Browse Element(s) Details


OsAffx.5954.3.S1_x_at

Description tigr:9631.m03220
TID=OsAffx.5954.3
CNT=2
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=putative gag protein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g3288011/11hypothetical protein
LOC_Os03g357885/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g391504/11hypothetical protein
LOC_Os04g124104/11Zinc knuckle family protein
LOC_Os03g611804/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g365704/11retrotransposon protein, putative, unclassified
LOC_Os10g010204/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g397804/11retrotransposon protein, putative, unclassified
LOC_Os03g335304/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g418403/11Zinc knuckle family protein
LOC_Os09g072203/11Zinc knuckle family protein
LOC_Os08g297003/11Zinc knuckle family protein
LOC_Os01g334603/11retrotransposon protein, putative, unclassified
LOC_Os02g491203/11retrotransposon protein, putative, unclassified
LOC_Os02g346603/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g397603/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g053803/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g112403/11retrotransposon protein, putative, unclassified
LOC_Os09g080203/11retrotransposon protein, putative, unclassified
LOC_Os07g188903/11retrotransposon protein, putative, unclassified
LOC_Os04g087842/11Zinc knuckle family protein
LOC_Os06g217802/11retrotransposon protein, putative, unclassified
LOC_Os07g055402/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g259902/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g196202/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g238902/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os04g187702/11retrotransposon protein, putative, unclassified
LOC_Os04g173002/11Zinc knuckle family protein
LOC_Os05g088802/11Zinc knuckle family protein
LOC_Os01g161601/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g32830OsAffx.25347.1.S1_at11/113+18738514..18739160hypothetical protein
LOC_Os03g32840NANA3+18740957..18741424hypothetical protein
LOC_Os03g32850OsAffx.29292.1.S1_at1/113+18745786..18749886hypothetical protein
LOC_Os03g32860NANA3+18756276..18758755retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g32870NANA3+18758966..18760216hypothetical protein
LOC_Os03g32880OsAffx.5954.3.S1_x_at11/113+18761864..18763209hypothetical protein
LOC_Os03g32890NANA3+18765982..18767814hypothetical protein
LOC_Os03g32900Os.46995.1.S1_x_at11/113+18770410..18772062retrotransposon protein, putative, unclassified
LOC_Os03g32900Os.46995.1.S1_at11/113+18770410..18772062retrotransposon protein, putative, unclassified
LOC_Os03g32910Os.33878.1.S1_at7/113+18776464..18778461retrotransposon protein, putative, unclassified
LOC_Os03g32910Os.27102.1.S1_x_at2/113+18776464..18778461retrotransposon protein, putative, unclassified
LOC_Os03g32920NANA3+18780023..18781849retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g32930NANA3+18782005..18785707retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g32940OsAffx.940.1.S1_x_at1/113+18787957..18791666transposon protein, putative, unclassified
LOC_Os03g32940OsAffx.30486.1.S1_at1/113+18787957..18791666transposon protein, putative, unclassified
LOC_Os03g32940OsAffx.22896.1.S1_x_at1/113+18787957..18791666transposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.5954.3.S1_x_at--372--473Chr03:18761932..18761955 (24 bp)
ATCTCGCCTCCGCAAAGAAAGAGGC
LOC_Os03g32880
OsAffx.5954.3.S1_x_at--1134--5871Chr03:18762903..18762927 (25 bp)
GAGCCCAAGCTACATGTATGACCGT
LOC_Os03g32880
OsAffx.5954.3.S1_x_at--150--5832Chr03:20229453..20229477 (25 bp)
GACCGTTTGAGCAAGATCGTCAATG
LOC_Os03g36570
OsAffx.5954.3.S1_x_at--527--108722Chr09:3532110..3532134 (25 bp)
TTGGCTCCAAGGACATGACCGATGA
LOC_Os09g07220
OsAffx.5954.3.S1_x_at--504--95922Chr12:15088587..15088611 (25 bp)
TCATTCGTGAGCGTCCGGACTACAA
LOC_Os12g25990
OsAffx.5954.3.S1_x_at--74--58923Chr12:15088595..15088619 (25 bp)
GAGCGTCCGGACTACAAGACTCTCA
LOC_Os12g25990
OsAffx.5954.3.S1_x_at--720--27518Chr07:6185924..6185948 (25 bp)
AAGACTCTCACACCTCATGATTTGC
LOC_Os07g11240
OsAffx.5954.3.S1_x_at--378--9631Chr03:18763080..18763104 (25 bp)
TCATGATTTGCTTGGGCGCATCCTT
LOC_Os03g32880
OsAffx.5954.3.S1_x_at--71--9175Chr03:18763104..18763128 (25 bp)
TGCCCATGACATGCTTGTGCAAGAG
LOC_Os03g32880
OsAffx.5954.3.S1_x_at--555--7271Chr03:18763128..18763152 (25 bp)
GTCCAAGGAGTTCATCCAATACATT
LOC_Os03g32880
OsAffx.5954.3.S1_x_at--440--9871Chr03:18763147..18763171 (25 bp)
TACATTAACCAAAGCTCAACGACAA
LOC_Os03g32880
Target Sequence 
ATCTCGCCTCCGCAAAGAAAGAGGCACGGATAGTGTTCGCGAGTCCAAGGTGGAGATCCTCAAAGGGCAATTTGAGAGGT
TTCTGATGTTGGATGGAGAGAGCCCAAGCTACATGTATGACCGTTTGAGCAAGATCGTCAATGAGATCAAGGGAATTGGC
TCCAAGGACATGACCGATGAGGTAGTGGTCAAGAAGATGGTTCGAGCAATCATTCCAAGGAACTCTACCTTGGTAACTAT
CATTCGTGAGCGTCCGGACTACAAGACTCTCACACCTCATGATTTGCTTGGGCGCATCCTTGCCCATGACATGCTTGTGC
AAGAGTCCAAGGAGTTCATCCAATACATTAACCAAAGCTCAACGACAA

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.5954.3.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis