Browse Element(s) Details

Os.3416.2.S1_x_at

Description

gb:AY324880.1
DB_XREF= gi:34577024
TID=Os.3416.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.3416 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) mRNA for 3-phosphoshikimate 1-carboxyvinyltransferase, complete cds
DEF=Oryza sativa (japonica cultivar-group) putative EPSP1 mRNA, partial cds.
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os06g04280	11/11	3-phosphoshikimate 1-carboxyvinyltransferase, chloroplast precursor, putative, expressed

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os06g04250	Os.49653.1.S1_at	11/11	6	+	1788837..1790295	phosphate-responsive 1 family protein, putative, expressed
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

Select all/Clear all

Gene Ontology Classification

GO id	Type	Name
GO:0016089	biological_process	aromatic amino acid family biosynthesis, shikimate pathway
GO:0018920	biological_process	glyphosate metabolism
GO:0009507	cellular_component	chloroplast

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.3416.2.S1_x_at--671--531	1	Chr06:1817382..1817406 (25 bp)	GAAGGTGATGCCTCAAGCGCGAGCT	LOC_Os06g04280
Os.3416.2.S1_x_at--688--267	1	Chr06:1817396..1817420 (25 bp)	AAGCGCGAGCTATTTCTTGGCTGGT	LOC_Os06g04280
Os.3416.2.S1_x_at--843--1081	1	Chr06:1817412..1817436 (25 bp)	TTGGCTGGTGCTGCAATCACTGGAG	LOC_Os06g04280
Os.3416.2.S1_x_at--205--737	1	Chr06:1817758..1817782 (25 bp)	GTGTAACCGTAACTGGTCCACCACG	LOC_Os06g04280
Os.3416.2.S1_x_at--833--723	1	Chr06:1817773..1817797 (25 bp)	GTCCACCACGTGAGCCTTATGGGAA	LOC_Os06g04280
Os.3416.2.S1_x_at--1156--227	1	Chr06:1817833..1817857 (25 bp)	AAATGCCTGATGTTGCCATGACCCT	LOC_Os06g04280
Os.3416.2.S1_x_at--205--1065	1	Chr06:1817874..1817898 (25 bp)	TTCGCTGATGGTCCAACTGCTATCA	LOC_Os06g04280
Os.3416.2.S1_x_at--483--625	1	Chr06:1818173..1818197 (25 bp)	GATGGTTGCAATTCGGACCGAGCTA	LOC_Os06g04280
Os.3416.2.S1_x_at--299--703	1	Chr06:1818204..1818228 (25 bp)	GTAAATTCATTAGGTCCCGTGTCCT	LOC_Os06g04280
Os.3416.2.S1_x_at--288--425	1	Chr06:1818220..1818244 (25 bp)	CCGTGTCCTTTCATTCTTCAAGTAG	LOC_Os06g04280
Os.3416.2.S1_x_at--701--521	1	Chr06:1818259..1818283 (25 bp)	GAATTCTCCTTCAATGATGTTTAAA	LOC_Os06g04280

Target Sequence

GAAGGTGATGCCTCAAGCGCGAGCTATTTCTTGGCTGGTGCTGCAATCACTGGAGGCACTGTGACAGTTCAAGGTTGTGG
TACGACCAGTTTGCAGGGTGATGTCAAATTTGCTGAGGTACTTGAGATGATGGGAGCAAAGGTTACATGGACTGACACCA
GTGTAACCGTAACTGGTCCACCACGTGAGCCTTATGGGAAGAAACACCTGAAAGCTGTTGATGTCAACATGAACAAAATG
CCTGATGTTGCCATGACCCTTGCCGTTGTTGCACTCTTCGCTGATGGTCCAACTGCTATCAGAGATGGCTTCCTGGAGAG
TAAAGGAAACCGAAAGGATGGTTGCAATTCGGACCGAGCTAACAAAGGTAAATTCATTAGGTCCCGTGTCCTTTCATTCT
TCAAGTAGTTTGTTCATAAGTTGAATTCTCCTTCAATGATGTTTAAA

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