Browse Element(s) Details


Os.52100.1.S1_at

Description gb:AK064719.1
DB_XREF= gi:32974737
TID=Os.52100.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.52100 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-118-E08, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-118-E08, full insert sequence.
FL= gb:AK064719.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g5689011/11expressed protein
LOC_Os01g488101/11expressed protein
LOC_Os11g372901/11hypothetical protein
LOC_Os04g336301/11Ferredoxin-3, chloroplast precursor, putative, expressed
LOC_Os12g272541/11Transferase family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g56820Os.32736.1.S1_at11/113+32314843..32317399Fatty acid hydroxylase family protein, expressed
LOC_Os03g56830Os.37731.2.S1_at11/113+32318861..32322727AFR615Wp, putative, expressed
LOC_Os03g56830Os.37731.1.S1_at10/113+32318861..32322727AFR615Wp, putative, expressed
LOC_Os03g56840Os.2807.1.S1_a_at11/113+32323768..32327085GTP-dependent nucleic acid-binding protein engD, putative, expressed
LOC_Os03g56850OsAffx.25739.1.S1_at11/113+32328006..32331156pentatricopeptide, putative
LOC_Os03g56860Os.23297.1.S1_at11/113+32332463..32333400expressed protein
LOC_Os03g56869Os.34300.1.S1_x_at10/113+32333874..32336193ribose 5-phosphate isomerase, putative, expressed
LOC_Os03g56869Os.34300.3.S1_x_at10/113+32333874..32336193ribose 5-phosphate isomerase, putative, expressed
LOC_Os03g56869Os.34300.1.S1_at10/113+32333874..32336193ribose 5-phosphate isomerase, putative, expressed
LOC_Os03g56878Os.27731.1.S1_at11/113+32337316..32338789NA
LOC_Os03g56890Os.52100.1.S1_at11/113+32339206..32339969expressed protein
LOC_Os03g56900Os.2820.1.A1_at11/113+32340875..32343688reticulon family protein, putative, expressed
LOC_Os03g56904NANA3+32346117..32346965hypothetical protein
LOC_Os03g56910OsAffx.21308.1.S1_at11/113+32350142..32354070retrotransposon protein, putative, LINE subclass
LOC_Os03g56920OsAffx.21308.2.S1_at11/113+32357267..32359357expressed protein
LOC_Os03g56920OsAffx.21308.2.S1_x_at11/113+32357267..32359357expressed protein
LOC_Os03g56930Os.14921.1.S1_at10/113+32362177..32363525expressed protein
LOC_Os03g56940Os.11958.1.S1_at11/113+32364586..32365731expressed protein

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Gene Ontology Classification
GO idTypeName
GO:0006118biological_processelectron transport
GO:0006350biological_processtranscription
GO:0009416biological_processresponse to light stimulus
GO:0009767biological_processphotosynthetic electron transport
GO:0009570cellular_componentchloroplast stroma
GO:0009055molecular_functionelectron carrier activity
GO:0016740molecular_functiontransferase activity
GO:0016986molecular_functiontranscription initiation factor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.52100.1.S1_at--1007--5811Chr03:32339741..32339765 (25 bp)
GACCCGTTGCTGGACGACTACGAGA
LOC_Os03g56890
Os.52100.1.S1_at--554--6031Chr03:32339714..32339738 (25 bp)
GAGATCAGCCACCTGGAGTTCGAGC
LOC_Os03g56890
Os.52100.1.S1_at--92--2851Chr03:32339389..32339413 (25 bp)
AAGTCATCAACTGAGCCAATATCGA
LOC_Os03g56890
Os.52100.1.S1_at--595--3171Chr03:32339373..32339397 (25 bp)
CAATATCGATGACGTGGCACACCAC
LOC_Os03g56890
Os.52100.1.S1_at--1125--8231Chr03:32339358..32339382 (25 bp)
GGCACACCACGTAGTTCTAGTTCTA
LOC_Os03g56890
Os.52100.1.S1_at--490--6731Chr03:32339339..32339363 (25 bp)
GTTCTACACGAAATGAATCCTTGAG
LOC_Os03g56890
Os.52100.1.S1_at--705--3891Chr03:32339305..32339329 (25 bp)
CGGAGTTACTATAAATATGACGCTA
LOC_Os03g56890
Os.52100.1.S1_at--213--5791Chr03:32339287..32339311 (25 bp)
GACGCTATATGCTATACAGTCGATT
LOC_Os03g56890
Os.52100.1.S1_at--509--2131Chr03:32339272..32339296 (25 bp)
ACAGTCGATTTTTTTTCAGCCATTT
LOC_Os03g56890
Os.52100.1.S1_at--769--336Chr05:22631468..22631487 (20 bp)
ATACAGTAGTTACACCTCATTTACG
NONE
Os.52100.1.S1_at--248--67741Chr08:27340588..27340647 (25 bp)
GTTACACCTCATTTACGAATTTACA
NONE
Target Sequence 
GACCCGTTGCTGGACGACTACGAGAACGAGATCAGCCACCTGGAGTTCGAGCCGGTCGACGCCGGGTCGACGCCGTACGC
CGCGGGGGATGCGGACGCGGCGGCGCCGGCTCCTGGGCCGGCGGCCGAGGCGGGGAGCGCCGCCGGCAGCGACAGCATGA
AGTGGTGGCTGCCGCCGTCGACGATCCCGTCGTTCCCGCTGTTCCCCGGGATGCCCGGCCTCGGCATGCCTCTCCCCGGC
ATCCCATTCAAGCCCATCGGCTGGGGCTCGCCGGCGGCGCCCGGCCAGTACGCGCCGGATCCCCCCGCCGGCGCCGGCGC
CGACGGCGACGCGGACCCGAGCGCCGCCAGCCAAGTCATCAACTGAGCCAATATCGATGACGTGGCACACCACGTAGTTC
TAGTTCTACACGAAATGAATCCTTGAGTTTTTAAAACGGAGTTACTATAAATATGACGCTATATGCTATACAGTCGATTT
TTTTTCAGCCATTTATACAGTAGTTACACCTCATTTACGAATTTACA

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.52100.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis