Browse Element(s) Details


Os.46012.3.S1_x_at

Description gb:NM_187284.1
DB_XREF= gi:34901653
GEN=P0640E12.21
TID=Os.46012.3
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.46012 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) P0640E12.21 (P0640E12.21), mRNA
DEF=Oryza sativa (japonica cultivar-group) P0640E12.21 (P0640E12.21), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os07g2949011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g0300010/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g472609/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g021209/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g307708/11retrotransposon protein, putative, unclassified
LOC_Os11g019708/11retrotransposon protein, putative, unclassified
LOC_Os11g468068/11retrotransposon protein, putative, unclassified
LOC_Os12g261508/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g066008/11retrotransposon protein, putative, unclassified, expressed
LOC_Os07g192308/11retrotransposon protein, putative, unclassified
LOC_Os01g190308/11retrotransposon protein, putative, unclassified
LOC_Os06g274607/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g264007/11retrotransposon protein, putative, unclassified
LOC_Os04g314207/11retrotransposon protein, putative, unclassified
LOC_Os08g135907/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g378907/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g295607/11retrotransposon protein, putative, unclassified
LOC_Os07g124107/11retrotransposon protein, putative, unclassified
LOC_Os01g592207/11retrotransposon protein, putative, unclassified
LOC_Os06g078507/11retrotransposon protein, putative, unclassified
LOC_Os05g242007/11retrotransposon protein, putative, unclassified
LOC_Os08g095107/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g093507/11retrotransposon protein, putative, unclassified
LOC_Os02g311907/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g120207/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g204707/11retrotransposon protein, putative, unclassified
LOC_Os02g214007/11retrotransposon protein, putative, unclassified
LOC_Os04g230607/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g043507/11retrotransposon protein, putative, unclassified
LOC_Os09g100307/11retrotransposon protein, putative, unclassified
LOC_Os12g293607/11retrotransposon protein, putative, unclassified
LOC_Os11g256906/11retrotransposon protein, putative, unclassified
LOC_Os04g097606/11retrotransposon protein, putative, unclassified
LOC_Os11g317206/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g306706/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g250406/11retrotransposon protein, putative, unclassified
LOC_Os06g105506/11retrotransposon protein, putative, unclassified
LOC_Os07g270806/11retrotransposon protein, putative, unclassified
LOC_Os12g261906/11retrotransposon protein, putative, unclassified
LOC_Os05g120606/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g260406/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g284506/11retrotransposon protein, putative, unclassified
LOC_Os01g248006/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g406606/11retrotransposon protein, putative, unclassified
LOC_Os07g185006/11retrotransposon protein, putative, unclassified
LOC_Os09g152206/11retrotransposon protein, putative, unclassified
LOC_Os11g173106/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g246006/11retrotransposon protein, putative, unclassified
LOC_Os08g263006/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g357306/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g327206/11retrotransposon protein, putative, unclassified
LOC_Os12g065306/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g402906/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g126906/11retrotransposon protein, putative, unclassified
LOC_Os05g291746/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g265606/11retrotransposon protein, putative, unclassified
LOC_Os08g101906/11retrotransposon protein, putative, unclassified
LOC_Os01g460006/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g124806/11retrotransposon protein, putative, unclassified
LOC_Os05g241706/11retrotransposon protein, putative, unclassified
LOC_Os10g268306/11retrotransposon protein, putative, unclassified
LOC_Os06g374005/11retrotransposon protein, putative, unclassified
LOC_Os01g519505/11retrotransposon protein, putative, unclassified
LOC_Os09g149005/11retrotransposon protein, putative, unclassified
LOC_Os04g146705/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g150205/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g179905/11retrotransposon protein, putative, unclassified
LOC_Os12g266505/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g199405/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g078005/11retrotransposon protein, putative, unclassified
LOC_Os04g301505/11retrotransposon protein, putative, unclassified
LOC_Os04g233405/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g301405/11retrotransposon protein, putative, unclassified
LOC_Os05g337405/11retrotransposon protein, putative, unclassified
LOC_Os12g358805/11retrotransposon protein, putative, unclassified
LOC_Os10g207505/11retrotransposon protein, putative, unclassified
LOC_Os09g101005/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g558604/11retrotransposon protein, putative, unclassified
LOC_Os01g439304/11retrotransposon protein, putative, unclassified
LOC_Os08g285004/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g196804/11retrotransposon protein, putative, unclassified
LOC_Os04g427304/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g261404/11retrotransposon protein, putative, unclassified
LOC_Os11g226704/11retrotransposon protein, putative, unclassified
LOC_Os11g309604/11retrotransposon protein, putative, unclassified
LOC_Os03g388504/11retrotransposon protein, putative, unclassified
LOC_Os09g366104/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g191044/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g108904/11retrotransposon protein, putative, unclassified
LOC_Os01g222704/11retrotransposon protein, putative, unclassified
LOC_Os05g145204/11retrotransposon protein, putative, unclassified
LOC_Os08g298404/11retrotransposon protein, putative, unclassified
LOC_Os12g271204/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g230204/11retrotransposon protein, putative, unclassified
LOC_Os06g288104/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g426104/11retrotransposon protein, putative, unclassified
LOC_Os10g047404/11retrotransposon protein, putative, unclassified
LOC_Os02g264103/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g269703/11retrotransposon protein, putative, unclassified
LOC_Os12g265703/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g134203/11retrotransposon protein, putative, unclassified
LOC_Os12g289003/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g039003/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g040403/11retrotransposon protein, putative, unclassified
LOC_Os01g400103/11retrotransposon protein, putative, unclassified
LOC_Os04g303503/11retrotransposon protein, putative, unclassified
LOC_Os11g300003/11retrotransposon protein, putative, unclassified
LOC_Os12g055703/11retrotransposon protein, putative, unclassified
LOC_Os01g322503/11retrotransposon protein, putative, unclassified
LOC_Os04g306503/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os08g285203/11retrotransposon protein, putative, unclassified
LOC_Os07g174803/11retrotransposon protein, putative, unclassified
LOC_Os09g131102/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os03g455902/11retrotransposon protein, putative, unclassified
LOC_Os07g245402/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g249102/11retrotransposon protein, putative, unclassified
LOC_Os10g110702/11retrotransposon protein, putative, unclassified
LOC_Os02g137302/11retrotransposon protein, putative, unclassified
LOC_Os01g220502/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g356502/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g280602/11retrotransposon protein, putative, unclassified
LOC_Os05g376202/11retrotransposon protein, putative, unclassified
LOC_Os07g244602/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g156701/11retrotransposon protein, putative, unclassified, expressed
LOC_Os12g227401/11retrotransposon protein, putative, unclassified
LOC_Os11g242801/11retrotransposon protein, putative, unclassified
LOC_Os08g281401/11hypothetical protein
LOC_Os10g137701/11Transposable element protein, putative, MuDR
LOC_Os09g135101/11retrotransposon protein, putative, unclassified
LOC_Os02g142601/11retrotransposon protein, putative, unclassified
LOC_Os02g180601/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g180641/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os07g29460NANA7+17299579..17303314retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g29470Os.45957.4.S1_x_at6/117+17303576..17304803retrotransposon protein, putative, unclassified
LOC_Os07g29480OsAffx.10091.1.S1_at11/117+17305202..17306560transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g29490Os.46012.3.S1_x_at11/117+17313852..17314870retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g29490Os.46012.2.S1_x_at8/117+17313852..17314870retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g29490Os.46012.3.S1_at8/117+17313852..17314870retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g29490Os.27088.1.A1_x_at4/117+17313852..17314870retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g29500Os.39431.1.S1_x_at11/117+17316285..17320113retrotransposon, putative, centromere-specific
LOC_Os07g29500Os.39431.1.S1_at11/117+17316285..17320113retrotransposon, putative, centromere-specific
LOC_Os07g29500OsAffx.25367.1.S1_at1/117+17316285..17320113retrotransposon, putative, centromere-specific
LOC_Os07g29510NANA7+17322638..17323463hypothetical protein
LOC_Os07g29520Os.49985.1.S1_at1/117+17328358..17332727retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g29530OsAffx.28659.1.S1_at11/117+17333241..17333705hypothetical protein

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.46012.3.S1_x_at--1080--107392Chr12:3163902..3163926 (25 bp)
TTGCAAGCCAATTTCAACACCAATT
LOC_Os12g06530
Os.46012.3.S1_x_at--1084--6632Chr08:17040036..17040060 (25 bp)
GTTGTATCTAACTTCTTCTAGGCCA
LOC_Os08g28140
Os.46012.3.S1_x_at--1032--94182Chr12:3164079..3164103 (25 bp)
TCGTGCTTCACATCGTCAAGCGGTC
LOC_Os12g06530
Os.46012.3.S1_x_at--285--70979Chr12:3164093..3164117 (25 bp)
GTCAAGCGGTCAAGCGAATAATGAG
LOC_Os12g06530
Os.46012.3.S1_x_at--1159--30576Chr12:3164288..3164312 (25 bp)
AATCTAGTGTTGCTCAATCAACTGC
LOC_Os12g06530
Os.46012.3.S1_x_at--581--65787Chr12:2558575..2558599 (25 bp)
GATTCTTTGGCTTTTATCTACTTTG
LOC_Os12g05570
Os.46012.3.S1_x_at--645--65598Chr12:15233670..15233694 (25 bp)
GATTATGGTCTTACTTTTGAGAAAG
LOC_Os12g26150
Os.46012.3.S1_x_at--942--43724Chr11:20475652..20475672 (21 bp)
GCCAATTGATATTCGCTTTCACTTT
LOC_Os11g35730
Os.46012.3.S1_x_at--914--105189Chr12:2558715..2558739 (25 bp)
TTCACTTTTTGAGGGATCATGTTGA
LOC_Os12g05570
Os.46012.3.S1_x_at--1031--66539Chr12:18063103..18063127 (25 bp)
GTTGAATTGCAGTTTTTGGACACAA
LOC_Os12g30140
Os.46012.3.S1_x_at--363--96988Chr12:2558796..2558820 (25 bp)
TCACTAAACCTTTGGATTCTAATCG
LOC_Os12g05570
Target Sequence 
TTGCAAGCCAATTTCAACACCAATTGGTTCTACAACTGTGTTGGATCCTGATGAAGATGGTGAAGCTGTTGATCAAAAGG
AGTATAGAAGTATGATTGGATCTTTGTTGTATCTAACTTCTTCTAGGCCAAACATACAATTTGTTGTGTGTTTGTGTGCG
CGCTTTCAAGCTTCTCCTCGTGCTTCACATCGTCAAGCGGTCAAGCGAATAATGAGGAAAAAATCTAGTGTTGCTCAATC
AACTGCTGAATCTGAATATGTTGCTGCTGCTAGTTGTTGTGCACAGATTCTTTGGCTTTTATCTACTTTGAAAGATTATG
GTCTTACTTTTGAGAAAGTACCTCTCTTTTATGATAATACTAGTGCTATCAATATTGCTAAGAATCCTGTTCAACACTCA
CGCACAAAGCCAATTGATATTCGCTTTCACTTTTTGAGGGATCATGTTGAGAAGGGAGATGTTGAATTGCAGTTTTTGGA
CACAAAGTTGCAAATTGCTGATATTTTCACTAAACCTTTGGATTCTAATCG

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 Os.46012.3.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis