Browse Element(s) Details


Os.54279.1.S1_at

Description gb:AK103018.1
DB_XREF= gi:32988227
TID=Os.54279.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54279 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033116N09, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033116N09, full insert sequence.
FL= gb:AK103018.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g3826811/11RNA polymerase Rpb1, domain 2 family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g38180OsAffx.22848.4.S1_at2/119+21990846..21996285retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g38180OsAffx.22848.4.S1_x_at2/119+21990846..21996285retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g38200NANA9+22000708..22005426retrotransposon protein, putative, unclassified
LOC_Os09g38210Os.13580.1.A1_at4/119+22007030..22009086Auxin Efflux Carrier family protein
LOC_Os09g38210Os.49579.1.S1_at1/119+22007030..22009086Auxin Efflux Carrier family protein
LOC_Os09g38239Os.15407.1.S1_at11/119+22013268..22014768Sulfotransferase domain containing protein, expressed
LOC_Os09g38239OsAffx.30188.1.S1_s_at11/119+22013268..22014768Sulfotransferase domain containing protein, expressed
LOC_Os09g38268OsAffx.26522.2.S1_at11/119+22018137..22032258RNA polymerase Rpb1, domain 2 family protein, expressed
LOC_Os09g38268Os.54279.1.S1_at11/119+22018137..22032258RNA polymerase Rpb1, domain 2 family protein, expressed
LOC_Os09g38300OsAffx.6517.1.S1_at11/119+22034063..22035817Kelch motif family protein
LOC_Os09g38310Os.53582.1.S1_at11/119+22036478..22040192pentatricopeptide, putative, expressed
LOC_Os09g38320Os.22278.1.S1_at11/119+22041490..22044567Phytoene synthase, chloroplast precursor, putative, expressed
LOC_Os09g38330Os.53985.1.S1_at11/119+22047983..22056548expressed protein

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Gene Ontology Classification
GO idTypeName
GO:0006350biological_processtranscription
GO:0031047biological_processRNA-mediated gene silencing
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003899molecular_functionDNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54279.1.S1_at--725--5771Chr09:22031693..22031717 (25 bp)
GACGATACTAGTGCAGATTTCTCTT
LOC_Os09g38268
Os.54279.1.S1_at--799--7771Chr09:22031872..22031896 (25 bp)
GGTGCTCAATTTACCCAGATGACGA
LOC_Os09g38268
Os.54279.1.S1_at--214--7151Chr09:22031922..22031946 (25 bp)
GTCTTCTTCAGTTAACAGGGCTCAA
LOC_Os09g38268
Os.54279.1.S1_at--236--8311Chr09:22031940..22031964 (25 bp)
GGCTCAAAGGGCTCTGCAGGAATTA
LOC_Os09g38268
Os.54279.1.S1_at--65--1391Chr09:22031965..22031989 (25 bp)
AGACAGGGTTGTGCGTCAACTCAAC
LOC_Os09g38268
Os.54279.1.S1_at--813--10051Chr09:22032060..22032084 (25 bp)
TAGTGGCCCACTGCCATTAGAGGGT
LOC_Os09g38268
Os.54279.1.S1_at--672--6811Chr09:22032083..22032107 (25 bp)
GTTTACGGATACTGTAACCCTTCAT
LOC_Os09g38268
Os.54279.1.S1_at--300--2611Chr09:22032098..22032122 (25 bp)
AACCCTTCATTTTCTCTCCAAGGAT
LOC_Os09g38268
Os.54279.1.S1_at--590--271Chr09:22032146..22032170 (25 bp)
ATAGGCGTTGTCGTTACCCTTTGCA
LOC_Os09g38268
Os.54279.1.S1_at--269--9611Chr09:22032171..22032195 (25 bp)
TCATCTGTCCTGTTGTAAAGCGAAA
LOC_Os09g38268
Os.54279.1.S1_at--321--951Chr09:22032200..22032224 (25 bp)
AGGACTGATGATCCATATTCGAAAT
LOC_Os09g38268
Target Sequence 
GACGATACTAGTGCAGATTTCTCTTACAACAAGTGTGTCCTTGGTGCTGCAAACTCTATCTCACCTGAACTTGGAAGTTA
TATTGAGAAGATACTATCTAATAGAGCAATTCGGCCACATCAGTTGTAGGGTGAGCTTTCAAATACTTTAGGAACAAGAA
ATCTTCAGAAGCAACTTAGGGTGCTCAATTTACCCAGATGACGATAGATATAGGTGAATGTTGTTTTTTGTCTTCTTCAG
TTAACAGGGCTCAAAGGGCTCTGCAGGAATTAAGACAGGGTTGTGCGTCAACTCAACTCAACCAATCTAGGTATTAGCTC
TTTTTTTTTTTTTCAAATTAGTGGAGCTACAGATGGCCGGCCTGAGCCTTAGTGGCCCACTGCCATTAGAGGGTTTACGG
ATACTGTAACCCTTCATTTTCTCTCCAAGGATAGGTAGTGGCACTTAGAAATGCAATAGGCGTTGTCGTTACCCTTTGCA
TCATCTGTCCTGTTGTAAAGCGAAAAACGAGGACTGATGATCCATATTCGAAAT

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.54279.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis