Browse Element(s) Details


OsAffx.1272.1.S1_at

Description gb:NM_188430.1
DB_XREF= gi:34903943
GEN=OSJNBa0038J17.17
TID=OsAffx.1272.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) OSJNBa0038J17.17 (OSJNBa0038J17.17), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g137001/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g13660OsAffx.14674.1.S1_at11/115+7545695..7546972hypothetical protein
LOC_Os05g13670OsAffx.26868.1.S1_at11/115+7551512..7552506hypothetical protein
LOC_Os05g13680OsAffx.26869.1.S1_at10/115+7559810..7561315hypothetical protein
LOC_Os05g13690OsAffx.26870.1.S1_at11/115+7565694..7566083hypothetical protein
LOC_Os05g13700OsAffx.1272.1.S1_at1/115+7571209..7574546retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g13700OsAffx.29419.3.S1_at1/115+7571209..7574546retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g13710OsAffx.20387.1.S1_x_at1/115+7574799..7576088transposon protein, putative, unclassified
LOC_Os05g13720NANA5+7578750..7579889retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g13730Os.40360.1.S1_at5/115+7582697..7588472Zinc knuckle family protein
LOC_Os05g13730Os.40855.5.S1_x_at4/115+7582697..7588472Zinc knuckle family protein
LOC_Os05g13730Os.40360.1.S1_x_at3/115+7582697..7588472Zinc knuckle family protein
LOC_Os05g13730Os.2358.1.S1_at2/115+7582697..7588472Zinc knuckle family protein
LOC_Os05g13740NANA5+7591628..7595475retrotransposon protein, putative, unclassified
LOC_Os05g13750OsAffx.31069.2.S1_x_at1/115+7599334..7602194retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.1272.1.S1_at--44--49936Chr12:13331982..13332001 (20 bp)
GCATCGAATCTCATAGCCAATACAA
NONE
OsAffx.1272.1.S1_at--1089--5971Chr01:6228947..6228971 (25 bp)
GAGACTACTCCCACAAATGTGCTGT
NONE
OsAffx.1272.1.S1_at--373--8731NONE
TGTACGGACATCTATTTGGGCCCTA
NONE
OsAffx.1272.1.S1_at--993--1891Chr01:6231477..6231501 (25 bp)
ACGTCCCCACAAATGTTTCGATCGA
NONE
OsAffx.1272.1.S1_at--612--6071Chr01:6231500..6231524 (25 bp)
GAGTTCAATTCGACCACAGTGCATT
NONE
OsAffx.1272.1.S1_at--102--7331Chr01:6231518..6231542 (25 bp)
GTGCATTGCGTACTACTAACTGGGA
NONE
OsAffx.1272.1.S1_at--525--8611Chr01:6231550..6231574 (25 bp)
TGGTGTACCAAACTGGACGGTTCCT
NONE
OsAffx.1272.1.S1_at--49--1931Chr01:6231566..6231701 (25 bp)
ACGGTTCCTAGATTGCACGGTCGGT
NONE
OsAffx.1272.1.S1_at--195--7791Chr01:6231734..6231758 (25 bp)
GGTCGCCGTCGGAACACGTATATGA
NONE
OsAffx.1272.1.S1_at--938--6391Chr01:6231765..6231789 (25 bp)
GATCGATTTCAGTCACTGGCTCACT
NONE
OsAffx.1272.1.S1_at--733--8491Chr01:6231781..6231805 (25 bp)
TGGCTCACTGACAGTCGTCACTGGT
NONE
Target Sequence 
GCATCGAATCTCATAGCCAATACAACGACCACAACCTACGAAGCCGAAGTCTACAGGAGCCAAGTCGCCGGGTGGTCTAG
TCGAACCAACTCGACTACGATCTCGTCGATCCTCGTACACCTCAATACCCTCTATATCCGGTCTACGGGGCTTGTTCATC
TTATATATAAGTCCACATTAATCAACCAGAGACTACTCCCACAAATGTGCTGTACGGACATCTATTTGGGCCCTAGCTAC
CTCCCCCCCAACAATTATCTGCGCCGGCGGCCGCGCGCGCGCGCGCGCACACCGTACGTACGTACGTACGTCCCCACAAA
TGTTTCGATCGAGTTCAATTCGACCACAGTGCATTGCGTACTACTAACTGGGAGTGGTGGTGGTGTACCAAACTGGACGG
TTCCTAGATTGCACGGTCGGTGTCCCCCTCGGCTGCTCCTGCACCGGCCGGCCGGTCGCCGTCGGAACACGTATATGATC
GATCGATCGATTTCAGTCACTGGCTCACTGACAGTCGTCACTGGT

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.1272.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis