Browse Element(s) Details


Os.11988.1.S1_at

Description gb:AB077993.1
DB_XREF= gi:19072101
GEN=Roc1
TID=Os.11988.1
CNT=15
FEA=FLmRNA
TIER=FL+Stack
STK=7
UG=Os.11988 (NCBI UniGene Cluster)
DEF=Oryza sativa mRNA for Roc1, complete cds.
PROD=Roc1
FL= gb:AK120496.1 gb:AB077993.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g0882011/11START domain containing protein, expressed
LOC_Os11g027201/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g08770NANA8+5077283..5083369retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g08780OsAffx.21897.5.S1_x_at4/118+5083681..5086621retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g08790OsAffx.16901.1.S1_at11/118+5088060..5089137Ubiquitin family protein
LOC_Os08g08800OsAffx.29108.1.S1_at11/118+5090474..5093058hypothetical protein
LOC_Os08g08810OsAffx.29109.1.S1_at11/118+5101268..5101918hypothetical protein
LOC_Os08g08820Os.11988.1.S1_at11/118+5102935..5110437START domain containing protein, expressed
LOC_Os08g08820Os.57415.1.S1_x_at2/118+5102935..5110437START domain containing protein, expressed
LOC_Os08g08820OsAffx.29023.1.S1_x_at2/118+5102935..5110437START domain containing protein, expressed
LOC_Os08g08830Os.9520.1.S1_at10/118+5112410..5121779expressed protein
LOC_Os08g08840Os.4078.1.S1_at10/118+5133330..5137307Glucose-6-phosphate/phosphate translocator 2, chloroplast precursor, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006355biological_processregulation of transcription, DNA-dependent
GO:0009913biological_processepidermal cell differentiation
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.11988.1.S1_at--318--8131Chr08:5109804..5109828 (25 bp)
GGACAGCAACCCTCAGTAGTAGCAC
LOC_Os08g08820
Os.11988.1.S1_at--523--6951Chr08:5109822..5109846 (25 bp)
GTAGCACCGGCTTCAACCAAATATG
LOC_Os08g08820
Os.11988.1.S1_at--747--791Chr08:5110029..5110053 (25 bp)
ATGTGGTGCCCTTGCTAGTGAAGAA
LOC_Os08g08820
Os.11988.1.S1_at--462--5551Chr08:5110062..5110086 (25 bp)
GAAACCGACGCGTTTGCGAGAAAAT
LOC_Os08g08820
Os.11988.1.S1_at--295--5691Chr08:5110141..5110165 (25 bp)
GACTTCCACCTTTTGATTTTCATCA
LOC_Os08g08820
Os.11988.1.S1_at--1119--5351Chr08:5110174..5110198 (25 bp)
GAAGAGTGGATGCTGCTACCTTGTT
LOC_Os08g08820
Os.11988.1.S1_at--155--9091Chr08:5110187..5110211 (25 bp)
TGCTACCTTGTTGTTTTTCTGAATC
LOC_Os08g08820
Os.11988.1.S1_at--976--733Chr12:939281..939375 (24 bp)
ATGTTAGGGCTTCTTTTACCATGTT
NONE
Os.11988.1.S1_at--117--5431Chr08:5110253..5110277 (25 bp)
GAAGCCTCATTTTTATCTGTACTGT
LOC_Os08g08820
Os.11988.1.S1_at--1153--9451Chr08:5110268..5110292 (25 bp)
TCTGTACTGTTGTGATGTGTTGTCT
LOC_Os08g08820
Os.11988.1.S1_at--380--1011Chr08:5110308..5110332 (25 bp)
AGGTTCCTGTCCCTTAGCTAGGAGT
LOC_Os08g08820
Target Sequence 
GGACAGCAACCCTCAGTAGTAGCACCGGCTTCAACCAAATATGATCACGAACAATGTTCCAAGGAGCAGCAAAATTTTGG
AGTTTGATTCAGCAGTAGGGAGTCAAGAACGCACCTCAAACTCTCCTTGCCATGTGGTGCCCTTGCTAGTGAAGAATTTG
CGAGGAAACCGACGCGTTTGCGAGAAAATTTTCGCGAAGATACATAGTGTCACCACTATGCAAGGGGGGATGGTTCGGGC
ATTGACTTCCACCTTTTGATTTTCATCAAATGCATCGAAGAGTGGATGCTGCTACCTTGTTGTTTTTCTGAATCTCTATG
TTAGGGCTTCTTTTACCATGTTTAAAAAGGGCTATGAAGCCTCATTTTTATCTGTACTGTTGTGATGTGTTGTCTGTTTG
TTCAGACTTCAGGTTCCTGTCCCTTAGCTAGGAGT

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.11988.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis