Browse Element(s) Details

Os.55579.1.S1_at

Description

gb:AK108355.1
DB_XREF= gi:32993564
TID=Os.55579.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.55579 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-142-C04, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-142-C04, full insert sequence.
FL= gb:AK108355.1
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os06g08340	11/11	AP2 domain containing protein, expressed

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os06g08290	Os.49775.1.S1_at	9/11	6	+	4015075..4018297	terminal acidic SANT 1, putative, expressed
LOC_Os06g08300	OsAffx.4765.1.S1_s_at	3/11	6	+	4018886..4021127	FAD-dependent oxidoreductase family protein, putative
LOC_Os06g08310	Os.8093.2.S1_at	11/11	6	+	4024531..4029376	ATPase 8, plasma membrane-type, putative, expressed
LOC_Os06g08310	Os.8093.1.S1_at	11/11	6	+	4024531..4029376	ATPase 8, plasma membrane-type, putative, expressed
LOC_Os06g08310	Os.8093.2.S1_x_at	11/11	6	+	4024531..4029376	ATPase 8, plasma membrane-type, putative, expressed
LOC_Os06g08310	OsAffx.5813.1.S1_x_at	2/11	6	+	4024531..4029376	ATPase 8, plasma membrane-type, putative, expressed
LOC_Os06g08320	Os.12267.2.S1_s_at	11/11	6	+	4032490..4033175	60S ribosomal protein L39, putative, expressed
LOC_Os06g08320	Os.46185.1.S1_x_at	1/11	6	+	4032490..4033175	60S ribosomal protein L39, putative, expressed
LOC_Os06g08329	NA	NA	6	+	4035587..4035761	NA
LOC_Os06g08340	Os.55579.1.S1_at	11/11	6	+	4039785..4040764	AP2 domain containing protein, expressed
LOC_Os06g08350	OsAffx.15309.1.S1_at	11/11	6	+	4050269..4051805	expressed protein
LOC_Os06g08360	NA	NA	6	+	4061445..4062329	UPF0326 protein hag1, putative, expressed
LOC_Os06g08370	OsAffx.23250.2.S1_x_at	3/11	6	+	4063784..4064226	hypothetical protein

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Gene Ontology Classification

GO id	Type	Name
GO:0006355	biological_process	regulation of transcription, DNA-dependent
GO:0009873	biological_process	ethylene mediated signaling pathway
GO:0005634	cellular_component	nucleus
GO:0003677	molecular_function	DNA binding
GO:0003700	molecular_function	transcription factor activity

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.55579.1.S1_at--179--413	1	Chr06:4040335..4040359 (25 bp)	CGCAGCGCGGCAACAGCAACGACGA	LOC_Os06g08340
Os.55579.1.S1_at--965--381	1	Chr06:4040531..4040555 (25 bp)	CTCCATGGAGATCTCCTGCTGATGT	LOC_Os06g08340
Os.55579.1.S1_at--867--887	1	Chr06:4040550..4040574 (25 bp)	TGATGTGCCCTGTTCATCTACCTGT	LOC_Os06g08340
Os.55579.1.S1_at--490--45	1	Chr06:4040565..4040589 (25 bp)	ATCTACCTGTTCTTCTCTGCTCCAT	LOC_Os06g08340
Os.55579.1.S1_at--751--951	1	Chr06:4040578..4040602 (25 bp)	TCTCTGCTCCATCTCCTGTTTCTTT	LOC_Os06g08340
Os.55579.1.S1_at--834--737	1	Chr06:4040657..4040681 (25 bp)	GTGAGGAAGAACTCTGATCGAGGTT	LOC_Os06g08340
Os.55579.1.S1_at--1152--637	1	Chr06:4040672..4040696 (25 bp)	GATCGAGGTTAGTTTGGTCACAGTG	LOC_Os06g08340
Os.55579.1.S1_at--872--709	1	Chr06:4040688..4040712 (25 bp)	GTCACAGTGAGTTCTGGAGCAGCTT	LOC_Os06g08340
Os.55579.1.S1_at--438--739	1	Chr06:4040694..4040718 (25 bp)	GTGAGTTCTGGAGCAGCTTGTGTAT	LOC_Os06g08340
Os.55579.1.S1_at--2--507	1	Chr06:4040706..4040730 (25 bp)	GCAGCTTGTGTATACGGTAGCATCA	LOC_Os06g08340
Os.55579.1.S1_at--221--193	1	Chr06:4040719..4040743 (25 bp)	ACGGTAGCATCATTTAGAGCATAAT	LOC_Os06g08340

Target Sequence

CGCAGCGCGGCAACAGCAACGACGACGACTCCACCACCTCCTCCTCCGCCGCCGCGTCGTCGCGCGCCGTGATTCCGTCC
CTTCCCGCCGCCGCCGGCGCATTGGGCAATGCGGCGGCGACGGCGGAGTGGAGCGGCGGGTTCCTCGAGGAGCAGTACGT
GGACCAGATGATCGAGGAGCTCCTCGACTCCAACTTCTCCATGGAGATCTCCTGCTGATGTGCCCTGTTCATCTACCTGT
TCTTCTCTGCTCCATCTCCTGTTTCTTTCTCTCTCTCTTTTTTTTCTTTCTTTTTTTTTGTTTTTTTAGTTTAGTAAGCT
ATGTGAGGAAGAACTCTGATCGAGGTTAGTTTGGTCACAGTGAGTTCTGGAGCAGCTTGTGTATACGGTAGCATCATTTA
GAGCATAAT

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