Browse Element(s) Details


Os.52040.1.S1_at

Description gb:AK064593.1
DB_XREF= gi:32974611
TID=Os.52040.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.52040 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-112-G07, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-112-G07, full insert sequence.
FL= gb:AK064593.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g1137011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g11320OsAffx.9949.1.S1_at1/115+6373200..6375405Metallothionein-like protein type 3, putative, expressed
LOC_Os05g11320Os.2256.1.S1_at1/115+6373200..6375405Metallothionein-like protein type 3, putative, expressed
LOC_Os05g11320Os.7992.3.S1_x_at1/115+6373200..6375405Metallothionein-like protein type 3, putative, expressed
LOC_Os05g11330Os.55257.1.S1_at11/115+6385067..6385803Rapid ALkalinization Factor family protein, expressed
LOC_Os05g11340OsAffx.26831.1.S1_at11/115+6388276..6389171hypothetical protein
LOC_Os05g11350OsAffx.26832.1.S1_at10/115+6394057..6395676expressed protein
LOC_Os05g11360OsAffx.14636.1.S1_at11/115+6395840..6396442rhamnose biosynthetic enzyme 1, putative
LOC_Os05g11370Os.52040.1.S1_at11/115+6398776..6402275expressed protein
LOC_Os05g11380OsAffx.4301.2.S1_at11/115+6413046..6413875SRF-type transcription factor family protein
LOC_Os05g11390NANA5+6417218..6417933retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g11400OsAffx.11264.1.S1_s_at3/115+6420038..6424007retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g11400OsAffx.20408.1.S1_at1/115+6420038..6424007retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g11414Os.48040.1.A1_at11/115+6426199..6437413Floral homeotic protein AGAMOUS, putative, expressed
LOC_Os05g11414OsAffx.14637.1.S1_at11/115+6426199..6437413Floral homeotic protein AGAMOUS, putative, expressed
LOC_Os05g11414OsAffx.4301.1.S1_at8/115+6426199..6437413Floral homeotic protein AGAMOUS, putative, expressed
LOC_Os05g11414OsAffx.4301.2.S1_at2/115+6426199..6437413Floral homeotic protein AGAMOUS, putative, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.52040.1.S1_at--1048--3171Chr05:6401749..6401773 (25 bp)
CAATACAGACAGTTGCCCCTCAAGA
LOC_Os05g11370
Os.52040.1.S1_at--446--5351Chr05:6401804..6401828 (25 bp)
GAAGATTGCCTTAGACCCTGATGAC
LOC_Os05g11370
Os.52040.1.S1_at--104--4771Chr05:6401843..6401867 (25 bp)
GCTGCACCTTTGTAAGCCAGAGCTT
LOC_Os05g11370
Os.52040.1.S1_at--778--5911Chr05:6401862..6401886 (25 bp)
GAGCTTCAAGCTAACCGCAGTTTTC
LOC_Os05g11370
Os.52040.1.S1_at--249--5231Chr05:6401904..6401928 (25 bp)
GAATACCTTGAGCATTGGATCTACA
LOC_Os05g11370
Os.52040.1.S1_at--441--3051Chr05:6401952..6401976 (25 bp)
AATCTCGGCTGACTTATTGGTGCAT
LOC_Os05g11370
Os.52040.1.S1_at--718--7111Chr05:6401998..6402022 (25 bp)
GTCATGGTCGATGAGGGTCTCTTTT
LOC_Os05g11370
Os.52040.1.S1_at--661--351Chr05:6402164..6402188 (25 bp)
ATAACCTGGTAGCTTTGTAGTATCC
LOC_Os05g11370
Os.52040.1.S1_at--361--6911Chr05:6402183..6402207 (25 bp)
GTATCCTTGGTTTACTGCTATATTG
LOC_Os05g11370
Os.52040.1.S1_at--836--4731Chr05:6402213..6402237 (25 bp)
GCTGTACTATTATTGGCTGGACCTA
LOC_Os05g11370
Os.52040.1.S1_at--914--4711Chr05:6402228..6402253 (25 bp)
GCTGGACCTATAGCCTTGGTTTAAT
LOC_Os05g11370
Target Sequence 
CAATACAGACAGTTGCCCCTCAAGATCCAAATATTCCTCTATGGGACATGCTTAAGAAGATTGCCTTAGACCCTGATGAC
AAGTTGAGAGTAGGGCTGCACCTTTGTAAGCCAGAGCTTCAAGCTAACCGCAGTTTTCTTATTAGCATGGGTCAAGAATA
CCTTGAGCATTGGATCTACAAGTTTCTATCTGGTGATGATCCAAATCTCGGCTGACTTATTGGTGCATATTATAAGTTAG
CCAAAGCTTGTCATGGTCGATGAGGGTCTCTTTTTGTTGCACCCTTTTGGTTATGCAATTGCTGCACTATTTGTGTTTAA
ACAGTTGCTAAATAGTACTAACATAGGTGCTATGGTGGTGCATATTATGACAAGTTATTAAATATGCAGACAATGCTAAT
CTTTTGGATAATTCGATAACCTGGTAGCTTTGTAGTATCCTTGGTTTACTGCTATATTGTTTAAGCTGTACTATTATTGG
CTGGACCTATAGCCTTGGTTTAAT

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.52040.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis