554759..558166retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g01890OsAffx.19377.1.S1_at1/1110+554759..558166retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g01900OsAffx.20810.1.S1_at11/1110+558728..559919retrotransposon protein, putative, LINE subclass
LOC_Os10g01910OsAffx.20809.1.S1_at11/1110+560328..565291retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g01920Os.46590.1.S1_at11/1110+567171..568806Transferase family protein, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20812.1.S1_at--29--6191Chr10:544993..545017 (25 bp)
GAGGAGCTCATCAGTCAAATACAGA
LOC_Os10g01860
OsAffx.20812.1.S1_at--718--5311Chr10:544903..544927 (25 bp)
GAAGGTGCTTTGAACCAGATTTTCA
LOC_Os10g01860
OsAffx.20812.1.S1_at--1004--6131Chr10:544828..544852 (25 bp)
GAGGGAGATGCCAACGCAGCCTTCT
LOC_Os10g01860
OsAffx.20812.1.S1_at--440--2591Chr10:544816..544840 (25 bp)
AACGCAGCCTTCTTCCATGGAGTAG
LOC_Os10g01860
OsAffx.20812.1.S1_at--107--8031Chr10:544745..544769 (25 bp)
GGAGGGACCTATTGAGAATGCTGAT
LOC_Os10g01860
OsAffx.20812.1.S1_at--63--8211Chr10:544673..544697 (25 bp)
GGAATTACCTCCTAAATTCTGTCTT
LOC_Os10g01860
OsAffx.20812.1.S1_at--688--3151Chr10:544659..544683 (25 bp)
AATTCTGTCTTAGCCATAATATGTG
LOC_Os10g01860
OsAffx.20812.1.S1_at--269--7611Chr10:544631..544655 (25 bp)
GGGAAGAGGCAGACTTTCTTCAGAA
LOC_Os10g01860
OsAffx.20812.1.S1_at--151--671Chr10:544546..544570 (25 bp)
ATGAAGACTAATACGGCTCCTGGGC
LOC_Os10g01860
OsAffx.20812.1.S1_at--284--9751Chr10:544538..544562 (25 bp)
TAATACGGCTCCTGGGCCAGATGGG
LOC_Os10g01860
OsAffx.20812.1.S1_at--944--8431Chr10:544524..544548 (25 bp)
GGCCAGATGGGTTCTCTGTTAGCTT
LOC_Os10g01860
Target Sequence 
GAGGAGCTCATCAGTCAAATACAGAAAATAGATGAAGAAGTGGAGAAGAAAGAACTGACATGTGAAGAGTGGGGGCATAG
ATATGAGCTGGAAGGTGCTTTGAACCAGATTTTCATCTCTGAAGAGATTTATTGGCAAGGGAGAAGTGGGGAGAAATGGA
TGTTAGAGGGAGATGCCAACGCAGCCTTCTTCCATGGAGTAGCTAATGGAAGGAAAAGGAAAACTACAATAAGGAGTTTG
GAAGGGGAGGAGGGACCTATTGAGAATGCTGATGAGTTGAAAGAGCACATTTATGGTTTTTATAAGAAACTGTTTGGAAT
GGAATTACCTCCTAAATTCTGTCTTAGCCATAATATGTGGGAGGGAAGAGGCAGACTTTCTTCAGAAGACAATATAGAAT
TAACTAAACCATTCAGTATGGAAGAGATTGAGGGTGCTTTGAGAGAAATGAAGACTAATACGGCTCCTGGGCCAGATGGG
TTCTCTGTTAGCTT

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.20812.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis