Browse Element(s) Details


OsAffx.22713.1.S1_at

Description gb:NM_184730.1
DB_XREF= gi:34896549
GEN=OSJNBa0053G10.25
TID=OsAffx.22713.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gag-pol polyprotein (OSJNBa0053G10.25), mRNA.
PROD=putative gag-pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g3540011/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g35350OsAffx.10483.1.S1_at11/113+19560043..19560375hypothetical protein
LOC_Os03g35360OsAffx.13187.1.S1_at11/113+19567560..19568039hypothetical protein
LOC_Os03g35370NANA3+19569548..19571275hypothetical protein
LOC_Os03g35380Os.54287.1.S1_at4/113+19571790..19575296Transposable element protein, putative, Transposase_28
LOC_Os03g35390Os.1709.1.S1_x_at9/113+19575896..19581808retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35390Os.31497.2.S1_x_at1/113+19575896..19581808retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35400OsAffx.22713.1.S1_at11/113+19584478..19587341retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35420NANA3+19595804..19596343retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35430NANA3+19597406..19601830retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35440Os.45173.1.S1_x_at3/113+19602119..19604247retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35440Os.38764.1.S1_x_at2/113+19602119..19604247retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35440Os.10731.2.A1_at1/113+19602119..19604247retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35454OsAffx.22715.1.S1_at11/113+19610652..19620093retrotransposon protein, putative, unclassified
LOC_Os03g35454OsAffx.13188.1.S1_at11/113+19610652..19620093retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.22713.1.S1_at--894--7871Chr03:19585119..19585143 (25 bp)
GGTTTATCTATGCTTGCACGTGCAG
LOC_Os03g35400
OsAffx.22713.1.S1_at--158--2831Chr03:19585064..19585088 (25 bp)
AAGGGCAACGCTGTAATATTTTTCA
LOC_Os03g35400
OsAffx.22713.1.S1_at--1036--6272Chr05:3521434..3521458 (25 bp)
GATGTAGTGCCGATGAATGCTTGTC
NONE
OsAffx.22713.1.S1_at--509--3012Chr07:11841435..11841459 (25 bp)
AATGCTTGTCACTTGCTTTTGGGAA
NONE
OsAffx.22713.1.S1_at--269--1391Chr03:19584777..19584801 (25 bp)
AGACCGTGGCAGTTTGATCTTCATG
LOC_Os03g35400
OsAffx.22713.1.S1_at--923--10491Chr03:19584758..19584782 (25 bp)
TTCATGCAACTCACGAAGGCCGGAC
LOC_Os03g35400
OsAffx.22713.1.S1_at--231--891Chr03:19584742..19584766 (25 bp)
AGGCCGGACTAATCACTATTCTTTT
LOC_Os03g35400
OsAffx.22713.1.S1_at--40--2031Chr03:19584728..19584752 (25 bp)
ACTATTCTTTTATACACCGTGGTGT
LOC_Os03g35400
OsAffx.22713.1.S1_at--298--2411Chr03:19584702..19584726 (25 bp)
AAACACGTCCTGAAGCCAATGCTTG
LOC_Os03g35400
OsAffx.22713.1.S1_at--664--371Chr03:19584669..19584693 (25 bp)
ATCAAGTCAATGGTATTTTCTGCTG
LOC_Os03g35400
OsAffx.22713.1.S1_at--1060--2711Chr03:19584609..19584633 (25 bp)
AAGCAGAGGACGGTTTTGTTCCAAG
LOC_Os03g35400
Target Sequence 
GGTTTATCTATGCTTGCACGTGCAGTACAGCGAGATGGCTCTAATGTTGATGCAAAAGGGCAACGCTGTAATATTTTTCA
GTTAGAGTGCAAAATTCAAGAGAAGATGAATCAAGCGGGCACACTGAAAATTACTCATAAGGTGAGAGTTGCATTTTCTA
TTGGAAGCTATGTTGATAAAGTTGACTGTGATGTAGTGCCGATGAATGCTTGTCACTTGCTTTTGGGAAGACCGTGGCAG
TTTGATCTTCATGCAACTCACGAAGGCCGGACTAATCACTATTCTTTTATACACCGTGGTGTTAAACACGTCCTGAAGCC
AATGCTTGATAGTGCTATCAAGTCAATGGTATTTTCTGCTGTAAAGAACAAGAAAGAACCGTGTCAAATTAATCCAAAGC
AGAGGACGGTTTTGTTCCAAG

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.22713.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis