Browse Element(s) Details


Os.53938.1.S1_at

Description gb:AK100947.1
DB_XREF= gi:32986156
TID=Os.53938.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53938 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023138H21, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023138H21, full insert sequence.
FL= gb:AK100947.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g2979011/11Pectinesterase family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g29760Os.8611.1.S1_at10/115+17128613..17135790Ferrochelatase II, chloroplast precursor, putative, expressed
LOC_Os05g29770OsAffx.14875.1.S1_at11/115+17135843..17139216hypothetical protein
LOC_Os05g29780OsAffx.20380.1.S1_x_at1/115+17149095..17152668retrotransposon protein, putative, unclassified
LOC_Os05g29780OsAffx.20380.2.S1_x_at1/115+17149095..17152668retrotransposon protein, putative, unclassified
LOC_Os05g29780OsAffx.22711.3.S1_x_at1/115+17149095..17152668retrotransposon protein, putative, unclassified
LOC_Os05g29780OsAffx.22711.4.A1_x_at1/115+17149095..17152668retrotransposon protein, putative, unclassified
LOC_Os05g29780OsAffx.20380.1.S1_at1/115+17149095..17152668retrotransposon protein, putative, unclassified
LOC_Os05g29780OsAffx.22711.1.S1_x_at1/115+17149095..17152668retrotransposon protein, putative, unclassified
LOC_Os05g29780OsAffx.22927.1.S1_x_at1/115+17149095..17152668retrotransposon protein, putative, unclassified
LOC_Os05g29790Os.53938.1.S1_at11/115+17156022..17159114Pectinesterase family protein, expressed
LOC_Os05g29800OsAffx.27076.1.S1_at11/115+17160992..17162364hypothetical protein
LOC_Os05g29810Os.4893.1.S1_at11/115+17166002..17167249AP2 domain containing protein, expressed
LOC_Os05g29820Os.45976.1.S1_x_at1/115+17178789..17182432transposon protein, putative, CACTA, En/Spm sub-class

Select all/Clear all

Gene Ontology Classification
GO idTypeName
GO:0042545biological_processcell wall modification
GO:0005618cellular_componentcell wall
GO:0009505cellular_componentcell wall (sensu Magnoliophyta)
GO:0030599molecular_functionpectinesterase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53938.1.S1_at--528--9451Chr05:17158648..17158672 (25 bp)
TCGGCCGGCCGTGGAAGAACTTCTC
LOC_Os05g29790
Os.53938.1.S1_at--534--1431Chr05:17158663..17158687 (25 bp)
AGAACTTCTCCAGGACGGTGGTCAT
LOC_Os05g29790
Os.53938.1.S1_at--1103--10511Chr05:17158866..17158890 (25 bp)
TTCACCGTCACCAGCATGGTGCTCG
LOC_Os05g29790
Os.53938.1.S1_at--723--2051Chr05:17158941..17158965 (25 bp)
ACTTCCGATCCACCTATTAGCTAAT
LOC_Os05g29790
Os.53938.1.S1_at--211--6371Chr05:17158947..17158971 (25 bp)
GATCCACCTATTAGCTAATGCATTA
LOC_Os05g29790
Os.53938.1.S1_at--186--10191Chr05:17158984..17159008 (25 bp)
TATATATGATCATCTAAACCCATCT
LOC_Os05g29790
Os.53938.1.S1_at--887--2011Chr05:17159050..17159074 (25 bp)
ACTACTACTATTCGATCGATCTCGG
LOC_Os05g29790
Os.53938.1.S1_at--1094--10211Chr05:17159058..17159082 (25 bp)
TATTCGATCGATCTCGGTGTCGGCA
LOC_Os05g29790
Os.53938.1.S1_at--826--511Chr05:17159064..17159088 (25 bp)
ATCGATCTCGGTGTCGGCATTATTA
LOC_Os05g29790
Os.53938.1.S1_at--184--3971Chr05:17159072..17159096 (25 bp)
CGGTGTCGGCATTATTAGTTAGTTT
LOC_Os05g29790
Os.53938.1.S1_at--1018--8231Chr05:17159079..17159103 (25 bp)
GGCATTATTAGTTAGTTTACTTCTT
LOC_Os05g29790
Target Sequence 
TCGGCCGGCCGTGGAAGAACTTCTCCAGGACGGTGGTCATGGAGTCCTACGTCGGCGGCCTCGTCGACCCGGCCGGGTGG
ATGCCGTGGTCCGGCGACTTCGCGCTCGACACGCTCTTCTACGCCGAGTACAACAACTCCGGCCCCGGCGCCGACACCAG
CCGCCGCGTCGCCTGGCCGGGCTACCACGTCCTCGGCGCCGGCGCCGACGCCGGCAACTTCACCGTCACCAGCATGGTGC
TCGGCGACAACTGGCTGCCCCAGACCGGCGTCCCCTTCACCAGCGGCTTCCTCACTTCCGATCCACCTATTAGCTAATGC
ATTATTTAATTAATTATATATATGATCATCTAAACCCATCTATTAATAATTAATTAATTATAGAATGACAAACACATAAT
GTACTACTACTATTCGATCGATCTCGGTGTCGGCATTATTAGTTAGTTTACTTCTT

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.53938.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis