Browse Element(s) Details


Os.50880.2.S1_x_at

Description gb:AK059162.1
DB_XREF= gi:32969180
TID=Os.50880.2
CNT=4
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.50880 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) rpoT1 mRNA for RpoT1, complete cds
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-023-D08, full insert sequence.
FL= gb:AK066809.1 gb:AK059162.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g0712010/11DNA-directed RNA polymerase 1, mitochondrial precursor, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g07070OsAffx.22699.1.S1_x_at3/119+3426082..3430880retrotransposon protein, putative, unclassified
LOC_Os09g07080OsAffx.3761.1.S1_x_at1/119+3435660..3438394hypothetical protein
LOC_Os09g07090NANA9+3440945..3442759retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g07100NANA9+3445667..3446026hypothetical protein
LOC_Os09g07110Os.7307.3.S1_x_at2/119+3449033..3453056hypothetical protein
LOC_Os09g07120Os.50880.1.S1_a_at11/119+3455030..3466785DNA-directed RNA polymerase 1, mitochondrial precursor, putative, expressed
LOC_Os09g07120Os.50880.2.S1_x_at10/119+3455030..3466785DNA-directed RNA polymerase 1, mitochondrial precursor, putative, expressed
LOC_Os09g07120OsAffx.31428.1.S1_s_at1/119+3455030..3466785DNA-directed RNA polymerase 1, mitochondrial precursor, putative, expressed
LOC_Os09g07130NANA9+3481721..3484685retrotransposon protein, putative, unclassified
LOC_Os09g07140NANA9+3485176..3487666retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g07150Os.56154.1.S1_s_at11/119+3489062..3491745expressed protein
LOC_Os09g07150Os.22820.1.A1_at11/119+3489062..3491745expressed protein

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Gene Ontology Classification
GO idTypeName
GO:0006350biological_processtranscription
GO:0005739cellular_componentmitochondrion
GO:0003677molecular_functionDNA binding
GO:0003899molecular_functionDNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.50880.2.S1_x_at--921--6731Chr09:3462517..3462541 (25 bp)
GTTCAGATCTTTGCCGTGGAGTTTT
LOC_Os09g07120
Os.50880.2.S1_x_at--917--5291Chr09:3462482..3462506 (25 bp)
GAAGGTCGTCCGCTTGGTAAATCAG
LOC_Os09g07120
Os.50880.2.S1_x_at--1145--7031Chr09:3462466..3462490 (25 bp)
GTAAATCAGGCTTGCGCTGGCTAAA
LOC_Os09g07120
Os.50880.2.S1_x_at--385--6231Chr09:3462392..3462416 (25 bp)
GATGGCCGAATTGCATTCACGGAGA
LOC_Os09g07120
Os.50880.2.S1_x_at--1123--10751Chr09:3462349..3462373 (25 bp)
TTGACTCAGCTGATAGACCTCTTGA
LOC_Os09g07120
Os.50880.2.S1_x_at--414--8891Chr09:3462300..3462324 (25 bp)
TGAGGATCCATTCCAATGCCTTGCA
LOC_Os09g07120
Os.50880.2.S1_x_at--686--5411Chr09:3462247..3462271 (25 bp)
GAAGCCCCTCACCAGAAACGATGAT
LOC_Os09g07120
Os.50880.2.S1_x_at--1096--8571Chr09:3461455..3461479 (25 bp)
TGGTTCTTGTAATGGCCTGCAGCAC
LOC_Os09g07120
Os.50880.2.S1_x_at--568--5111Chr09:3461434..3461458 (25 bp)
GCACTATGCTGCTCTTGGAAGGGAT
LOC_Os09g07120
Os.50880.2.S1_x_at--1075--8051Chr09:3461282..3461306 (25 bp)
GGAGCCATTGCTGTGAACTTAGTTG
LOC_Os09g07120
Os.50880.2.S1_x_at--890--5091NONE
GCACGTCTGCTACTTGATCAGGTTG
NONE
Target Sequence 
GTTCAGATCTTTGCCGTGGAGTTTTGGAGTTTGCAGAAGGTCGTCCGCTTGGTAAATCAGGCTTGCGCTGGCTAAAGATA
CATCTAGCAAATTTATATGCTGGTGGTGTTGACAAGTTATCGTATGATGGCCGAATTGCATTCACGGAGAATCACTTGGA
GGACATATTTGACTCAGCTGATAGACCTCTTGAAGGCAAACGATGGTGGCTTGGAGCTGAGGATCCATTCCAATGCCTTG
CAGTGTGCATAAATCTCACTGAAGCTTTAAGAAGCCCCTCACCAGAAACGATGATCTCACATATTCCTGTGCATCAGGAT
GGTTCTTGTAATGGCCTGCAGCACTATGCTGCTCTTGGAAGGGATAAGTTGGGAGCCATTGCTGTGAACTTAGTTGCCGG
GGAGAAGCCTGCAGATGTTTATNCTGGAATAGCTACCAGGGTGGTGGAAATTATGAAGAACGATGCGCTAAAAGATCCTG
CTACAGATCCTGATGCAGCACGCGCACGTCTGCTACTTGATCAGGTTG

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.50880.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis