Browse Element(s) Details


Os.56258.1.S1_at

Description gb:AK109704.1
DB_XREF= gi:32994913
TID=Os.56258.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.56258 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-145-G01, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-145-G01, full insert sequence.
FL= gb:AK109704.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os12g1542011/11Pre-mRNA splicing factor cwc22, putative, expressed
LOC_Os03g484402/11expressed protein
LOC_Os10g232042/11Protein CutA, chloroplast precursor, putative, expressed
LOC_Os11g086101/11retrotransposon protein, putative, unclassified
LOC_Os06g068701/11MIZ zinc finger family protein, expressed
LOC_Os12g418601/11class III HD-Zip protein 4, putative, expressed
LOC_Os07g471941/11GEX1, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os12g15390OsAffx.31752.1.S1_at11/1112+8785203..8785537hypothetical protein
LOC_Os12g15400Os.53787.1.S1_at11/1112+8789746..8794641Esterase, putative, expressed
LOC_Os12g15410OsAffx.7603.1.S1_at11/1112+8795759..8796070hypothetical protein
LOC_Os12g15420Os.56258.1.S1_at11/1112+8799013..8805146Pre-mRNA splicing factor cwc22, putative, expressed
LOC_Os12g15420Os.25091.1.A1_at11/1112+8799013..8805146Pre-mRNA splicing factor cwc22, putative, expressed
LOC_Os12g15420Os.25091.1.A2_at11/1112+8799013..8805146Pre-mRNA splicing factor cwc22, putative, expressed
LOC_Os12g15430OsAffx.30564.2.S1_s_at4/1112+8811879..8812148hypothetical protein
LOC_Os12g15430OsAffx.30564.1.S1_s_at2/1112+8811879..8812148hypothetical protein
LOC_Os12g15440OsAffx.31753.4.S1_s_at11/1112+8813040..8813525AC transposase, putative
LOC_Os12g15440OsAffx.31753.4.S1_at11/1112+8813040..8813525AC transposase, putative
LOC_Os12g15450OsAffx.19687.1.S1_at11/1112+8816747..8820291expressed protein
LOC_Os12g15450OsAffx.19687.1.S1_s_at11/1112+8816747..8820291expressed protein
LOC_Os12g15460Os.51992.1.S1_at4/1112+8821214..8824514pentatricopeptide, putative, expressed
LOC_Os12g15460Os.56227.1.S1_s_at2/1112+8821214..8824514pentatricopeptide, putative, expressed
LOC_Os12g15470Os.3451.1.S1_at11/1112+8826944..8832027Serine carboxypeptidase I precursor, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006355biological_processregulation of transcription, DNA-dependent
GO:0006412biological_processprotein biosynthesis
GO:0009855biological_processdetermination of bilateral symmetry
GO:0009887biological_processorgan morphogenesis
GO:0009943biological_processadaxial/abaxial axis specification
GO:0009944biological_processpolarity specification of adaxial/abaxial axis
GO:0009955biological_processadaxial/abaxial pattern formation
GO:0009956biological_processradial pattern formation
GO:0009965biological_processleaf morphogenesis
GO:0010014biological_processmeristem initiation
GO:0010051biological_processvascular tissue pattern formation (sensu Tracheophyta)
GO:0010072biological_processprimary shoot apical meristem specification
GO:0010073biological_processmeristem maintenance
GO:0010075biological_processregulation of meristem size
GO:0010087biological_processvascular tissue development (sensu Tracheophyta)
GO:0030154biological_processcell differentiation
GO:0005634cellular_componentnucleus
GO:0005739cellular_componentmitochondrion
GO:0005887cellular_componentintegral to plasma membrane
GO:0009507cellular_componentchloroplast
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0003723molecular_functionRNA binding
GO:0005507molecular_functioncopper ion binding
GO:0005515molecular_functionprotein binding
GO:0008270molecular_functionzinc ion binding
GO:0008289molecular_functionlipid binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.56258.1.S1_at--676--1571Chr12:8802961..8802985 (25 bp)
AGCTACGCCAATTAAATGGGCCAGA
LOC_Os12g15420
Os.56258.1.S1_at--401--8532Chr12:8802990..8803014 (25 bp)
TGGACTGGGCTTCGATCAGCAGCTA
LOC_Os12g15420
Os.56258.1.S1_at--176--4551Chr12:8803015..8803039 (25 bp)
GCCCATGTTGGCTTAGATATGCTTA
LOC_Os12g15420
Os.56258.1.S1_at--1035--6491Chr12:8803030..8803054 (25 bp)
GATATGCTTATCACACGGGTCAGTC
LOC_Os12g15420
Os.56258.1.S1_at--844--3971Chr12:8803045..8803069 (25 bp)
CGGGTCAGTCAAGTTGGGCTTTTAG
LOC_Os12g15420
Os.56258.1.S1_at--794--7311Chr12:8803079..8803103 (25 bp)
GTGGCGTGGGCCTAAATTTCCATAC
LOC_Os12g15420
Os.56258.1.S1_at--474--3111Chr12:8803093..8803117 (25 bp)
AATTTCCATACAGGGCTTCAGGATG
LOC_Os12g15420
Os.56258.1.S1_at--903--7791Chr12:8803119..8803143 (25 bp)
GGTCCTCCTGTCTATGTTCTTGATG
LOC_Os12g15420
Os.56258.1.S1_at--239--10413Chr12:8803245..8803269 (25 bp)
TTTTGTTGAGTCTAGCAGGGTCCGC
LOC_Os12g15420
Os.56258.1.S1_at--991--10131Chr12:8803441..8803465 (25 bp)
TATCTTATTGCCCATCGGCCTGCCT
LOC_Os12g15420
Os.56258.1.S1_at--58--69714Chr12:8803485..8803509 (25 bp)
GTCGCGCCGTTTAGGTTCAGGACCG
LOC_Os12g15420
Target Sequence 
AGCTACGCCAATTAAATGGGCCAGACTGGTGGACTGGGCTTCGATCAGCAGCTAGCCCATGTTGGCTTAGATATGCTTAT
CACACGGGTCAGTCAAGTTGGGCTTTTAGATTTGGATTGTGGCGTGGGCCTAAATTTCCATACAGGGCTTCAGGATGGGG
TCCTCCTGTCTATGTTCTTGATGACAATATAAGAGTAGGGTTGTTTGCAATAGTATTAGTTATATATATATTTATAATAA
GCCAAGATGTAAAAGGCTTAAGAGTCTTAGTTTAGGTTATGATGTTTTGTTGAGTCTAGCAGGGTCCGCTGCAGCTCGAG
GACGAGCTGCTCAAAAAGAGGGGAGTAATGTCATGGGCTTTGGGTTGGTCGTCCTAGGCCCATTGGATAGGATTAGGGTT
TGTTAGGATTAGATTAAGGACTCCTCCATCTATATAAGAAGGGATCCTATCCTAGGTTAGTTAGGCATTAGATCAAGATT
TATCTTATTGCCCATCGGCCTGCCTTCTCAGTGCGACAGAGAGCGTCGCGCCGTTTAGGTTCAGGACCG

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.56258.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis