Browse Element(s) Details


Os.53538.1.S1_at

Description gb:AK073188.1
DB_XREF= gi:32983211
TID=Os.53538.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53538 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033003M11, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033003M11, full insert sequence.
FL= gb:AK073188.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g2305011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g23030OsAffx.12996.1.S1_at10/113+13272788..13288554aberrant pollen transmission 1, putative, expressed
LOC_Os03g23030Os.52128.1.S1_at2/113+13272788..13288554aberrant pollen transmission 1, putative, expressed
LOC_Os03g23040OsAffx.12997.1.S1_x_at10/113+13290065..13291728hypothetical protein
LOC_Os03g23040OsAffx.12997.1.S1_at10/113+13290065..13291728hypothetical protein
LOC_Os03g23050Os.53538.1.S1_at11/113+13298761..13305661expressed protein
LOC_Os03g23060Os.46314.2.S1_x_at4/113+13307086..13310937transposon protein, putative, unclassified
LOC_Os03g23060OsAffx.32036.1.S1_at1/113+13307086..13310937transposon protein, putative, unclassified
LOC_Os03g23070Os.23706.1.A1_x_at1/113+13312952..13318372retrotransposon protein, putative, unclassified
LOC_Os03g23080OsAffx.31892.2.S1_x_at2/113+13320925..13326008retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g23080OsAffx.17842.1.S1_at1/113+13320925..13326008retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g23090NANA3+13329226..13330920retrotransposon protein, putative, Ty3-gypsy subclass

Select all/Clear all

Gene Ontology Classification
GO idTypeName
GO:0009793biological_processembryonic development (sensu Magnoliophyta)
GO:0009965biological_processleaf morphogenesis
GO:0016441biological_processposttranscriptional gene silencing
GO:0035195biological_processmiRNA-mediated gene silencing
GO:0040034biological_processregulation of development, heterochronic
GO:0005737cellular_componentcytoplasm
GO:0003743molecular_functiontranslation initiation factor activity
GO:0004521molecular_functionendoribonuclease activity
GO:0035197molecular_functionsiRNA binding
GO:0035198molecular_functionmiRNA binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53538.1.S1_at--230--631Chr03:13304253..13304277 (25 bp)
ATGCTGCAGTATTGTCACCATCAGG
LOC_Os03g23050
Os.53538.1.S1_at--982--6611Chr03:13304324..13304348 (25 bp)
GTTGGAAATGACCTGGCTCTCCCAC
LOC_Os03g23050
Os.53538.1.S1_at--16--9871Chr03:13305247..13305271 (25 bp)
TACACATGTAGCTGCTTCTCTGCAA
LOC_Os03g23050
Os.53538.1.S1_at--715--5131Chr03:13305268..13305292 (25 bp)
GCAAACTTCCCGTTGGTAGCAGAGA
LOC_Os03g23050
Os.53538.1.S1_at--752--1011Chr03:13305349..13305373 (25 bp)
AGGTTCCCAACTGCTTATATGATGA
LOC_Os03g23050
Os.53538.1.S1_at--605--6031Chr03:13305372..13305396 (25 bp)
GAGATGTTGGCGATTCCCATAGAGA
LOC_Os03g23050
Os.53538.1.S1_at--328--1251Chr03:13305420..13305444 (25 bp)
AGATTCCCAACTGCTTATAAGACTT
LOC_Os03g23050
Os.53538.1.S1_at--851--2751Chr03:13305438..13305462 (25 bp)
AAGACTTCTCTTGAACTGGTTGCTG
LOC_Os03g23050
Os.53538.1.S1_at--500--4911Chr03:13305505..13305529 (25 bp)
GCTTCTGTGGTATGCAAGGCACTCA
LOC_Os03g23050
Os.53538.1.S1_at--112--2931Chr03:13305520..13305544 (25 bp)
AAGGCACTCAGCTTGACACAATGCA
LOC_Os03g23050
Os.53538.1.S1_at--1121--711Chr03:13305602..13305626 (25 bp)
ATGATATTTGCCTCATCAGCTGCTC
LOC_Os03g23050
Target Sequence 
ATGCTGCAGTATTGTCACCATCAGGAAATACTGCAAGGTTCAGTGTGCATCATATTTTTGGCATTGGTTCTGTTGGAAAT
GACCTGGCTCTCCCACAAATAAAAAAGGCTCTTCCTCCCTCGCAAAGAAAAAGGAAACAAACTTGTGACAAGTAAGTCTA
ACTAGCCTACTATACACATGTAGCTGCTTCTCTGCAAACTTCCCGTTGGTAGCAGAGAGCTCTGATGGCAGCAGCGGGCA
AGCTGTGGAGGTGCGTTAACTTCCCAAAGATCAAAGGTTCCCAACTGCTTATATGATGAGATGTTGGCGATTCCCATAGA
GATGTGGTTGATGAAGTTTAGTTGAAGATTCCCAACTGCTTATAAGACTTCTCTTGAACTGGTTGCTGGTAGTTTTTTTT
TTGCTGCTCGTTGTAGTAGATTGTCAGTGAGCTTCTGTGGTATGCAAGGCACTCAGCTTGACACAATGCAACTATGCCAA
GTATGTTAAGTTCCCAGTAGTTTTGTTATCTAACCTTTGTTCTCTGTATGATATTTGCCTCATCAGCTGCTC

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.53538.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis