Browse Element(s) Details

Os.50638.1.S1_at

Description

gb:AY345235.1
DB_XREF= gi:33637701
TID=Os.50638.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.50638 (NCBI UniGene Cluster)
DEF=Oryza sativa transcription factor RCBF4 mRNA, complete cds.
PROD=transcription factor RCBF4
FL= gb:AY345235.1 gb:AF243384.1
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os06g06970	11/11	AP2 domain containing protein, expressed

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os06g06930	NA	NA	6	+	3285676..3288132	D-mannose binding lectin family protein
LOC_Os06g06940	OsAffx.27482.1.S1_at	11/11	6	+	3293198..3295173	S-locus-like receptor protein kinase, putative
LOC_Os06g06950	OsAffx.4746.1.S1_x_at	11/11	6	+	3300365..3302146	hypothetical protein
LOC_Os06g06950	OsAffx.4746.1.S1_at	11/11	6	+	3300365..3302146	hypothetical protein
LOC_Os06g06950	OsAffx.22457.1.A1_x_at	1/11	6	+	3300365..3302146	hypothetical protein
LOC_Os06g06960	OsAffx.27482.2.S1_s_at	11/11	6	+	3304185..3306862	D-mannose binding lectin family protein, expressed
LOC_Os06g06970	Os.50638.1.S1_at	11/11	6	+	3309867..3310810	AP2 domain containing protein, expressed
LOC_Os06g06970	OsAffx.4747.1.S1_s_at	11/11	6	+	3309867..3310810	AP2 domain containing protein, expressed
LOC_Os06g06980	Os.4198.1.S1_at	11/11	6	+	3313113..3314453	Caffeoyl-CoA O-methyltransferase 1, putative, expressed
LOC_Os06g06980	Os.4198.1.S1_x_at	11/11	6	+	3313113..3314453	Caffeoyl-CoA O-methyltransferase 1, putative, expressed
LOC_Os06g06990	OsAffx.27483.1.S1_at	11/11	6	+	3316032..3316379	hypothetical protein
LOC_Os06g07000	Os.25299.1.S1_x_at	11/11	6	+	3318113..3321611	F-box domain containing protein, expressed
LOC_Os06g07000	OsAffx.10341.1.S1_x_at	4/11	6	+	3318113..3321611	F-box domain containing protein, expressed
LOC_Os06g07010	Os.25299.3.A1_at	11/11	6	+	3321910..3326627	transposon protein, putative, unclassified, expressed
LOC_Os06g07020	Os.23613.1.S1_at	10/11	6	+	3327558..3330550	Zinc finger, C2H2 type family protein, expressed

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Gene Ontology Classification

GO id	Type	Name
GO:0006355	biological_process	regulation of transcription, DNA-dependent
GO:0009409	biological_process	response to cold
GO:0009414	biological_process	response to water deprivation
GO:0009631	biological_process	cold acclimation
GO:0009651	biological_process	response to salt stress
GO:0009686	biological_process	gibberellic acid biosynthesis
GO:0016049	biological_process	cell growth
GO:0048510	biological_process	regulation of timing of transition from vegetative to reproductive phase
GO:0005634	cellular_component	nucleus
GO:0003677	molecular_function	DNA binding
GO:0003700	molecular_function	transcription factor activity
GO:0016563	molecular_function	transcriptional activator activity

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.50638.1.S1_at--775--77	1	Chr06:3310306..3310330 (25 bp)	ATGTGCAACGCGCTGCCTGCAAGGC	LOC_Os06g06970
Os.50638.1.S1_at--614--719	2	Chr06:3310414..3310438 (25 bp)	GTCGGCACCCGTTCTGTCAGCCAAA	LOC_Os06g06970
Os.50638.1.S1_at--1144--671	1	Chr06:3310424..3310448 (25 bp)	GTTCTGTCAGCCAAACAATGCGAAT	LOC_Os06g06970
Os.50638.1.S1_at--1122--327	1	Chr06:3310435..3310459 (25 bp)	CAAACAATGCGAATTCATCTTTCTT	LOC_Os06g06970
Os.50638.1.S1_at--28--957	3	Chr06:3310460..3310484 (25 bp)	TCTTCACTAGATTGTTGGATGTTAA	LOC_Os06g06970
Os.50638.1.S1_at--385--271	1	Chr06:3310490..3310514 (25 bp)	AAGCTTATCAGCAGTAGCAGAGCAA	LOC_Os06g06970
Os.50638.1.S1_at--204--515	3	Chr06:3310511..3310535 (25 bp)	GCAAAAGGATCGTTGTGCCTGCGAA	LOC_Os06g06970
Os.50638.1.S1_at--463--729	3	Chr06:3310525..3310549 (25 bp)	GTGCCTGCGAAAAAATCCCATTTCA	LOC_Os06g06970
Os.50638.1.S1_at--735--243	4	Chr06:3310536..3310560 (25 bp)	AAAATCCCATTTCATTTTGCATGGT	LOC_Os06g06970
Os.50638.1.S1_at--437--789	2	Chr06:3310558..3310582 (25 bp)	GGTTACAAATTCTTACACTGCTCTT	LOC_Os06g06970
Os.50638.1.S1_at--412--217	1	Chr06:3310572..3310596 (25 bp)	ACACTGCTCTTTTGCTCGAATACAT	LOC_Os06g06970

Target Sequence

ATGTGCAACGCGCTGCCTGCAAGGCCATCGCCGAGTTCCAGCGCCGGGCCGGGGGAGCACCGCCACTGCCACTGCCACCT
CCGGCGATGCTGCATCGACCGCTCCTCCGTCGGCACCCGTTCTGTCAGCCAAACAATGCGAATTCATCTTTCTTTCTTCA
CTAGATTGTTGGATGTTAATGTCAAAGCTTATCAGCAGTAGCAGAGCAAAAGGATCGTTGTGCCTGCGAAAAAATCCCAT
TTCATTTTGCATGGTTACAAATTCTTACACTGCTCTTTTGCTCGAATACAT

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