Browse Element(s) Details


Os.5580.1.S1_at

Description gb:AK099033.1
DB_XREF= gi:32984242
TID=Os.5580.1
CNT=5
FEA=FLmRNA
TIER=FL
STK=2
UG=Os.5580 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013129L11, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013129L11, full insert sequence.
FL= gb:AK099033.1 gb:AK071999.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g338709/11U1 small nuclear ribonucleoprotein 70 kDa, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g33830OsAffx.30129.1.S1_at11/119+19970022..19974776anthocyanin-related membrane protein 1, putative, expressed
LOC_Os09g33840OsAffx.19826.2.S1_at4/119+19977286..19979138hypothetical protein
LOC_Os09g33840OsAffx.20913.1.A1_at1/119+19977286..19979138hypothetical protein
LOC_Os09g33850OsAffx.30130.1.S1_at11/119+19979959..19985742Phosphatidylethanolamine-binding protein, expressed
LOC_Os09g33860OsAffx.17989.1.S1_s_at11/119+19992273..19995387Protein kinase domain containing protein, expressed
LOC_Os09g33860OsAffx.17989.1.S1_at11/119+19992273..19995387Protein kinase domain containing protein, expressed
LOC_Os09g33860Os.6990.1.S1_at4/119+19992273..19995387Protein kinase domain containing protein, expressed
LOC_Os09g33870Os.5580.1.S1_at9/119+19996685..19999169U1 small nuclear ribonucleoprotein 70 kDa, putative, expressed
LOC_Os09g33876Os.49366.1.S1_at11/119+20000609..20006080ARI, RING finger protein, putative, expressed
LOC_Os09g33882Os.55230.1.S1_at11/119+20006443..20007191expressed protein
LOC_Os09g33882Os.55230.1.S1_x_at11/119+20006443..20007191expressed protein
LOC_Os09g33890OsAffx.30131.1.S1_at11/119+20008662..20010318hypothetical protein
LOC_Os09g33900Os.54331.1.S1_at11/119+20011042..20017178FAD dependent oxidoreductase family protein, expressed
LOC_Os09g33900Os.54331.2.S1_at10/119+20011042..20017178FAD dependent oxidoreductase family protein, expressed
LOC_Os09g33910Os.53863.1.S1_at11/119+20015107..20018910Calcium-dependent protein kinase, isoform AK1, putative, expressed
LOC_Os09g33920OsAffx.17990.1.S1_at11/119+20020280..20022942expressed protein
LOC_Os09g33930Os.10844.1.S1_at11/119+20023466..20026650Protein farnesyltransferase/geranylgeranyltransferase type I alphasubunit, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0000398biological_processnuclear mRNA splicing, via spliceosome
GO:0005634cellular_componentnucleus
GO:0003723molecular_functionRNA binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5580.1.S1_at--406--10191Chr09:19998833..19998857 (25 bp)
TATATCAGCAGAGAGGCCGGCAGCT
LOC_Os09g33870
Os.5580.1.S1_at--428--9791Chr09:19998862..19998886 (25 bp)
TAAGCGGAGCCCAACCGAAGACGAT
LOC_Os09g33870
Os.5580.1.S1_at--925--1091Chr09:19998979..19999003 (25 bp)
AGTGGAGCCAGGCTTCAGCCCTTAT
LOC_Os09g33870
Os.5580.1.S1_at--759--10411Chr09:19999000..19999024 (25 bp)
TTATCAGTCTCATCACCACAGGCAT
LOC_Os09g33870
Os.5580.1.S1_at--287--931Chr09:19999019..19999043 (25 bp)
AGGCATCACAGGGAGCGTCATGACA
LOC_Os09g33870
Os.5580.1.S1_at--230--4411Chr09:19999059..19999083 (25 bp)
GCCACGGTGAACGTCGGCATCAAGA
LOC_Os09g33870
Os.5580.1.S1_at--1021--5811Chr09:19999085..19999109 (25 bp)
GACCGTGGAAACCACTCCAGGAACA
LOC_Os09g33870
Os.5580.1.S1_at--78--1351Chr09:19999117..19999141 (25 bp)
AGAGAGCCGGGACTACAGCCACTAG
LOC_Os09g33870
Os.5580.1.S1_at--776--3371Chr09:19999132..19999156 (25 bp)
CAGCCACTAGAGGTGTCGAGTCCAT
LOC_Os09g33870
Os.5580.1.S1_at--861--9231Chr09:19999152..19999176 (25 bp)
TCCATGGTGGGTTCCTAGTGTTTTA
NONE
Os.5580.1.S1_at--627--991Chr09:19999168..19999192 (25 bp)
AGTGTTTTAACCTGAATCCCTGGCT
NONE
Target Sequence 
TATATCAGCAGAGAGGCCGGCAGCTACAGTAAGCGGAGCCCAACCGAAGACGATGGTGATCGTCGTAAGAGGAGAAGAAG
CCGAGAGCCTGGAGAATTATCTCCATACAAGGAGGATGATGATAACAGCAAAAGAGGAAGAAGTTCAGTGGAGCCAGGCT
TCAGCCCTTATCAGTCTCATCACCACAGGCATCACAGGGAGCGTCATGACAGCAGCAGCCATTCTCGCCACGGTGAACGT
CGGCATCAAGACGACCGTGGAAACCACTCCAGGAACAGGAGATCAGAGAGCCGGGACTACAGCCACTAGAGGTGTCGAGT
CCATGGTGGGTTCCTAGTGTTTTAACCTGAATCCCTGGCT

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.5580.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis