Browse Element(s) Details

Os.7.1.S1_x_at

Description

gb:D12632.1
DB_XREF= gi:391874
TID=Os.7.1
CNT=27
FEA=FLmRNA
TIER=FL+Stack
STK=14
UG=Os.7 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) mRNA for 40S subunit ribosomal protein, complete cds.
PROD=40S subunit ribosomal protein
FL= gb:AK120319.1 gb:AK062184.1 gb:D12632.1
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os06g04290	11/11	40S ribosomal protein S20, putative, expressed
LOC_Os09g08320	1/11

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os06g04260	NA	NA	6	+	1804377..1806604	expressed protein
LOC_Os06g04270	Os.609.1.S2_a_at	11/11	6	+	1807790..1811336	Transketolase, chloroplast precursor, putative, expressed
LOC_Os06g04280	Os.3416.1.S1_at	11/11	6	+	1815180..1818799	3-phosphoshikimate 1-carboxyvinyltransferase, chloroplast precursor, putative, expressed
LOC_Os06g04280	Os.3416.2.S1_x_at	11/11	6	+	1815180..1818799	3-phosphoshikimate 1-carboxyvinyltransferase, chloroplast precursor, putative, expressed
LOC_Os06g04280	Os.3416.1.S1_a_at	11/11	6	+	1815180..1818799	3-phosphoshikimate 1-carboxyvinyltransferase, chloroplast precursor, putative, expressed
LOC_Os06g04290	Os.7.3.S1_x_at	11/11	6	+	1819087..1821028	40S ribosomal protein S20, putative, expressed
LOC_Os06g04290	Os.7.1.S1_x_at	11/11	6	+	1819087..1821028	40S ribosomal protein S20, putative, expressed
LOC_Os06g04290	Os.7.1.S1_a_at	11/11	6	+	1819087..1821028	40S ribosomal protein S20, putative, expressed
LOC_Os06g04300	Os.7.2.S1_at	11/11	6	+	1821808..1825370	RNA 2'-phosphotransferase, Tpt1/KptA family protein, expressed
LOC_Os06g04310	OsAffx.15258.1.S1_at	11/11	6	+	1827170..1830737	hypothetical protein
LOC_Os06g04320	Os.57388.1.S1_at	11/11	6	+	1832130..1837026	hypothetical protein
LOC_Os06g04320	OsAffx.15259.1.S1_at	7/11	6	+	1832130..1837026	hypothetical protein
LOC_Os06g04330	Os.34404.1.S1_at	11/11	6	+	1837613..1841800	expressed protein
LOC_Os06g04340	NA	NA	6	+	1843992..1847536	expressed protein

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Gene Ontology Classification

GO id	Type	Name
GO:0006412	biological_process	protein biosynthesis
GO:0015935	cellular_component	small ribosomal subunit
GO:0003735	molecular_function	structural constituent of ribosome

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.7.1.S1_x_at--797--285	1	Chr06:1820872..1820896 (25 bp)	AAGTCCGGCAAGATCGGCTTCGAGA	LOC_Os06g04290
Os.7.1.S1_x_at--1015--175	1	Chr06:1820688..1820814 (25 bp)	ACCTCGAGAAAGTCTGCGGTGATCT	LOC_Os06g04290
Os.7.1.S1_x_at--541--595	1	Chr06:1819449..1819469 (21 bp)	GAGAAGGTACCAACACCTGGGATCG	LOC_Os06g04290
Os.7.1.S1_x_at--1145--49	1	Chr06:1819428..1819452 (25 bp)	ATCGGTTTGAGATGCGGGTGCACAA	LOC_Os06g04290
Os.7.1.S1_x_at--791--771	2	Chr09:4298883..4298903 (21 bp)	GGGTGATTGATCTTGTCAGCTCTGC	LOC_Os09g08320
Os.7.1.S1_x_at--642--873	1	Chr06:1819388..1819412 (25 bp)	TGTCAGCTCTGCAGATGTTGTCAAG	LOC_Os06g04290
Os.7.1.S1_x_at--968--801	1	Chr06:1819331..1819355 (25 bp)	GGAGGTTGAAGTGACCATCAGCGAC	LOC_Os06g04290
Os.7.1.S1_x_at--145--1041	1	Chr06:1819210..1819234 (25 bp)	TTTTGTTCATCTATAGGCTCTCGGC	LOC_Os06g04290
Os.7.1.S1_x_at--684--953	1	Chr06:1819201..1819225 (25 bp)	TCTATAGGCTCTCGGCGGTTAATTC	LOC_Os06g04290
Os.7.1.S1_x_at--561--395	1	Chr06:1819186..1819210 (25 bp)	CGGTTAATTCCGACCATCTGTTATC	LOC_Os06g04290
Os.7.1.S1_x_at--563--1083	1	Chr06:1819145..1819169 (25 bp)	TTGTGACTCATGTCTGTTCCAACAT	LOC_Os06g04290

Target Sequence

AAGTCCGGCAAGATCGGCTTCGAGAGCTCGCAGGAGGTGCAGCACAGGATCCGCATCACCCTCTCCTCCAAGAGCGTCAA
GAACCTCGAGAAAGTCTGCGGTGATCTGGTGAAGGGAGCCAAGGACAAGAGCTTGAAGGTGAAGGGCCCCGTGCGGATGC
CCACCAAGGTGCTCCACATCACCACCAGGAAGTCTCCTTGTGGAGAAGGTACCAACACCTGGGATCGGTTTGAGATGCGG
GTGCACAAAAGGGTGATTGATCTTGTCAGCTCTGCAGATGTTGTCAAGCAGATCACCTCAATCACCATTGAGCCAGGTGT
GGAGGTTGAAGTGACCATCAGCGACCAGTAAAATGCTGCTATCCAACAGGTGGAGAAATTCGGTGAACAGGGTAGGGTAT
TTCAGAAAGTTTTTAGCATGAGAACACTGGTGGAACAGAGTTTTTGTTCATCTATAGGCTCTCGGCGGTTAATTCCGACC
ATCTGTTATCTAAGCTATCATAAATCTTGTGACTCATGTCTGTTCCAACAT

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:

Putative homologies in rice

Putative homologies in arabidopsis