Browse Element(s) Details


OsAffx.1646.1.S1_x_at

Description gb:NM_184708.1
DB_XREF= gi:34896505
GEN=OSJNBa0057E11.22
TID=OsAffx.1646.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative GAG-POL precursor (OSJNBa0057E11.22), mRNA.
PROD=putative GAG-POL precursor
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g3563011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g228801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g300401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g194401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g201001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g121001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g285401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g276501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g460401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g313101/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g032201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g236601/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g231001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g013401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g332801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g288501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g135401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g218501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g206801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g287901/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g169001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g151201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g357001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g382601/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g224201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g217801/11retrotransposon protein, putative, unclassified
LOC_Os06g227701/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g356901/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os09g119401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g261201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g235201/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g35560Os.41248.4.S1_x_at1/113+19663048..19668365retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g35570OsAffx.25365.1.S1_at11/113+19674199..19676710Transposable element protein, putative, Transposase_28
LOC_Os03g35580OsAffx.22719.1.S1_at11/113+19678395..19680259retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35600Os.24924.1.S1_at11/113+19681517..19685875D-mannose binding lectin family protein, expressed
LOC_Os03g35610NANA3+19687797..19688889retrotransposon protein, putative, unclassified
LOC_Os03g35620OsAffx.25366.1.S1_at11/113+19690376..19692318hypothetical protein
LOC_Os03g35630OsAffx.1646.1.S1_x_at11/113+19692873..19693794retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35630Os.20851.1.A1_x_at2/113+19692873..19693794retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35630Os.55580.1.S1_at1/113+19692873..19693794retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35630OsAffx.22442.1.S1_x_at1/113+19692873..19693794retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g35640Os.45161.1.A1_x_at11/113+19695064..19698279hypothetical protein
LOC_Os03g35650OsAffx.25367.1.S1_at9/113+19700648..19703132retrotransposon, putative, centromere-specific
LOC_Os03g35650Os.31845.2.S1_x_at1/113+19700648..19703132retrotransposon, putative, centromere-specific
LOC_Os03g35670NANA3+19711240..19713776retrotransposon protein, putative, unclassified

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.1646.1.S1_x_at--412--5011Chr03:19692917..19692941 (25 bp)
GCAGGCGTTCCTGTTCAGCAGCCTT
LOC_Os03g35630
OsAffx.1646.1.S1_x_at--509--9271Chr03:19692925..19692949 (25 bp)
TCCTGTTCAGCAGCCTTGACTTCAT
LOC_Os03g35630
OsAffx.1646.1.S1_x_at--653--10751Chr03:19692940..19692964 (25 bp)
TTGACTTCATCACCAGCGACTTCGG
LOC_Os03g35630
OsAffx.1646.1.S1_x_at--987--4591Chr03:19692955..19692979 (25 bp)
GCGACTTCGGCAAGATTTATCTCCT
LOC_Os03g35630
OsAffx.1646.1.S1_x_at--582--10358Chr12:13307409..13307433 (25 bp)
TTTATCTCCTCGACTCGGATTCGAA
LOC_Os12g23520
OsAffx.1646.1.S1_x_at--388--91Chr03:19692988..19693012 (25 bp)
ATTCGAACCAGTTGGGAAGAGGCCG
LOC_Os03g35630
OsAffx.1646.1.S1_x_at--862--3431Chr03:19692996..19693020 (25 bp)
CAGTTGGGAAGAGGCCGGGTCTCCG
LOC_Os03g35630
OsAffx.1646.1.S1_x_at--883--105321Chr12:9687939..9687959 (21 bp)
TTCGGTATCCCGAACTCGGCCAAGA
LOC_Os12g16900
OsAffx.1646.1.S1_x_at--707--638Chr09:6720282..6720305 (24 bp)
AACTCGGCCAAGATCTACCCCAAGG
LOC_Os09g11940
OsAffx.1646.1.S1_x_at--13--2911Chr03:19693059..19693083 (25 bp)
AAGGTCATCTCAACCGAGTTGGCCA
LOC_Os03g35630
OsAffx.1646.1.S1_x_at--862--2571Chr03:19693070..19693094 (25 bp)
AACCGAGTTGGCCACTGTTAACAGT
LOC_Os03g35630
Target Sequence 
GCAGGCGTTCCTGTTCAGCAGCCTTGACTTCATCACCAGCGACTTCGGCAAGATTTATCTCCTCGACTCGGATTCGAACC
AGTTGGGAAGAGGCCGGGTCTCCGCCCCGTTCGGTATCCCGAACTCGGCCAAGATCTACCCCAAGGTCATCTCAACCGAG
TTGGCCACTGTTAACAGT

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.1646.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis