Browse Element(s) Details


Os.5217.1.S1_at

Description gb:AK071420.1
DB_XREF= gi:32981443
TID=Os.5217.1
CNT=3
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.5217 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023090K17, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023090K17, full insert sequence.
FL= gb:AK071420.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g1487011/11U1 zinc finger family protein, expressed
LOC_Os04g375807/11ChaC-like protein, expressed
LOC_Os04g527707/11Helix-loop-helix DNA-binding domain containing protein, expressed
LOC_Os09g113806/11hypothetical protein
LOC_Os06g307002/11transposon protein, putative, Mutator sub-class, expressed
LOC_Os11g284101/11retrotransposon protein, putative, unclassified
LOC_Os01g101301/11RNA-dependent RNA polymerase family protein, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g14860Os.9955.1.S1_a_at11/111+8326506..8330779Glycogen synthase kinase-3 homolog MsK-3, putative, expressed
LOC_Os01g14870Os.5217.1.S1_at11/111+8331321..8335376U1 zinc finger family protein, expressed
LOC_Os01g14870OsAffx.23250.2.S1_x_at11/111+8331321..8335376U1 zinc finger family protein, expressed
LOC_Os01g14880Os.57.1.S1_at5/111+8335984..8336226hypothetical protein
LOC_Os01g14890OsAffx.11057.2.S1_at11/111+8340563..8342544hypothetical protein
LOC_Os01g14890OsAffx.11057.1.S1_x_at10/111+8340563..8342544hypothetical protein
LOC_Os01g14890Os.2500.1.S1_at1/111+8340563..8342544hypothetical protein
LOC_Os01g14900OsAffx.30743.1.S1_x_at11/111+8344695..8347629Acyltransferase family protein
LOC_Os01g14900OsAffx.30743.1.S1_at11/111+8344695..8347629Acyltransferase family protein
LOC_Os01g14910OsAffx.10033.1.S1_at6/111+8351258..8351842hypothetical protein
LOC_Os01g14920Os.32339.1.S1_at11/111+8355819..8359072zinc knuckle family protein, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0016246biological_processRNA interference
GO:0016441biological_processposttranscriptional gene silencing
GO:0030422biological_processRNA interference, production of siRNA
GO:0003676molecular_functionnucleic acid binding
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0003968molecular_functionRNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5217.1.S1_at--415--10357Chr09:6328313..6328337 (25 bp)
TTTATTTTTAGCTCAGTAGGACCGA
LOC_Os09g11380
Os.5217.1.S1_at--28--10376Chr09:6328317..6328341 (25 bp)
TTTTTAGCTCAGTAGGACCGAAGGT
LOC_Os09g11380
Os.5217.1.S1_at--178--10336Chr09:6328319..6328343 (25 bp)
TTTAGCTCAGTAGGACCGAAGGTCC
LOC_Os09g11380
Os.5217.1.S1_at--105--3436Chr04:29210373..29210397 (25 bp)
CAGTAGGACCGAAGGTCCTGGGCCT
NONE
Os.5217.1.S1_at--554--9271Chr01:8335273..8335297 (25 bp)
TCCTGGGCCTGGTTTTTCTTACTCG
LOC_Os01g14870
Os.5217.1.S1_at--226--9874Chr04:31200508..31200527 (20 bp)
TACTCGTAAAGTTTACTCCTTCTCT
LOC_Os04g52770
Os.5217.1.S1_at--159--70510Chr11:2585015..2585038 (24 bp)
GTAAAGTTTACTCCTTCTCTATTCA
NONE
Os.5217.1.S1_at--426--12116Chr11:2585018..2585042 (25 bp)
AGTTTACTCCTTCTCTATTCAATGA
NONE
Os.5217.1.S1_at--510--19928Chr11:2585023..2585047 (25 bp)
ACTCCTTCTCTATTCAATGAAATTG
NONE
Os.5217.1.S1_at--324--1318Chr11:15856127..15856150 (23 bp)
ATTCAATGAAATTGGCAGCTTGCCG
LOC_Os11g28410
Os.5217.1.S1_at--967--8258Chr05:27395149..27395173 (25 bp)
GGCAGCTTGCCGATTCGTTCAAAAA
NONE
Target Sequence 
TTTATTTTTAGCTCAGTAGGACCGAAGGTCCTGGGCCTGGTTTTTCTTACTCGTAAAGTTTACTCCTTCTCTATTCAATG
AAATTGGCAGCTTGCCGATTCGTTCAAAAA

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.5217.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis