Browse Element(s) Details


OsAffx.8340.1.S1_at

Description gb:NM_195520.1
DB_XREF= gi:37532399
TID=OsAffx.8340.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNBa0082N11.18), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1497011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g389201/11expressed protein
LOC_Os06g251401/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g14920Os.18714.1.S2_at11/1110+7566080..7572543nodulin MtN21 family protein, putative, expressed
LOC_Os10g14920Os.18714.1.S1_a_at11/1110+7566080..7572543nodulin MtN21 family protein, putative, expressed
LOC_Os10g14920OsAffx.28912.1.S1_at1/1110+7566080..7572543nodulin MtN21 family protein, putative, expressed
LOC_Os10g14930OsAffx.19950.1.S1_at1/1110+7583488..7585622Zinc knuckle family protein
LOC_Os10g14940NANA10+7586481..7587092hypothetical protein
LOC_Os10g14950NANA10+7588776..7591273retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g14960OsAffx.8341.1.S1_at11/1110+7592733..7593869retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g14970OsAffx.8340.1.S1_at11/1110+7594296..7595753retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g14980OsAffx.20590.1.S1_at11/1110+7596656..7598625retrotransposon protein, putative, unclassified
LOC_Os10g14990OsAffx.30486.1.S1_at1/1110+7600861..7603223retrotransposon protein, putative, unclassified
LOC_Os10g15000OsAffx.8469.1.A1_x_at1/1110+7605761..7606278retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g15010NANA10+7613400..7615701retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
GO:0016020cellular_componentmembrane
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.8340.1.S1_at--649--5332Chr10:7594875..7594899 (25 bp)
GAAGTAGCCCCTTCATATGTTTTTG
LOC_Os10g14970
OsAffx.8340.1.S1_at--811--772Chr10:7594936..7594960 (25 bp)
ATGTGATCGAGACGGCAGGTACTCA
LOC_Os10g14970
OsAffx.8340.1.S1_at--1023--3931Chr10:7594948..7594972 (25 bp)
CGGCAGGTACTCAAGAAGTCAGTGT
LOC_Os10g14970
OsAffx.8340.1.S1_at--82--3172Chr10:7594973..7594997 (25 bp)
AATTGACACCGATTGGAGAGAGCCC
LOC_Os10g14970
OsAffx.8340.1.S1_at--499--1371Chr10:7595021..7595045 (25 bp)
AGAGCTTCCTCAAGACAATGACGAG
LOC_Os10g14970
OsAffx.8340.1.S1_at--623--8931Chr10:7595039..7595063 (25 bp)
TGACGAGGCTGAGCGGATTTCTCGA
LOC_Os10g14970
OsAffx.8340.1.S1_at--963--711Chr10:7595082..7595415 (25 bp)
ATGATCGAGGCTGAGTTGGCTACTG
LOC_Os10g14970
OsAffx.8340.1.S1_at--848--7091Chr10:7595481..7595505 (25 bp)
GTCACAATCACTACCGACAAAGCTC
LOC_Os10g14970
OsAffx.8340.1.S1_at--622--6891Chr10:7595551..7595575 (25 bp)
GTATCATTATAGATGGTACCCAATT
LOC_Os10g14970
OsAffx.8340.1.S1_at--639--4911Chr10:7595631..7595655 (25 bp)
GCTTCTGTAGCACATTCTATGACCA
LOC_Os10g14970
OsAffx.8340.1.S1_at--312--5651Chr10:7595659..7595683 (25 bp)
GACAGGTCGAATGCGCCAATGGTAT
LOC_Os10g14970
Target Sequence 
GAAGTAGCCCCTTCATATGTTTTTGTTGAGCACCTTTATGAGCCGACAGTACCAAGGGAGGATGTGATCGAGACGGCAGG
TACTCAAGAAGTCAGTGTAATTGACACCGATTGGAGAGAGCCCTTCATCAAATTTTTGACTAAGCAAGAGCTTCCTCAAG
ACAATGACGAGGCTGAGCGGATTTCTCGAAGCAGCAAGCTTTATGTCATGATCGAGGCTGAGTTGGCTACTGGTGGTTTC
ACTCATCTTTTTGTAGCTGTGGACAAATTTTCCAAGTGGATCGAAGCTAAACCAGTCGTCACAATCACTACCGACAAAGC
TCGAGATTTTTTCATCAACATCGTGCACCGGTTTGGGGTACCTAATCGTATCATTATAGATGGTACCCAATTCACTAGTG
ATGTGTTTAAAGACTTCTGTGAAGACTTTGGTATCAAGATTTGTTATGCTTCTGTAGCACATTCTATGACCAATAGACAG
GTCGAATGCGCCAATGGTAT

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.8340.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis