Browse Element(s) Details


OsAffx.30226.2.S1_s_at

Description gb:NM_195760.1
DB_XREF= gi:37532879
TID=OsAffx.30226.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retrotransposon-related protein (OSJNBb0008A05.26), mRNA.
PROD=putative retrotransposon-related protein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g3567011/11hypothetical protein
LOC_Os10g1842011/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os03g4645010/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g0145010/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g2332010/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g5361010/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g191609/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os09g137909/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g279109/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g187808/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g052507/11retrotransposon protein, putative, unclassified
LOC_Os01g242607/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g733807/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os04g329107/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g150307/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g144106/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g108906/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g055505/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g724005/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g139605/11retrotransposon protein, putative, unclassified
LOC_Os02g123905/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g212004/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g086404/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g179704/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g017804/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g119404/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g083703/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g232403/11hypothetical protein
LOC_Os12g357403/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g252802/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g319202/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g347702/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g173902/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g107101/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g112901/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g351101/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g35610Os.18440.1.S1_at11/112+21412164..21415259expressed protein
LOC_Os02g35610Os.11016.1.S1_x_at11/112+21412164..21415259expressed protein
LOC_Os02g35620NANA2+21414355..21416497expressed protein
LOC_Os02g35630OsAffx.12697.1.S1_x_at11/112+21419788..21425837ATP-dependent Clp protease ATP-binding subunit ClpX, putative, expressed
LOC_Os02g35630Os.21406.1.A1_at11/112+21419788..21425837ATP-dependent Clp protease ATP-binding subunit ClpX, putative, expressed
LOC_Os02g35640Os.22460.1.S1_at11/112+21426356..21429114pRGR1, putative, expressed
LOC_Os02g35640OsAffx.12361.1.S1_at6/112+21426356..21429114pRGR1, putative, expressed
LOC_Os02g35650OsAffx.12362.1.S1_at11/112+21429533..21429931Late embryogenesis abundant protein
LOC_Os02g35660OsAffx.12363.1.S1_at10/112+21430680..21433485Helix-loop-helix DNA-binding domain containing protein, expressed
LOC_Os02g35670OsAffx.30226.2.S1_s_at11/112+21439167..21439843hypothetical protein
LOC_Os02g35670OsAffx.442.1.S1_x_at3/112+21439167..21439843hypothetical protein
LOC_Os02g35670OsAffx.442.1.S1_at1/112+21439167..21439843hypothetical protein
LOC_Os02g35670OsAffx.30226.2.S1_x_at1/112+21439167..21439843hypothetical protein
LOC_Os02g35680OsAffx.24587.1.S1_x_at11/112+21440709..21441186hypothetical protein
LOC_Os02g35690Os.18021.1.S1_at11/112+21443732..21445471expressed protein
LOC_Os02g35700Os.5448.1.S1_at11/112+21447255..21450023Nucleoside diphosphate kinase family protein, expressed
LOC_Os02g35710NANA2+21452107..21452475hypothetical protein
LOC_Os02g35720Os.24019.1.S1_at9/112+21456409..21458639Microsomal signal peptidase 25 kDa subunit family protein, expressed
LOC_Os02g35730NANA2+21462415..21462882hypothetical protein
LOC_Os02g35740NANA2+21464575..21465267hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.30226.2.S1_s_at--805--81519Chr10:256315..256339 (25 bp)
GGAAAGCTGTTCAGTGGATTTTCAG
LOC_Os10g01450
OsAffx.30226.2.S1_s_at--455--75121Chr12:21075843..21075867 (25 bp)
GTGGATTTTCAGGTACCTCAGAGGC
LOC_Os12g34770
OsAffx.30226.2.S1_s_at--734--65123Chr12:21075846..21075870 (25 bp)
GATTTTCAGGTACCTCAGAGGCACA
LOC_Os12g34770
OsAffx.30226.2.S1_s_at--1128--69717Chr10:256340..256364 (25 bp)
GTACCTCAGAGGCACAGCTGATGCT
LOC_Os10g01450
OsAffx.30226.2.S1_s_at--825--61919Chr10:256348..256372 (25 bp)
GAGGCACAGCTGATGCTTGCTTGAA
LOC_Os10g01450
OsAffx.30226.2.S1_s_at--447--82319Chr10:256350..256374 (25 bp)
GGCACAGCTGATGCTTGCTTGAAGT
LOC_Os10g01450
OsAffx.30226.2.S1_s_at--823--21521Chr10:256353..256377 (25 bp)
ACAGCTGATGCTTGCTTGAAGTTTG
LOC_Os10g01450
OsAffx.30226.2.S1_s_at--406--79511Chr01:10054209..10054407 (25 bp)
GGATATGTGGATTCAGATTTTGCTG
LOC_Os01g17970
OsAffx.30226.2.S1_s_at--217--64719Chr10:256434..256458 (25 bp)
GATAAGAGAAGGTCACTCACAGGTT
LOC_Os10g01450
OsAffx.30226.2.S1_s_at--42--59520Chr10:256439..256463 (25 bp)
GAGAAGGTCACTCACAGGTTATGTG
LOC_Os10g01450
OsAffx.30226.2.S1_s_at--198--78319Chr10:256444..256468 (25 bp)
GGTCACTCACAGGTTATGTGTTTAC
LOC_Os10g01450
Target Sequence 
GGAAAGCTGTTCAGTGGATTTTCAGGTACCTCAGAGGCACAGCTGATGCTTGCTTGAAGTTTGGCAGGACTGATAAGGGG
CTTGTTGGATATGTGGATTCAGATTTTGCTGCAGATTTGGATAAGAGAAGGTCACTCACAGGTTATGTGTTTAC

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.30226.2.S1_s_at     

Putative homologies in rice

Putative homologies in arabidopsis