Browse Element(s) Details

Os.54835.1.S1_s_at

Description

gb:AK106869.1
DB_XREF= gi:32992078
TID=Os.54835.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54835 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-118-D06, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-118-D06, full insert sequence.
FL= gb:AK106869.1
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os09g39760	11/11	Pectinesterase family protein, expressed
LOC_Os01g15039	1/11	pectinesterase family protein, putative, expressed
LOC_Os04g38560	1/11	Pectinesterase family protein, expressed
LOC_Os02g54190	1/11	Pectinesterase, putative, expressed
LOC_Os01g21034	1/11	Pectinesterase-2 precursor, putative, expressed

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os09g39700	Os.54357.1.S1_at	11/11	9	+	22778282..22783254	expressed protein
LOC_Os09g39700	OsAffx.30214.1.S1_x_at	11/11	9	+	22778282..22783254	expressed protein
LOC_Os09g39700	Os.6094.1.S1_at	1/11	9	+	22778282..22783254	expressed protein
LOC_Os09g39710	OsAffx.31174.4.S1_x_at	6/11	9	+	22784556..22786281	retrotransposon protein, putative, unclassified
LOC_Os09g39710	OsAffx.31174.5.S1_x_at	6/11	9	+	22784556..22786281	retrotransposon protein, putative, unclassified
LOC_Os09g39720	Os.12966.1.S1_at	11/11	9	+	22790130..22791505	oxidoreductase, 2OG-Fe oxygenase family protein, expressed
LOC_Os09g39730	OsAffx.27508.10.S1_s_at	9/11	9	+	22791564..22792383	Core histone H2A/H2B/H3/H4 family protein, expressed
LOC_Os09g39740	Os.47343.2.S1_x_at	11/11	9	+	22792734..22797417	ACT domain-containing protein, putative, expressed
LOC_Os09g39740	Os.47343.2.S1_at	11/11	9	+	22792734..22797417	ACT domain-containing protein, putative, expressed
LOC_Os09g39750	OsAffx.18061.1.S1_at	11/11	9	+	22799910..22801700	expressed protein
LOC_Os09g39760	Os.54835.1.S1_s_at	11/11	9	+	22804201..22806568	Pectinesterase family protein, expressed
LOC_Os09g39760	OsAffx.30215.1.S1_at	11/11	9	+	22804201..22806568	Pectinesterase family protein, expressed
LOC_Os09g39760	OsAffx.23254.1.S1_x_at	1/11	9	+	22804201..22806568	Pectinesterase family protein, expressed
LOC_Os09g39770	Os.10654.1.S1_s_at	11/11	9	+	22805525..22806568	C2 domain containing protein, expressed
LOC_Os09g39780	Os.5492.1.S1_at	11/11	9	+	22809423..22810520	Peptidyl-prolyl cis-trans isomerase, putative, expressed
LOC_Os09g39790	Os.53317.1.S1_x_at	11/11	9	+	22810710..22813586	lipase class 3 family protein, putative, expressed
LOC_Os09g39790	Os.53317.2.S1_at	11/11	9	+	22810710..22813586	lipase class 3 family protein, putative, expressed
LOC_Os09g39800	OsAffx.30216.1.S1_at	11/11	9	+	22817548..22817970	hypothetical protein
LOC_Os09g39810	OsAffx.6536.1.S1_at	11/11	9	+	22821100..22821495	Ethylene-responsive transcription factor 14, putative, expressed
LOC_Os09g39820	OsAffx.21171.3.S1_x_at	2/11	9	+	22828444..22834333	retrotransposon protein, putative, unclassified
LOC_Os09g39820	OsAffx.20729.1.S1_x_at	2/11	9	+	22828444..22834333	retrotransposon protein, putative, unclassified
LOC_Os09g39820	OsAffx.21171.5.S1_x_at	1/11	9	+	22828444..22834333	retrotransposon protein, putative, unclassified

Select all/Clear all

Gene Ontology Classification

GO id	Type	Name
GO:0042545	biological_process	cell wall modification
GO:0005576	cellular_component	extracellular region
GO:0005618	cellular_component	cell wall
GO:0005737	cellular_component	cytoplasm
GO:0009505	cellular_component	cell wall (sensu Magnoliophyta)
GO:0030599	molecular_function	pectinesterase activity

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.54835.1.S1_s_at--122--53	5	Chr09:22804997..22805021 (25 bp)	ATCGACTTCATCTTCGGCAACGCAC	LOC_Os09g39760
Os.54835.1.S1_s_at--618--259	1	Chr09:22805015..22805039 (25 bp)	AACGCACGATCCCTCTACGTGGGTT	LOC_Os09g39760
Os.54835.1.S1_s_at--691--993	1	Chr09:22805030..22805054 (25 bp)	TACGTGGGTTGCACCATAAGCTCCG	LOC_Os09g39760
Os.54835.1.S1_s_at--295--173	1	Chr09:22805042..22805066 (25 bp)	ACCATAAGCTCCGTGGCCATGGCGA	LOC_Os09g39760
Os.54835.1.S1_s_at--928--669	1	Chr09:22805221..22805245 (25 bp)	GTTCGCGGAGACGTACCTCGGCGAC	LOC_Os09g39760
Os.54835.1.S1_s_at--1133--505	1	Chr09:22805293..22805317 (25 bp)	GCAGCAGGTGTGGTTCGCGGAGTAC	LOC_Os09g39760
Os.54835.1.S1_s_at--174--1051	1	Chr09:22805402..22805426 (25 bp)	TTCATGGACGTCTCCTACATCGACG	LOC_Os09g39760
Os.54835.1.S1_s_at--782--579	1	Chr09:22805452..22805476 (25 bp)	GACGCCGGAACTCTACGGATCGAGA	LOC_Os09g39760
Os.54835.1.S1_s_at--420--639	1	Chr09:22805469..22805493 (25 bp)	GATCGAGATATACTCCCAGCTAGCT	LOC_Os09g39760
Os.54835.1.S1_s_at--437--157	3	Chr09:22805486..22805510 (25 bp)	AGCTAGCTAGGATCACACACACACA	LOC_Os09g39760
Os.54835.1.S1_s_at--346--331	1	Chr09:22805505..22805529 (25 bp)	CACACACACACACGAGTTTTAATTT	LOC_Os09g39760

Target Sequence

ATCGACTTCATCTTCGGCAACGCACGATCCCTCTACGTGGGTTGCACCATAAGCTCCGTGGCCATGGCGAGCGCGACGGG
GAATAAGGAAGTGACGGGGAGCGTGACGGCGCAGGGGAGGGCGTCGGCGGCGGAGAGGACGGGGTTCGCGTTCGTGCGGT
GCAGCGTGGTGGGGACGGGGCAGGTGTGGCTGGGGAGGGCGTGGGGGCCGTACGCGACGGTGGTGTTCGCGGAGACGTAC
CTCGGCGACGTGGTGGCGGCGGAGGGGTGGAACGACTGGGGCGACCCCGGCAGGCGGCAGCAGGTGTGGTTCGCGGAGTA
CGCGTGCTGGGGCCCCGGATCCGCCACCGCCGCCACCGGCAGGGTGTCCTACGCGCGGCAGCTTGACCAGCGCCAGGCCG
CGCCCTTCATGGACGTCTCCTACATCGACGCCAACCAGTGGGCGCTGCCACCGTCGACGCCGGAACTCTACGGATCGAGA
TATACTCCCAGCTAGCTAGGATCACACACACACACACACACGAGTTTTAATTT

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