Browse Element(s) Details


Os.47999.3.S1_x_at

Description gb:NM_195318.1
DB_XREF= gi:37531995
TID=Os.47999.3
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.47999 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) OJ1159_D09.32 (OJ1159_D09.32), mRNA
DEF=Oryza sativa (japonica cultivar-group) hypothetical protein (OSJNBb0005F01.11), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1171011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g201705/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g076905/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g161701/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g241201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g210801/11retrotransposon protein, putative, unclassified
LOC_Os04g221101/11retrotransposon protein, putative, unclassified
LOC_Os05g177901/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g228301/11DNA-directed RNA polymerase beta chain, putative
LOC_Os12g124001/11Zinc knuckle family protein
LOC_Os02g476801/11hypothetical protein
LOC_Os10g202001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g361101/11retrotransposon protein, putative, unclassified
LOC_Os04g082801/11retrotransposon protein, putative, unclassified, expressed
LOC_Os09g238701/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os09g132201/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g11680NANA10+6215518..6221203retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11690NANA10+6222373..6229043retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11696Os.45173.1.S1_x_at1/1110+6231780..6234123retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11702NANA10+6234388..6238815retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11710Os.47999.3.S1_x_at11/1110+6244035..6244523retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11710OsAffx.20691.1.S1_x_at1/1110+6244035..6244523retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11720OsAffx.18229.1.S1_x_at11/1110+6245410..6246039hypothetical protein
LOC_Os10g11720OsAffx.18229.1.S1_at11/1110+6245410..6246039hypothetical protein
LOC_Os10g11730Os.46275.1.S1_at10/1110+6249730..6251992expressed protein
LOC_Os10g11740NANA10+6257441..6259614hypothetical protein
LOC_Os10g11750Os.46860.2.S1_at11/1110+6262227..6275459Protease inhibitor/seed storage/LTP family protein, expressed
LOC_Os10g11750Os.46860.2.S1_x_at11/1110+6262227..6275459Protease inhibitor/seed storage/LTP family protein, expressed
LOC_Os10g11750Os.46860.1.S1_at10/1110+6262227..6275459Protease inhibitor/seed storage/LTP family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006354biological_processRNA elongation
GO:0009507cellular_componentchloroplast
GO:0003899molecular_functionDNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.47999.3.S1_x_at--101--39316Chr12:17177139..17177163 (25 bp)
CGGCCTTGATGACGCCAGCAATGAC
NONE
Os.47999.3.S1_x_at--346--88718Chr12:17177145..17177169 (25 bp)
TGATGACGCCAGCAATGACGTCACC
NONE
Os.47999.3.S1_x_at--15--4577Chr10:9798258..9798282 (25 bp)
GCGCGAGAACGCAAACGGAAGGCAC
LOC_Os10g20170
Os.47999.3.S1_x_at--872--4617Chr10:9798260..9798284 (25 bp)
GCGAGAACGCAAACGGAAGGCACCG
LOC_Os10g20170
Os.47999.3.S1_x_at--393--5297Chr10:9798275..9798299 (25 bp)
GAAGGCACCGGGACGAAGCGGGCGG
LOC_Os10g20170
Os.47999.3.S1_x_at--332--4094Chr10:9798314..9798338 (25 bp)
CGACGACCAAAAGAGCGACGGAGAA
LOC_Os10g20170
Os.47999.3.S1_x_at--264--1714Chr10:9798319..9798343 (25 bp)
ACCAAAAGAGCGACGGAGAAGCAAC
LOC_Os10g20170
Os.47999.3.S1_x_at--568--47534Chr12:9827865..9827887 (23 bp)
GAACCTTCGGGTTGACGACGGCGAT
NONE
Os.47999.3.S1_x_at--768--3937Chr10:6244309..6244333 (25 bp)
CGGCGATGAAGCTCCGGCGGTCTCC
LOC_Os10g11710
Os.47999.3.S1_x_at--1117--83735Chr12:12286111..12286172 (25 bp)
GGCGACGACCTTGCGAACCCGACGG
NONE
Os.47999.3.S1_x_at--445--411109Chr12:20179164..20179188 (25 bp)
CGAAGCTAGGGCACACGGCGCTAGA
NONE
Target Sequence 
CGGCCTTGATGACGCCAGCAATGACGTCACCGACGGCGGCGGCGGCTCGGCGAGGCAGACGGCTCGGGCGGCGCACGCTT
GCCGGCGAACGGCGGCGCGAGAACGCAAACGGAAGGCACCGGGACGAAGCGGGCGGCACGGCGAACTCACCGACGACCAA
AAGAGCGACGGAGAAGCAACGGACGGCGACGGCGACGAGGAGGAAGCGGCGGGAACCTTCGGGTTGACGACGGCGATGAA
GCTCCGGCGGTCTCCGGCGGCTGCGAAGGGGCGGACGAGGACGGCGACGACCTTGCGAACCCGACGGCGGTCTTCCCGAG
CGACGGCGACGGCTGAAACGACGGCGGCGCACGGCTGGAGCGGCGGCGGCGACGGCGAAGCTAGGGCACACGGCGCTAGA

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.47999.3.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis