Browse Element(s) Details


Os.53886.1.S1_at

Description gb:AK100603.1
DB_XREF= gi:32985812
TID=Os.53886.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53886 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023107E20, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023107E20, full insert sequence.
FL= gb:AK100603.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g4900011/11Zinc finger, C3HC4 type family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g48940Os.32496.1.S1_at9/114+28967957..28974485Mechanosensitive ion channel family protein, expressed
LOC_Os04g48950Os.52867.1.S1_at11/114+28975295..28977965fringe protein, putative, expressed
LOC_Os04g48950OsAffx.31336.1.S1_x_at1/114+28975295..28977965fringe protein, putative, expressed
LOC_Os04g48960OsAffx.14333.1.S1_at10/114+28978925..28980815hypothetical protein
LOC_Os04g48970OsAffx.22034.1.S1_at2/114+28981295..28984868transposon protein, putative, Mutator sub-class, expressed
LOC_Os04g48980OsAffx.14334.1.S1_at11/114+28989138..28989398hypothetical protein
LOC_Os04g48989NANA4+28992501..28992744NA
LOC_Os04g49000Os.53886.1.S1_at11/114+28994256..28995284Zinc finger, C3HC4 type family protein, expressed
LOC_Os04g49010NANA4+29000111..29001526hypothetical protein
LOC_Os04g49020OsAffx.22896.1.S1_x_at1/114+29003818..29008320retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g49030NANA4+29009083..29010843transposon protein, putative, unclassified
LOC_Os04g49040OsAffx.31069.1.S1_at3/114+29011454..29014496retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g49040OsAffx.31069.1.S1_x_at2/114+29011454..29014496retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g49040Os.53479.1.S1_x_at1/114+29011454..29014496retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g49040OsAffx.31069.2.S1_x_at1/114+29011454..29014496retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
GO:0009737biological_processresponse to abscisic acid stimulus
GO:0009741biological_processresponse to brassinosteroid stimulus
GO:0010200biological_processresponse to chitin
GO:0005515molecular_functionprotein binding
GO:0008270molecular_functionzinc ion binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53886.1.S1_at--533--5771Chr04:28994787..28994811 (25 bp)
GACGAGGTGCGCAGGCTCAGCAATT
LOC_Os04g49000
Os.53886.1.S1_at--1110--911Chr04:28994775..28994799 (25 bp)
AGGCTCAGCAATTGCCGCCACGTGT
LOC_Os04g49000
Os.53886.1.S1_at--996--8551Chr04:28994727..28994751 (25 bp)
TGGATGGAGCACGACGACCAGCGCA
LOC_Os04g49000
Os.53886.1.S1_at--521--3611Chr04:28994532..28994556 (25 bp)
CTTGGCGGCTACCAGTAACCAGTGA
LOC_Os04g49000
Os.53886.1.S1_at--729--1171Chr04:28994519..28994543 (25 bp)
AGTAACCAGTGAACCGCCGCTGTTG
LOC_Os04g49000
Os.53886.1.S1_at--878--2611Chr04:28994508..28994532 (25 bp)
AACCGCCGCTGTTGGTTCACGGAGT
LOC_Os04g49000
Os.53886.1.S1_at--385--4091Chr04:28994422..28994446 (25 bp)
CGACTGAATTGGTCGTCGTGTTCGG
LOC_Os04g49000
Os.53886.1.S1_at--290--5371Chr04:28994396..28994420 (25 bp)
GAAGACCAAGAACAGGAGGCGCCTT
LOC_Os04g49000
Os.53886.1.S1_at--697--971Chr04:28994383..28994407 (25 bp)
AGGAGGCGCCTTCAACTGTACATAG
LOC_Os04g49000
Os.53886.1.S1_at--813--2811Chr04:28994279..28994303 (25 bp)
AAGATTCCATCTTCCAGGTTTGAGA
LOC_Os04g49000
Os.53886.1.S1_at--1020--1451Chr04:28994257..28994281 (25 bp)
AGAAGTAGTGAATCTTTGTGCTGAT
LOC_Os04g49000
Target Sequence 
GACGAGGTGCGCAGGCTCAGCAATTGCCGCCACGTGTTCCACCGGGGCTGCCTGGACCGCTGGATGGAGCACGACGACCA
GCGCACCTGCCCGCTCTGCCGCGCGCCGCTCATCNCCGACGAGATGGCCNGCGCGCTCTGGGCCGCCGCCGGCGTGCCCG
ACNCCTCCGACTTCGACTTCTCCTACTTCGGCGCGCCCCTCACGCCGATGCCCACGCCGACTCTGCTACGGCCGCACGAG
CTGCTGCTCACTGGCCTTGGCGGCTACCAGTAACCAGTGAACCGCCGCTGTTGGTTCACGGAGTTGGNAATATCCACCTA
CTGCACAGCANGGGCACCGGCGACCCGGAATGCNNCNGTTTTTACNACGACTGAATTGGTCGTCGTGTTCGGGGAAGACC
AAGAACAGGAGGCGCCTTCAACTGTACATAGGCAAAAATGAGTAAAGCAAACCCCCCGAAAAAGGCTAGATGATTAGTAG
ATTTTTATTTTTGTTTTTGTTTTTGTACAGAAGATTCCATCTTCCAGGTTTGAGAAGTAGTGAATCTTTGTGCTGAT

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.53886.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis