Browse Element(s) Details


Os.52420.1.A1_at

Description gb:AK066997.1
DB_XREF= gi:32977015
TID=Os.52420.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=2
UG=Os.52420 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013091K09, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013091K09, full insert sequence.
FL= gb:AK066997.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g1254011/11Chlorophyll a-b binding protein E, chloroplast precursor, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g12500OsAffx.17667.1.S1_at11/119+7165588..7170330expressed protein
LOC_Os09g12510Os.10725.1.S1_at11/119+7171525..7172592expressed protein
LOC_Os09g12520NANA9+7175508..7176211hypothetical protein
LOC_Os09g12530Os.12763.1.S1_x_at11/119+7178985..7180868glycosyl transferase, group 1 family protein, expressed
LOC_Os09g12530Os.12763.2.S1_at11/119+7178985..7180868glycosyl transferase, group 1 family protein, expressed
LOC_Os09g12540Os.52420.1.A1_at11/119+7184218..7187146Chlorophyll a-b binding protein E, chloroplast precursor, putative, expressed
LOC_Os09g12550Os.19423.1.S1_at11/119+7188541..7195750expressed protein
LOC_Os09g12560OsAffx.6254.1.S1_at11/119+7197633..7203748Ferrochelatase II, chloroplast precursor, putative, expressed
LOC_Os09g12560Os.9742.1.S1_at11/119+7197633..7203748Ferrochelatase II, chloroplast precursor, putative, expressed
LOC_Os09g12570Os.5312.1.S1_at11/119+7204143..7207198Ubiquitin-conjugating enzyme spm2, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0009769biological_processphotosynthesis, light harvesting in photosystem II
GO:0015979biological_processphotosynthesis
GO:0030076cellular_componentlight-harvesting complex
GO:0042651cellular_componentthylakoid membrane
GO:0016168molecular_functionchlorophyll binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.52420.1.A1_at--91--5991Chr09:7186676..7186700 (25 bp)
GAGACATAAACTACCCGGGAGGAGC
LOC_Os09g12540
Os.52420.1.A1_at--548--1271Chr09:7186763..7186787 (25 bp)
AGATCAAGAACGGTCGCCTGGCAAT
LOC_Os09g12540
Os.52420.1.A1_at--405--4171Chr09:7186777..7186801 (25 bp)
CGCCTGGCAATGGTTGCATGGCTCG
LOC_Os09g12540
Os.52420.1.A1_at--428--1551Chr09:7186818..7186842 (25 bp)
AGCTGTAACTGGCAAGGGTCCTATT
LOC_Os09g12540
Os.52420.1.A1_at--201--1031Chr09:7186832..7186856 (25 bp)
AGGGTCCTATTCAGAACCTTGTTGA
LOC_Os09g12540
Os.52420.1.A1_at--384--111Chr09:7186840..7186864 (25 bp)
ATTCAGAACCTTGTTGAACACTTGT
LOC_Os09g12540
Os.52420.1.A1_at--698--8091Chr09:7186866..7186890 (25 bp)
GGACCCGCTGCATAACAACATTTTG
LOC_Os09g12540
Os.52420.1.A1_at--440--2091Chr09:7186921..7186945 (25 bp)
ACATAGCAGCTGTGTCCTGTTTGGT
LOC_Os09g12540
Os.52420.1.A1_at--220--5491Chr09:7186951..7186975 (25 bp)
GAACAGTAGGACTTATGTGCAGCTA
LOC_Os09g12540
Os.52420.1.A1_at--886--5691Chr09:7186960..7186984 (25 bp)
GACTTATGTGCAGCTAGCGTTTATA
LOC_Os09g12540
Os.52420.1.A1_at--27--4871Chr09:7186972..7186996 (25 bp)
GCTAGCGTTTATATTTACTGGTTTT
LOC_Os09g12540
Target Sequence 
GAGACATAAACTACCCGGGAGGAGCACTNTTNGATCCCTTGGGGCTNTCCAAAGATCCAGTNGCGTTNGAAGATNTAAAG
GTGAAGGAGATCAAGAACGGTCGCCTGGCAATGGTTGCATGGCTCGGNTTNTACATCCAGGCAGCTGTAACTGGCAAGGG
TCCTATTCAGAACCTTGTTGAACACTTGTNGGACCCGCTGCATAACAACATTTTGTCCTNTTTTGTTTGAGCCTTNTTTT
AATGGACATAGCAGCTGTGTCCTGTTTGGTCNCATGAACAGTAGGACTTATGTGCAGCTAGCGTTTATATTTACTGGTTT
T

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.52420.1.A1_at     

Putative homologies in rice

Putative homologies in arabidopsis