Browse Element(s) Details


Os.49740.1.S1_at

Description gb:AK067440.1
DB_XREF= gi:32977458
TID=Os.49740.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.49740 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013103L11, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013103L11, full insert sequence.
FL= gb:AK067440.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os06g4777010/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os06g47730Os.49985.1.S1_at1/116+28880110..28886003retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g47730OsAffx.20303.1.S1_at1/116+28880110..28886003retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g47740NANA6+28887961..28891152Leucine Rich Repeat family protein
LOC_Os06g47750Os.56824.1.S1_at10/116+28897443..28900945Leucine Rich Repeat family protein, expressed
LOC_Os06g47760Os.54008.1.S1_at11/116+28904579..28908026Leucine Rich Repeat family protein, expressed
LOC_Os06g47770Os.49740.1.S1_at10/116+28909277..28913729expressed protein
LOC_Os06g47780OsAffx.28150.1.S1_x_at1/116+28917721..28919038hypothetical protein
LOC_Os06g47790Os.12652.1.S1_at11/116+28921170..28922986Protein kinase domain containing protein, expressed
LOC_Os06g47790OsAffx.28152.1.S1_s_at1/116+28921170..28922986Protein kinase domain containing protein, expressed
LOC_Os06g47800Os.17058.1.S1_at11/116+28925199..28929068NB-ARC domain containing protein, expressed
LOC_Os06g47810NANA6+28934218..28938459retrotransposon protein, putative, Ty1-copia subclass

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Gene Ontology Classification
GO idTypeName
GO:0045449biological_processregulation of transcription
GO:0003700molecular_functiontranscription factor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.49740.1.S1_at--662--5271Chr02:19990626..19990645 (20 bp)
GAATGTTCTCATCACCTGCTGTCAG
NONE
Os.49740.1.S1_at--532--831Chr06:28909820..28909844 (25 bp)
AGGATTTTCTCAGCCGGGAATGTTC
LOC_Os06g47770
Os.49740.1.S1_at--40--5291Chr06:28909803..28909827 (25 bp)
GAATGTTCGGCAGGAGCTTCAGGAA
LOC_Os06g47770
Os.49740.1.S1_at--1104--8891Chr06:28909774..28909798 (25 bp)
TGAGAGACTACATCCGAGCATCGGT
LOC_Os06g47770
Os.49740.1.S1_at--345--511Chr06:28909724..28909748 (25 bp)
ATCGTCCCAAAGCTGCTTCAGAGCT
LOC_Os06g47770
Os.49740.1.S1_at--1159--7231Chr06:28909622..28909646 (25 bp)
GTCCAAGACACTTCGTCGTCGCGGA
LOC_Os06g47770
Os.49740.1.S1_at--855--7231Chr06:28909605..28909629 (25 bp)
GTCGCGGAAACAGCGGCTTCTTGGT
LOC_Os06g47770
Os.49740.1.S1_at--753--8291Chr06:28909591..28909615 (25 bp)
GGCTTCTTGGTGTGCGCAGCTTCAG
LOC_Os06g47770
Os.49740.1.S1_at--286--9671Chr06:28909570..28909594 (25 bp)
TCAGCGTCGTTCCATTTGACTCAAA
LOC_Os06g47770
Os.49740.1.S1_at--24--4931Chr06:28909494..28909518 (25 bp)
GCTTGCCCTGCCAATTGTTCAGAAA
LOC_Os06g47770
Os.49740.1.S1_at--287--2811Chr06:28909366..28909390 (25 bp)
AAGATCGTTTGTAAGCCATGCATGC
LOC_Os06g47770
Target Sequence 
GAATGTTCTCATCACCTGCTGTCAGGATTTTCTCAGCCGGGAATGTTCGGCAGGAGCTTCAGGAATCAATGAGAGACTAC
ATCCGAGCATCGGTTGGTATCAACGACAGCGGGAAGCTCATCGTCCCAAAGCTGCTTCAGAGCTATGCCAAGGGCACCGT
GGAGGACTCTCTGCTCGCCGACTGGATCTGCCGTCACCTCACACCAAACCAGGTCGCAGCTGTCCAAGACACTTCGTCGT
CGCGGAAACAGCGGCTTCTTGGTGTGCGCAGCTTCAGCGTCGTTCCATTTGACTCAAAATTCCGGTATCTGTTCTTGCCT
GACAACAGTAGCTCCCAGCACTGAACCAAGCTTGCCCTGCCAATTGTTCAGAAAGAAACCAAGAGTAGCATTTTGACAAA
CTGAAAAAGAAAATGAAGAGATCAGCTGTACATGTTGTAAATCTTTTAGGGTGATTCTTTTTTTTTTTTGGGCTTGTAAA
GATCGTTTGTAAGCCATGCATGC

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.49740.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis