Browse Element(s) Details


OsAffx.31869.4.S1_x_at

Description gb:NM_196120.1
DB_XREF= gi:37533599
TID=OsAffx.31869.4
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OJ1208D02.15), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g2262011/11retrotransposon protein, putative, unclassified
LOC_Os03g3237011/11retrotransposon protein, putative, unclassified
LOC_Os05g2984010/11retrotransposon protein, putative, unclassified
LOC_Os01g2323010/11retrotransposon protein, putative, unclassified
LOC_Os05g243809/11retrotransposon protein, putative, unclassified
LOC_Os12g234209/11retrotransposon protein, putative, unclassified
LOC_Os05g243709/11retrotransposon protein, putative, unclassified
LOC_Os06g386039/11retrotransposon protein, putative, unclassified
LOC_Os04g139508/11retrotransposon protein, putative, unclassified
LOC_Os07g192408/11retrotransposon protein, putative, unclassified
LOC_Os04g444906/11retrotransposon protein, putative, unclassified
LOC_Os07g163604/11retrotransposon protein, putative, unclassified
LOC_Os07g331704/11retrotransposon protein, putative, unclassified
LOC_Os02g219503/11retrotransposon protein, putative, unclassified
LOC_Os12g183103/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g062603/11retrotransposon protein, putative, unclassified
LOC_Os06g149902/11retrotransposon protein, putative, unclassified
LOC_Os09g136402/11retrotransposon protein, putative, unclassified
LOC_Os11g279502/11retrotransposon protein, putative, unclassified
LOC_Os04g053402/11retrotransposon protein, putative, unclassified
LOC_Os06g273902/11retrotransposon protein, putative, unclassified
LOC_Os02g279302/11retrotransposon protein, putative, unclassified
LOC_Os08g195102/11retrotransposon protein, putative, unclassified
LOC_Os08g117402/11retrotransposon protein, putative, unclassified
LOC_Os12g224202/11retrotransposon protein, putative, unclassified
LOC_Os11g171802/11retrotransposon protein, putative, unclassified
LOC_Os12g224302/11retrotransposon protein, putative, unclassified
LOC_Os05g173402/11retrotransposon protein, putative, unclassified
LOC_Os12g235002/11retrotransposon protein, putative, unclassified
LOC_Os05g204902/11retrotransposon protein, putative, unclassified
LOC_Os07g179202/11retrotransposon protein, putative, unclassified
LOC_Os02g300002/11retrotransposon protein, putative, unclassified
LOC_Os10g048101/11retrotransposon protein, putative, unclassified
LOC_Os10g030201/11retrotransposon protein, putative, unclassified
LOC_Os12g115901/11retrotransposon protein, putative, unclassified
LOC_Os06g369001/11retrotransposon protein, putative, unclassified
LOC_Os03g417101/11retrotransposon protein, putative, unclassified
LOC_Os08g195701/11retrotransposon protein, putative, unclassified
LOC_Os04g230801/11retrotransposon protein, putative, unclassified
LOC_Os05g257401/11retrotransposon protein, putative, unclassified
LOC_Os06g509101/11Phosphatidylinositol 3- and 4-kinase family protein, expressed
LOC_Os04g220801/11retrotransposon protein, putative, unclassified
LOC_Os05g179001/11retrotransposon protein, putative, unclassified
LOC_Os11g263701/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g424321/11retrotransposon protein, putative, unclassified
LOC_Os08g118601/11retrotransposon protein, putative, unclassified
LOC_Os02g296901/11retrotransposon protein, putative, unclassified
LOC_Os03g237701/11retrotransposon protein, putative, unclassified
LOC_Os10g053201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g030601/11retrotransposon protein, putative, unclassified
LOC_Os06g032501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g445001/11retrotransposon protein, putative, unclassified
LOC_Os10g189701/11retrotransposon protein, putative, unclassified
LOC_Os10g242901/11retrotransposon protein, putative, unclassified
LOC_Os03g613701/11retrotransposon protein, putative, unclassified
LOC_Os08g165101/11retrotransposon protein, putative, unclassified
LOC_Os04g077301/11retrotransposon protein, putative, unclassified
LOC_Os10g099601/11retrotransposon protein, putative, unclassified, expressed
LOC_Os11g262701/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g22590Os.5297.1.S1_at11/1110+11392043..11394977Pollen proteins Ole e I family protein, expressed
LOC_Os10g22590Os.3577.1.S1_x_at2/1110+11392043..11394977Pollen proteins Ole e I family protein, expressed
LOC_Os10g22600OsAffx.20436.1.S1_x_at11/1110+11400208..11401173AP2 domain containing protein, expressed
LOC_Os10g22610Os.4183.1.S1_a_at1/1110+11411238..11411871hypothetical protein
LOC_Os10g22620OsAffx.31869.4.S1_x_at11/1110+11415726..11417070retrotransposon protein, putative, unclassified
LOC_Os10g22620OsAffx.31869.4.S1_at11/1110+11415726..11417070retrotransposon protein, putative, unclassified
LOC_Os10g22620OsAffx.31869.3.S1_s_at4/1110+11415726..11417070retrotransposon protein, putative, unclassified
LOC_Os10g22620OsAffx.31869.3.S1_x_at4/1110+11415726..11417070retrotransposon protein, putative, unclassified
LOC_Os10g22620OsAffx.31869.5.S1_x_at3/1110+11415726..11417070retrotransposon protein, putative, unclassified
LOC_Os10g22620Os.48015.1.A1_at1/1110+11415726..11417070retrotransposon protein, putative, unclassified
LOC_Os10g22630Os.5353.1.S1_at11/1110+11426685..11428017expressed protein
LOC_Os10g22630OsAffx.6388.1.A1_x_at1/1110+11426685..11428017expressed protein
LOC_Os10g22640NANA10+11433620..11439775retrotransposon protein, putative, unclassified
LOC_Os10g22650Os.28943.1.S1_x_at1/1110+11440409..11443587transposon protein, putative, unclassified

Select all/Clear all

Gene Ontology Classification
GO idTypeName
GO:0007004biological_processtelomerase-dependent telomere maintenance
GO:0009793biological_processembryonic development (sensu Magnoliophyta)
GO:0043247biological_processtelomere maintenance in response to DNA damage
GO:0004428molecular_functioninositol or phosphatidylinositol kinase activity
GO:0016303molecular_functionphosphatidylinositol 3-kinase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.31869.4.S1_x_at--943--88118Chr12:10564156..10564531 (25 bp)
TGTTGATCTCCCATGACTATGTTGA
LOC_Os12g18310
OsAffx.31869.4.S1_x_at--86--2458Chr12:10564602..10564626 (25 bp)
AAAATGATTGTATTCCAGGAGGCAC
LOC_Os12g18310
OsAffx.31869.4.S1_x_at--354--46146Chr12:12663615..12663639 (25 bp)
GCGTATCAAGCCACTCCAAATTGGT
LOC_Os12g22430
OsAffx.31869.4.S1_x_at--755--86115Chr10:11416710..11416734 (25 bp)
TGGTGAATCTTTTTCTGCAGGTCAA
LOC_Os10g22620
OsAffx.31869.4.S1_x_at--15--90516Chr10:11416725..11416749 (25 bp)
TGCAGGTCAAGAACAGTCACAACAA
LOC_Os10g22620
OsAffx.31869.4.S1_x_at--817--75912Chr10:11416764..11416788 (25 bp)
GGGCATCAGTGGTGAGATCAACTCA
LOC_Os10g22620
OsAffx.31869.4.S1_x_at--320--63117Chr10:11416816..11416840 (25 bp)
GATGAGCAAGCTACTCAATCAGTGT
LOC_Os10g22620
OsAffx.31869.4.S1_x_at--313--11115Chr10:11416836..11416860 (25 bp)
AGTGTCATTTCAGCAGGATCAGTCT
LOC_Os10g22620
OsAffx.31869.4.S1_x_at--260--10710Chr10:11416882..11416906 (25 bp)
AGGGAGCATCGGGTGTGTTTCAATT
LOC_Os10g22620
OsAffx.31869.4.S1_x_at--1016--6314Chr10:11417000..11417024 (25 bp)
ATGCAGTGCCGGTTGCGTCTCAAGG
LOC_Os10g22620
OsAffx.31869.4.S1_x_at--790--71517Chr10:11417016..11417040 (25 bp)
GTCTCAAGGGATACAGCTCAGCCAT
LOC_Os10g22620
Target Sequence 
TGTTGATCTCCCATGACTATGTTGATTTTCAGCAGCTGGTTGACAAAGCAATTCGACTTGAAGACAAGAATAACAGGATG
GATAACCGTAAAAGGAAAATGATTGTATTCCAGGAGGCACAGGATAGTAGCCAGAGGCAGCGTATCAAGCCACTCCAAAT
TGGTGAATCTTTTTCTGCAGGTCAAGAACAGTCACAACAACAGTCACAACAGTTGGGCATCAGTGGTGAGATCAACTCAG
AGACTAATGCAAGCAATGAAGACAATGATGAGCAAGCTACTCAATCAGTGTCATTTCAGCAGGATCAGTCTCAAGAAGAT
AACAGTAATGGAAGGGAGCATCGGGTGTGTTTCAATTGTTATGAGCCAGGTCACTTCGTAAAAGAGTGTCCGAAGCCGAA
GCGTCAACAGCCACAAGGCCAAGTCAACAACATTGTCCTCACAGGAGCAAATGCAGTGCCGGTTGCGTCTCAAGGGATAC
AGCTCAGCCAT

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.31869.4.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis