Browse Element(s) Details


OsAffx.25936.3.S1_at

Description gb:NM_194741.1
DB_XREF= gi:37530841
TID=OsAffx.25936.3
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retrotransposable elements TNP2 (OSJNBb0004A06.13), mRNA.
PROD=putative retrotransposable elements TNP2
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0431611/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g04280Os.23219.2.S1_x_at1/1110+1995147..1996028hypothetical protein
LOC_Os10g04290Os.46055.1.S1_at11/1110+2003103..2016533transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04290Os.46055.2.S1_x_at11/1110+2003103..2016533transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04290Os.10827.1.S1_x_at9/1110+2003103..2016533transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04290OsAffx.18122.1.S1_x_at1/1110+2003103..2016533transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04316OsAffx.25936.3.S1_at11/1110+2019282..2025668retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316OsAffx.25936.7.S1_s_at8/1110+2019282..2025668retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316OsAffx.25936.5.S1_x_at8/1110+2019282..2025668retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316OsAffx.25936.1.S1_s_at7/1110+2019282..2025668retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316OsAffx.25936.2.S1_x_at3/1110+2019282..2025668retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316OsAffx.25936.1.S1_at1/1110+2019282..2025668retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04342Os.51966.1.S1_at11/1110+2028190..2041707disease resistance protein RPM1 homolog, putative, expressed
LOC_Os10g04342OsAffx.30274.1.S1_x_at11/1110+2028190..2041707disease resistance protein RPM1 homolog, putative, expressed
LOC_Os10g04342OsAffx.30274.1.S1_at11/1110+2028190..2041707disease resistance protein RPM1 homolog, putative, expressed
LOC_Os10g04342Os.11925.1.S1_at8/1110+2028190..2041707disease resistance protein RPM1 homolog, putative, expressed
LOC_Os10g04342Os.36453.1.S1_at1/1110+2028190..2041707disease resistance protein RPM1 homolog, putative, expressed
LOC_Os10g04370Os.46492.1.S1_at11/1110+2043569..2044965F-box domain containing protein, expressed
LOC_Os10g04380OsAffx.30275.1.S1_at11/1110+2046641..2048152hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.25936.3.S1_at--147--4991Chr10:2024746..2024770 (25 bp)
GCATGATGCAGATTCGGGAGCCCGA
LOC_Os10g04316
OsAffx.25936.3.S1_at--5--1671Chr10:2024764..2024788 (25 bp)
AGCCCGACCGTCAGTTGCTGGTGAA
LOC_Os10g04316
OsAffx.25936.3.S1_at--950--5251Chr10:2024804..2024828 (25 bp)
GAATCGGCTGTACATGCTCCATATC
LOC_Os10g04316
OsAffx.25936.3.S1_at--1086--8251Chr10:2024890..2024914 (25 bp)
GGCATGAGCGTTTTGGCCACGTCAA
LOC_Os10g04316
OsAffx.25936.3.S1_at--315--6591Chr10:2024959..2024983 (25 bp)
GATTGCCGAAGGTCGGGCAGCTCAA
LOC_Os10g04316
OsAffx.25936.3.S1_at--545--7011Chr10:2025022..2025046 (25 bp)
GTACTTCGTTTCCTATGCAAGCCGA
LOC_Os10g04316
OsAffx.25936.3.S1_at--1121--2651Chr10:2025040..2025064 (25 bp)
AAGCCGAGTACCATGCGTGGCAACT
LOC_Os10g04316
OsAffx.25936.3.S1_at--907--7331Chr10:2025075..2025099 (25 bp)
GTGCACGGTGACTTGTGTGGTCCAA
LOC_Os10g04316
OsAffx.25936.3.S1_at--1137--10531Chr10:2025132..2025156 (25 bp)
TTCATGCTGTTGGTGGACGACCTCA
LOC_Os10g04316
OsAffx.25936.3.S1_at--546--1711Chr10:2025562..2025586 (25 bp)
ACCACCTGCGGATGTTTGGCTGCAT
LOC_Os10g04316
OsAffx.25936.3.S1_at--565--10871Chr10:2025577..2025601 (25 bp)
TTGGCTGCATCGTCTACATCCGGAA
LOC_Os10g04316
Target Sequence 
GCATGATGCAGATTCGGGAGCCCGACCGTCAGTTGCTGGTGAAGGTGAAGCGCACGCCGAATCGGCTGTACATGCTCCAT
ATCAAGTTGGCACAGCCATCATGCCTGGCGGTGCGTGGGCATGGAGACGAGGTCGCATGGCGCTGGCATGAGCGTTTTGG
CCACGTCAACATGGCGGCGCTACGGAAGCTGGCTCGGGAGGAGCTGGTGCGGGGATTGCCGAAGGTCGGGCAGCTCAAGC
AGCTGTGCGAGGCGTGTCAAGCTGGGAAACAACGGCGTACTTCGTTTCCTATGCAAGCCGAGTACCATGCGTGGCAACTG
TTGGAGCTGGTGCACGGTGACTTGTGTGGTCCAATCACGCCGGCAACACCAAGGGGGAACAAGTACTTCATGCTGTTGGT
GGACGACCTCAGCCGGTGTCCGACGAAGAGCGTGGACGGCATGACCCCGTTCGAGGCATGGCACGGGAAGAAGCCGGTGG
TACACCACCTGCGGATGTTTGGCTGCATCGTCTACATCCGGAA

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.25936.3.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis