Browse Element(s) Details

Os.15940.2.S1_at

Description

gb:AK072896.1
DB_XREF= gi:32982919
TID=Os.15940.2
CNT=3
FEA=FLmRNA
TIER=FL
STK=0
UG=Os.15940 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023145C13, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023145C13, full insert sequence.
FL= gb:AK072896.1
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os06g04600	6/11	Brix domain containing protein, expressed

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os06g04560	Os.48368.1.S1_s_at	11/11	6	+	1972537..1982164	armadillo/beta-catenin repeat family protein, putative, expressed
LOC_Os06g04560	Os.48368.1.S1_at	11/11	6	+	1972537..1982164	armadillo/beta-catenin repeat family protein, putative, expressed
LOC_Os06g04560	OsAffx.15262.1.S1_at	11/11	6	+	1972537..1982164	armadillo/beta-catenin repeat family protein, putative, expressed
LOC_Os06g04570	OsAffx.27455.1.S1_at	11/11	6	+	1986292..1987387	hypothetical protein
LOC_Os06g04580	OsAffx.15263.1.S1_at	10/11	6	+	1989030..1992736	YEATS family protein, expressed
LOC_Os06g04580	Os.10792.1.S1_at	10/11	6	+	1989030..1992736	YEATS family protein, expressed
LOC_Os06g04590	OsAffx.27456.1.S1_at	3/11	6	+	1999174..1999570	Auxin responsive protein, expressed
LOC_Os06g04600	Os.15940.1.S1_at	11/11	6	+	1999873..2008069	Brix domain containing protein, expressed
LOC_Os06g04600	Os.15940.2.S1_at	6/11	6	+	1999873..2008069	Brix domain containing protein, expressed
LOC_Os06g04610	Os.5449.1.S2_at	11/11	6	+	2008997..2014660	ribosome-binding factor A, chloroplast precursor, putative, expressed
LOC_Os06g04610	Os.5449.1.S1_at	11/11	6	+	2008997..2014660	ribosome-binding factor A, chloroplast precursor, putative, expressed
LOC_Os06g04620	Os.49218.1.S1_at	11/11	6	+	2016779..2018352	GDP-mannose 4,6 dehydratase 1, putative, expressed
LOC_Os06g04630	OsAffx.15264.1.S1_at	11/11	6	+	2020817..2021420	hypothetical protein
LOC_Os06g04640	Os.11713.2.S1_x_at	11/11	6	+	2022358..2027120	DNA-binding bromodomain-containing protein, putative, expressed
LOC_Os06g04640	Os.11713.2.S1_at	11/11	6	+	2022358..2027120	DNA-binding bromodomain-containing protein, putative, expressed
LOC_Os06g04640	Os.11713.1.S1_x_at	5/11	6	+	2022358..2027120	DNA-binding bromodomain-containing protein, putative, expressed
LOC_Os06g04650	Os.6734.1.S1_at	11/11	6	+	2027123..2029229	Peptide methionine sulfoxide reductase family protein, expressed
LOC_Os06g04660	Os.11678.1.S1_at	11/11	6	+	2029470..2033811	oxidoreductase, 2OG-Fe oxygenase family protein, expressed
LOC_Os06g04660	Os.11678.2.S1_at	9/11	6	+	2029470..2033811	oxidoreductase, 2OG-Fe oxygenase family protein, expressed

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Gene Ontology Classification

GO id	Type	Name
GO:0006364	biological_process	rRNA processing
GO:0005730	cellular_component	nucleolus
GO:0005732	cellular_component	small nucleolar ribonucleoprotein complex
GO:0015030	cellular_component	Cajal body
GO:0016363	cellular_component	nuclear matrix

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.15940.2.S1_at--228--1019	1	Chr06:2000139..2000163 (25 bp)	TATATTGCCACATATACACCCGGGC	LOC_Os06g04600
Os.15940.2.S1_at--947--33	1	Chr06:2000126..2000150 (25 bp)	ATACACCCGGGCTAGCTAGATGCTT	LOC_Os06g04600
Os.15940.2.S1_at--265--1001	1	Chr06:2000099..2000123 (25 bp)	TAGCTAGCTACCTTTTCAACCTCAT	LOC_Os06g04600
Os.15940.2.S1_at--74--1043	1	Chr06:2000062..2000086 (25 bp)	TTATCACGACTACTCTTTCCATTAA	LOC_Os06g04600
Os.15940.2.S1_at--262--495	1	Chr06:2000001..2000025 (25 bp)	GCATTTTGGATATCTCGATCTCTAG	LOC_Os06g04600
Os.15940.2.S1_at--425--999	1	Chr06:1999959..1999983 (25 bp)	TAGCTTCTTAATTAGCCGGCCGGTC	LOC_Os06g04600
Os.15940.2.S1_at--724--669	1	Chr06:1999868..1999892 (25 bp)	GTTCGAACTCATCACTCACCAAAAA	NONE
Os.15940.2.S1_at--522--157	1	Chr06:1999715..1999739 (25 bp)	AGCTAGCTCCGACGATCAAGATGAT	NONE
Os.15940.2.S1_at--723--303	1	Chr06:1999689..1999713 (25 bp)	AATCGATGAATCTCGATCCGGCCGG	NONE
Os.15940.2.S1_at--70--55	1	Chr06:1999674..1999698 (25 bp)	ATCCGGCCGGTGTGGTTCATATTTA	NONE
Os.15940.2.S1_at--557--979	1	Chr06:1999621..1999645 (25 bp)	TAAGCTAGCTGATCTTGCCGGAGCA	NONE

Target Sequence

TATATTGCCACATATACACCCGGGCTAGCTAGATGCTTGCTAGCTAGCTACCTTTTCAACCTCATCGTCATTAACTATTA
TCACGACTACTCTTTCCATTAATCAAAATGTATACATATCAAGAACACATGCATGGTTGCATTTTGGATATCTCGATCTC
TAGCTATATAGCTAGCTAGCTAGCTTCTTAATTAGCCGGCCGGTCATTCATTACCTTAATTTGCATGTACAACGAGACCA
AAAAAATAATGAGTAAATGATGATTCAGTTCGTTCGAACTCATCACTCACCAAAAAAAAAAAAAACAGCATACATGCAAC
GACACCAGCTAAGCTAGCTAGCTATAGCTCCAAATTAATTAAACTTCGCCTTCGTCTTCGTCTACCTCTAGCTAGGGCGC
GCGCTAATCTGCGCATGCGCCGCTAGCTAGCTCCGACGATCAAGATGATCAATCGATGAATCTCGATCCGGCCGGTGTGG
TTCATATTTACACGGTAGTATTCATTGCTAGATCGAGCTAAGCTAGCTGATCTTGCCGGAGCA

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