Browse Element(s) Details


Os.20406.4.S1_at

Description gb:AK111344.1
DB_XREF= gi:32996553
TID=Os.20406.4
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.20406 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-181-F12, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-181-F12, full insert sequence.
FL= gb:AK111344.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g493329/11cellulose synthase-like protein CslE, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g49290Os.47463.1.S1_x_at6/112+30115817..30119496transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os02g49290Os.14491.2.S1_x_at4/112+30115817..30119496transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os02g49300NANA2+30122093..30125424transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os02g49310Os.49207.1.S1_at11/112+30129487..30132803Protein kinase G11A, putative, expressed
LOC_Os02g49320Os.9750.1.S1_at11/112+30133788..30137583sucrase, putative, expressed
LOC_Os02g49326Os.27449.1.S1_at11/112+30138391..30142823SET domain-containing protein, putative, expressed
LOC_Os02g49332OsAffx.3008.1.S1_at11/112+30142989..30147946cellulose synthase-like protein CslE, putative, expressed
LOC_Os02g49332Os.20406.3.S1_x_at11/112+30142989..30147946cellulose synthase-like protein CslE, putative, expressed
LOC_Os02g49332Os.20406.1.S1_a_at11/112+30142989..30147946cellulose synthase-like protein CslE, putative, expressed
LOC_Os02g49332Os.20406.4.S1_at9/112+30142989..30147946cellulose synthase-like protein CslE, putative, expressed
LOC_Os02g49340OsAffx.3009.1.S1_at11/112+30149093..30150461nitrate-induced NOI protein, putative, expressed
LOC_Os02g49350OsAffx.12563.1.S1_at11/112+30151732..30152756Plastocyanin-like domain containing protein, expressed
LOC_Os02g49350Os.7446.1.S1_s_at11/112+30151732..30152756Plastocyanin-like domain containing protein, expressed
LOC_Os02g49360Os.14816.1.S1_at11/112+30153349..30155848tRNA methyltransferase family protein, expressed
LOC_Os02g49370Os.8891.1.S1_at10/112+30158404..30159572leafy cotyledon1, putative, expressed
LOC_Os02g49380NANA2+30163597..30166399hypothetical protein
LOC_Os02g49390NANA2+30170408..30176634retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
GO:0000271biological_processpolysaccharide biosynthesis
GO:0006970biological_processresponse to osmotic stress
GO:0009414biological_processresponse to water deprivation
GO:0009832biological_processcell wall biosynthesis (sensu Magnoliophyta)
GO:0009834biological_processsecondary cell wall biosynthesis (sensu Magnoliophyta)
GO:0030244biological_processcellulose biosynthesis
GO:0005886cellular_componentplasma membrane
GO:0016740molecular_functiontransferase activity
GO:0016757molecular_functiontransferase activity, transferring glycosyl groups
GO:0016759molecular_functioncellulose synthase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.20406.4.S1_at--973--9691Chr02:30143355..30143379 (25 bp)
TCAAAGGTACCTCCCGGCTCTCGAT
LOC_Os02g49332
Os.20406.4.S1_at--1090--8311Chr02:30143370..30143393 (24 bp)
GGCTCTCGATAGTACCAGCAACTGT
LOC_Os02g49332
Os.20406.4.S1_at--795--10051NONE
TAGTACCAGCAACTGTTATCAAGGT
NONE
Os.20406.4.S1_at--682--6791NONE
GTTATCAAGGTTAATCTGTGTCGCA
NONE
Os.20406.4.S1_at--177--7891Chr02:30143401..30143425 (25 bp)
GGTTAATCTGTGTCGCAATTCCTTC
LOC_Os02g49332
Os.20406.4.S1_at--137--9771Chr02:30143404..30143428 (25 bp)
TAATCTGTGTCGCAATTCCTTCTCC
LOC_Os02g49332
Os.20406.4.S1_at--486--8671Chr02:30143409..30143433 (25 bp)
TGTGTCGCAATTCCTTCTCCTTGCT
LOC_Os02g49332
Os.20406.4.S1_at--903--4931Chr02:30143431..30143455 (25 bp)
GCTTGGTTTGTTCTTTCATTGGATA
LOC_Os02g49332
Os.20406.4.S1_at--478--271Chr02:30143453..30143477 (25 bp)
ATATGTACTGATTATCCTTTGCTCA
LOC_Os02g49332
Os.20406.4.S1_at--113--7011Chr02:30143457..30143481 (25 bp)
GTACTGATTATCCTTTGCTCAAAAA
LOC_Os02g49332
Os.20406.4.S1_at--828--10091Chr02:30143485..30143509 (25 bp)
TATGTAGTATTGATTACGTTTGCTC
LOC_Os02g49332
Target Sequence 
TCAAAGGTACCTCCCGGCTCTCGATAGTACCAGCAACTGTTATCAAGGTTAATCTGTGTCGCAATTCCTTCTCCTTGCTT
GGTTTGTTCTTTCATTGGATATGTACTGATTATCCTTTGCTCAAAAAAGATATGTAGTATTGATTACGTTTGCTC

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:
extend bp around Os.20406.4.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis