Browse Element(s) Details


Os.53956.1.S1_at

Description gb:AK101009.1
DB_XREF= gi:32986218
TID=Os.53956.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53956 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023148H12, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023148H12, full insert sequence.
FL= gb:AK101009.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g1230011/11Pectate lyase precursor, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g12230OsAffx.11999.1.S1_at7/112+6374629..6375930hypothetical protein
LOC_Os02g12240OsAffx.2692.1.S1_at2/112+6376517..6377029hypothetical protein
LOC_Os02g12250OsAffx.24209.1.S1_at10/112+6382076..6382927expressed protein
LOC_Os02g12260OsAffx.2583.1.S1_at10/112+6385765..6387143hypothetical protein
LOC_Os02g12270NANA2+6387518..6387859hypothetical protein
LOC_Os02g12280OsAffx.24211.1.S1_at11/112+6389914..6391121hypothetical protein
LOC_Os02g12290OsAffx.2584.1.S1_at11/112+6397342..6399236Nuclear ribonuclease Z, putative
LOC_Os02g12300Os.53956.1.S1_at11/112+6399412..6402186Pectate lyase precursor, putative, expressed
LOC_Os02g12300OsAffx.18481.1.S1_x_at1/112+6399412..6402186Pectate lyase precursor, putative, expressed
LOC_Os02g12310Os.39041.1.S1_s_at11/112+6404019..6405861No apical meristem protein, expressed
LOC_Os02g12310Os.10944.1.S1_at10/112+6404019..6405861No apical meristem protein, expressed
LOC_Os02g12320NANA2+6406853..6415392retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os02g12330OsAffx.12000.1.S1_at11/112+6418378..6419378hypothetical protein
LOC_Os02g12330OsAffx.12000.1.S1_x_at10/112+6418378..6419378hypothetical protein
LOC_Os02g12340OsAffx.12003.2.S1_at11/112+6422491..6424004hypothetical protein
LOC_Os02g12340OsAffx.12003.2.S1_s_at11/112+6422491..6424004hypothetical protein
LOC_Os02g12340OsAffx.12003.1.S1_at9/112+6422491..6424004hypothetical protein
LOC_Os02g12350Os.20204.2.S1_a_at11/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12350Os.20204.1.S1_s_at10/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12350Os.20204.1.S1_x_at3/112+6424581..6430587histone deacetylase, putative, expressed
LOC_Os02g12350Os.28463.1.S1_x_at1/112+6424581..6430587histone deacetylase, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0009664biological_processcell wall organization and biogenesis (sensu Magnoliophyta)
GO:0016829molecular_functionlyase activity
GO:0030570molecular_functionpectate lyase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53956.1.S1_at--1051--2091Chr02:6399940..6400386 (25 bp)
ACATCGCCGCCAAACTGATCACGAG
LOC_Os02g12300
Os.53956.1.S1_at--145--8851Chr02:6399925..6399948 (24 bp)
TGATCACGAGGCACTATGCGCCGGA
LOC_Os02g12300
Os.53956.1.S1_at--482--4811Chr02:6399874..6399898 (25 bp)
GCTCGGACGGAGACCTGTTCATGAA
LOC_Os02g12300
Os.53956.1.S1_at--852--5991Chr02:6399865..6399889 (25 bp)
GAGACCTGTTCATGAACGGCGCCTA
LOC_Os02g12300
Os.53956.1.S1_at--631--811Chr02:6399791..6399815 (25 bp)
ATGGTTAAGCCCAAGCCAGGCTCCT
LOC_Os02g12300
Os.53956.1.S1_at--682--6371Chr02:6399706..6399730 (25 bp)
GATCCGCCGGCGAGATGACGTCACG
LOC_Os02g12300
Os.53956.1.S1_at--374--691Chr02:6399692..6399716 (25 bp)
ATGACGTCACGTAGGCATGCAGCAT
LOC_Os02g12300
Os.53956.1.S1_at--404--3531Chr02:6399677..6399701 (25 bp)
CATGCAGCATGAGCGACCACGGAGA
LOC_Os02g12300
Os.53956.1.S1_at--325--10671Chr02:6399557..6399581 (25 bp)
TTCCTGTCCATTTTGTCTTGAAATT
LOC_Os02g12300
Os.53956.1.S1_at--765--7551Chr02:6399499..6399523 (25 bp)
GGGCCAGGGATTATCCACAACATGT
LOC_Os02g12300
Os.53956.1.S1_at--550--9811Chr02:6399439..6399463 (25 bp)
TAACGATTGCTCTTTGCGATCACCA
LOC_Os02g12300
Target Sequence 
ACATCGCCGCCAAACTGATCACGAGGCACTATGCGCCGGAGTGGGAGTGGAAGAACTGGGCGTGGCGCTCGGACGGAGAC
CTGTTCATGAACGGCGCCTACTTCCAGGCGTCCAACGGCGCCATCAACAGGAAGGTGAAGGGCTCCGACATGGTTAAGCC
CAAGCCAGGCTCCTACGTCAGGAGGCTCACACGCTTCGCCGGCGCGCTCTCCTGCCGGCCCGGCGAGCCGTGCTGATCCG
CCGGCGAGATGACGTCACGTAGGCATGCAGCATGAGCGACCACGGAGATCATCATCATCAAGAAAAAAAATATAATGGGG
AAAGAAAATTAAACATTTGGACGACATAGAAGGGTGACAAATGGAAGGGTAGCCAGGTTAAATTTCCTGTCCATTTTGTC
TTGAAATTGAGTGAATTTTGGTATGTTCGTATTTTCAAGAGGGGCCAGGGATTATCCACAACATGTACTATCTCTATGTA
TAGTGTAATACAGCATGGATGTAACGATTGCTCTTTGCGATCACCA

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.53956.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis