Browse Element(s) Details


OsAffx.20300.1.S1_at

Description gb:NM_196749.1
DB_XREF= gi:37534857
TID=OsAffx.20300.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) contains similarity to gag-pol polyprotein (OSJNBa0076M18.3), mRNA.
PROD=contains similarity to gag-pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g3108010/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g31040Os.7688.1.S1_at11/1110+15896022..15909454expressed protein
LOC_Os10g31040Os.7688.2.S1_x_at10/1110+15896022..15909454expressed protein
LOC_Os10g31050OsAffx.30619.1.S1_at11/1110+15910366..15913341hypothetical protein
LOC_Os10g31060NANA10+15916405..15917842transposon protein, putative, unclassified
LOC_Os10g31070OsAffx.8071.1.S1_at11/1110+15930117..15930680hypothetical protein
LOC_Os10g31080OsAffx.20300.1.S1_at10/1110+15931565..15940944retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g31080OsAffx.24861.1.S1_at8/1110+15931565..15940944retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g31090OsAffx.30620.1.S1_at10/1110+15942570..15943039hypothetical protein
LOC_Os10g31100OsAffx.18470.1.S1_at11/1110+15947642..15948010hypothetical protein
LOC_Os10g31110OsAffx.30621.1.S1_at11/1110+15961122..15961594hypothetical protein
LOC_Os10g31110OsAffx.29973.1.S1_at1/1110+15961122..15961594hypothetical protein
LOC_Os10g31120OsAffx.8070.1.S1_x_at8/1110+15965493..15967757transposon protein, putative, Pong sub-class

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20300.1.S1_at--336--4071Chr10:15939347..15939371 (25 bp)
CGAGGAGAAGGTGCTTGCCCAGATC
LOC_Os10g31080
OsAffx.20300.1.S1_at--114--5611Chr10:15939393..15939417 (25 bp)
GACAACCATTGGGTGGTCGACACTA
LOC_Os10g31080
OsAffx.20300.1.S1_at--264--7451Chr10:15939472..15939496 (25 bp)
GTGTCGGCAGCTCCATCAAATTTGG
LOC_Os10g31080
OsAffx.20300.1.S1_at--293--4711Chr10:15939755..15939777 (23 bp)
GCGGCGCTACTGAAGCTGCTCGAGA
LOC_Os10g31080
OsAffx.20300.1.S1_at--1030--9931Chr10:15939786..15939810 (25 bp)
TACGAGGCCTGTTGGACTTGGAGCA
LOC_Os10g31080
OsAffx.20300.1.S1_at--80--5511Chr10:15939844..15939868 (25 bp)
GAAACAACGAAGCATCCCGTTCCTG
LOC_Os10g31080
OsAffx.20300.1.S1_at--1049--1571Chr10:15939870..15939894 (25 bp)
AGCTCTCCGGAGCAGGTCAAGCAAA
LOC_Os10g31080
OsAffx.20300.1.S1_at--114--3331NONE
CACGGGCCACGATACTACTTATGGA
NONE
OsAffx.20300.1.S1_at--987--1031Chr10:15940808..15940832 (25 bp)
AGGTGCCTCACGTCAAGAAACTTGA
LOC_Os10g31080
OsAffx.20300.1.S1_at--801--10551Chr10:15940855..15940879 (25 bp)
TTCATTGGGCATGAGCCAGGCTCTA
LOC_Os10g31080
OsAffx.20300.1.S1_at--245--2871Chr10:15940879..15940903 (25 bp)
AAGGGCTACAGTGCCTACAACCTAG
LOC_Os10g31080
Target Sequence 
CGAGGAGAAGGTGCTTGCCCAGATCGGGGATGTGGCACAGAAGGAAGACAACCATTGGGTGGTCGACACTAATGACACCA
ACCATATGTCCGAGACCAGAGCCGCCTTCACCACCCTCGACGCCGGTGTCGGCAGCTCCATCAAATTTGGAGACGGGTCC
ATGGTGCAGATCGAGCGGCGCGGCGCTACTGAAGCTGCTCGAGACGGCCTAGTACGAGGCCTGTTGGACTTGGAGCAGCC
ATGCGGCCTCCTCGAGGGGTGCTTGGTGGGGAAACAACGAAGCATCCCGTTCCTGGAGCTCTCCGGAGCAGGTCAAGCAA
ACACTGGAGCTCCTCCACGGGCCACGATACTACTTATGGACACCATGGATTGGGACTGCCCTGATACTGGAAGAAGCCTG
CTGTCCATCACCTCCAGCACATTCGGCTACATCACCTACGTCAAGAAGAAGGTGCCTCACGTCAAGAAACTTGATGATAG
GAGCATGAAGCTGATCTTCATTGGGCATGAGCCAGGCTCTAAGGGCTACAGTGCCTACAACCTAG

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.20300.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis