Browse Element(s) Details


Os.12238.2.S1_x_at

Description gb:CR280856
DB_XREF= gi:44667422
DB_XREF=CR280856
CLONE=y718e05p5
TID=Os.12238.2
CNT=18
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.12238 (NCBI UniGene Cluster)
UG_TITLE=SS620 mRNA for scar protein, partial cds
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g0156011/1140S ribosomal protein S4, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g01500Os.51720.1.S1_at11/112+287571..293885pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase family protein, expressed
LOC_Os02g01510Os.10215.1.S1_at11/112+295331..299167L-lactate dehydrogenase A, putative, expressed
LOC_Os02g01510OsAffx.28164.2.S1_at2/112+295331..299167L-lactate dehydrogenase A, putative, expressed
LOC_Os02g01520Os.50278.1.S1_at10/112+300074..302819IQ calmodulin-binding motif family protein, expressed
LOC_Os02g01530Os.49728.1.S1_at4/112+304089..304849hypothetical protein
LOC_Os02g01540Os.6938.1.A1_at11/112+307058..310927ribosomal protein S11 containing protein
LOC_Os02g01540OsAffx.11860.1.S1_at11/112+307058..310927ribosomal protein S11 containing protein
LOC_Os02g01550Os.49728.1.S1_at11/112+311537..316458F-box domain containing protein, expressed
LOC_Os02g01550OsAffx.19489.2.S1_x_at2/112+311537..316458F-box domain containing protein, expressed
LOC_Os02g01560Os.12238.2.S1_x_at11/112+316594..31912840S ribosomal protein S4, putative, expressed
LOC_Os02g01560Os.12238.1.S1_at11/112+316594..31912840S ribosomal protein S4, putative, expressed
LOC_Os02g01570NANA2+321074..327184retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g01580NANA2+327500..330456retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g01590Os.47792.1.S1_at11/112+343057..346875Beta-fructofuranosidase 1 precursor, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006412biological_processprotein biosynthesis
GO:0005843cellular_componentcytosolic small ribosomal subunit (sensu Eukaryota)
GO:0003735molecular_functionstructural constituent of ribosome
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.12238.2.S1_x_at--903--8991Chr02:318153..318177 (25 bp)
TGAAGAGGCTCAATGCGCCCAAGCA
LOC_Os02g01560
Os.12238.2.S1_x_at--962--5491Chr02:317928..317952 (25 bp)
GAACAGGCTCAAGTATGCTCTGACA
LOC_Os02g01560
Os.12238.2.S1_x_at--75--7891Chr02:317895..317919 (25 bp)
GGTTATTTCTATCCTCATGCAGCGC
LOC_Os02g01560
Os.12238.2.S1_x_at--638--651Chr02:317879..317903 (25 bp)
ATGCAGCGCCATGTCTTGGTTGATG
LOC_Os02g01560
Os.12238.2.S1_x_at--15--1391Chr02:317837..317860 (24 bp)
AGACCTACCCAGCTGGTTTCATGGA
LOC_Os02g01560
Os.12238.2.S1_x_at--473--831Chr02:317724..317745 (22 bp)
ATGGATGTCATTTCCATCCCCAAGA
LOC_Os02g01560
Os.12238.2.S1_x_at--423--10651Chr02:317658..317682 (25 bp)
TTCCGCCTTCAGTCTGTCAAGGATG
LOC_Os02g01560
Os.12238.2.S1_x_at--208--2911Chr02:317361..317385 (25 bp)
AAGGTTCGGTCTGTGCAGTTTGGCC
LOC_Os02g01560
Os.12238.2.S1_x_at--882--3431Chr02:317346..317370 (25 bp)
CAGTTTGGCCAGAAGGGAATCCCCT
LOC_Os02g01560
Os.12238.2.S1_x_at--626--8971Chr02:317318..317342 (25 bp)
TGAACACCTATGATGGTCGCACCAT
LOC_Os02g01560
Os.12238.2.S1_x_at--356--9951Chr02:317289..317313 (25 bp)
TACCCTGACCCGATCATCAAGGCAA
LOC_Os02g01560
Target Sequence 
TGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGTGGAGCTTTTGCCCCCAAGCCATCTTCTGGTCCT
CACAAGTCCAGGGAGTGCCTGCCTCTGATCCTCATTATCAGGAACAGGCTCAAGTATGCTCTGACATACCGTGAGGTTAT
TTCTATCCTCATGCAGCGCCATGTCTTGGTTGATGGCAAGGTCAGGACTGACAAGACCTACCCAGCTGGTTTCATGGATG
TCATTTCCATCCCCAAGACTGGTGAGAACTACAGGCTTCTGTACGACACCAAGGGACGTTTCCGCCTTCAGTCTGTCAAG
GATGAGGATGCTAAGTTCAAGCTTTGCAAGGTTCGGTCTGTGCAGTTTGGCCAGAAGGGAATCCCCTACCTGAACACCTA
TGATGGTCGCACCATCCGCTACCCTGACCCGATCATCAAGGCAA

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.12238.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis