Browse Element(s) Details


Os.27479.1.S1_at

Description gb:AK066168.1
DB_XREF= gi:32976186
TID=Os.27479.1
CNT=17
FEA=FLmRNA
TIER=FL+Stack
STK=8
UG=Os.27479 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-033-C09, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013055J22, full insert sequence.
FL= gb:AY360145.1 gb:AK104336.1 gb:AK066168.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g0559011/11sodium/hydrogen exchanger 3 family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g05530Os.38320.2.S1_at4/115+2729709..2736402hypothetical protein
LOC_Os05g05540NANA5+2736704..2737724hypothetical protein
LOC_Os05g05550NANA5+2737879..2739454expressed protein
LOC_Os05g05560Os.37511.1.S1_at10/115+2741273..2742846expressed protein
LOC_Os05g05570NANA5+2743232..2743573Agenet domain containing protein
LOC_Os05g05580NANA5+2745546..2753325expressed protein
LOC_Os05g05590Os.27479.1.S1_at11/115+2755406..2761564sodium/hydrogen exchanger 3 family protein, expressed
LOC_Os05g05590OsAffx.25220.1.S1_at1/115+2755406..2761564sodium/hydrogen exchanger 3 family protein, expressed
LOC_Os05g05600Os.11860.1.S1_at11/115+2764109..2770016ATA15 protein, putative, expressed
LOC_Os05g05600Os.11860.1.S2_at10/115+2764109..2770016ATA15 protein, putative, expressed
LOC_Os05g05610NANA5+2771689..2772394expressed protein
LOC_Os05g05620Os.50371.1.S1_x_at11/115+2774453..2775564glutathione S-transferase GSTF1, putative, expressed
LOC_Os05g05630OsAffx.19542.3.S1_x_at6/115+2776730..2781421retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g05640Os.57161.1.S1_at11/115+2781709..2783003pectinesterase inhibitor domain containing protein, expressed
LOC_Os05g05640OsAffx.26743.1.S1_x_at11/115+2781709..2783003pectinesterase inhibitor domain containing protein, expressed
LOC_Os05g05640Os.57161.1.S1_x_at11/115+2781709..2783003pectinesterase inhibitor domain containing protein, expressed
LOC_Os05g05650Os.49454.1.S1_at11/115+2784188..2786017C2 domain containing protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006814biological_processsodium ion transport
GO:0009651biological_processresponse to salt stress
GO:0048366biological_processleaf development
GO:0000325cellular_componentvacuole (sensu Magnoliophyta)
GO:0005774cellular_componentvacuolar membrane
GO:0005515molecular_functionprotein binding
GO:0015081molecular_functionsodium ion transporter activity
GO:0015385molecular_functionsodium:hydrogen antiporter activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.27479.1.S1_at--812--291Chr05:2755947..2755971 (25 bp)
ATAGCAGCTGATCTCTCAAGCCAGT
LOC_Os05g05590
Os.27479.1.S1_at--647--7071Chr05:2755924..2755948 (25 bp)
GTCAATCATAGACCCACTTCTTGGA
LOC_Os05g05590
Os.27479.1.S1_at--683--9291Chr05:2755818..2755842 (25 bp)
TCCGTTCATCGCGTGTGGCGCAAGT
LOC_Os05g05590
Os.27479.1.S1_at--955--711Chr05:2755790..2755814 (25 bp)
ATGATAGATTCATGCGCCCGATGTT
LOC_Os05g05590
Os.27479.1.S1_at--669--10271Chr05:2755744..2755768 (25 bp)
TTTCGTGCCTGGTTCGCCAGTGGAG
LOC_Os05g05590
Os.27479.1.S1_at--352--8071Chr05:2755723..2755747 (25 bp)
GGAGCGGAGCATCCATGGATCTCAA
LOC_Os05g05590
Os.27479.1.S1_at--185--831Chr05:2755709..2755733 (25 bp)
ATGGATCTCAACTGGGCACTGTGAC
LOC_Os05g05590
Os.27479.1.S1_at--994--3891Chr05:2755698..2755722 (25 bp)
CTGGGCACTGTGACTGAGGCTGAAC
LOC_Os05g05590
Os.27479.1.S1_at--879--5991Chr05:2755624..2755648 (25 bp)
GAGACCACTCAATTTTGTTCCAGGA
LOC_Os05g05590
Os.27479.1.S1_at--94--7451Chr05:2755592..2755616 (25 bp)
GTGTACTGTTGTCATATCTTGTGCA
LOC_Os05g05590
Os.27479.1.S1_at--478--7011Chr05:2755437..2755461 (25 bp)
TGTAGAAAGTACTCCCTCTTTGTTA
LOC_Os05g05590
Target Sequence 
ATAGCAGCTGATCTCTCAAGCCAGTCAATCATAGACCCACTTCTTGGAAGCCTGCTGGGGTCTGACTTCGATGTAGGCCA
GCCCTCCCCTCAGAACAACCTTCAGCTTCTTCTCACCATTCAGACTCGCTCCGTTCATCGCGTGTGGCGCAAGTTTGATG
ATAGATTCATGCGCCCGATGTTCGGGGGCCGAGGCTTCGTTCCTTTCGTGCCTGGTTCGCCAGTGGAGCGGAGCATCCAT
GGATCTCAACTGGGCACTGTGACTGAGGCTGAACATAGCTGAGTTTGAGGTTCAGAAGGTGCAAGCATTTCTGTAAATTT
TCAGAGACCACTCAATTTTGTTCCAGGATACATTTGTGTACTGTTGTCATATCTTGTGCAGATAGTTTGTGTAGAACGAC
GTATTTAAGCTGGTATAGGTTCATATTGGAAGCCATTATTCCAAGTGTATAATTCATCTGTAAATTTACATGTTGTTTGT
AGAGGATAAACAAATGCATTGTATTGGATTTGTAGAAAGTACTCCCTCTTTGTTA

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.27479.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis