Browse Element(s) Details


Os.54939.1.S1_at

Description gb:AK107141.1
DB_XREF= gi:32992350
TID=Os.54939.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54939 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-124-D03, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-124-D03, full insert sequence.
FL= gb:AK107141.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g1523011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g15180Os.55287.1.S1_at11/115+8595804..8597787expressed protein
LOC_Os05g15190OsAffx.26904.1.S1_at9/115+8598996..8602595hypothetical protein
LOC_Os05g15190OsAffx.26904.1.S1_x_at9/115+8598996..8602595hypothetical protein
LOC_Os05g15190OsAffx.29316.1.S1_x_at2/115+8598996..8602595hypothetical protein
LOC_Os05g15190OsAffx.14776.1.S1_at1/115+8598996..8602595hypothetical protein
LOC_Os05g15190OsAffx.20927.2.S1_at1/115+8598996..8602595hypothetical protein
LOC_Os05g15190OsAffx.14776.1.S1_x_at1/115+8598996..8602595hypothetical protein
LOC_Os05g15200NANA5+8606261..8608023Zinc knuckle family protein
LOC_Os05g15210NANA5+8609337..8611693retrotransposon protein, putative, unclassified
LOC_Os05g15220NANA5+8612544..8617644retrotransposon protein, putative, unclassified, expressed
LOC_Os05g15230Os.54939.1.S1_at11/115+8619474..8621547expressed protein
LOC_Os05g15240OsAffx.21066.1.S1_x_at3/115+8623190..8626815expressed protein
LOC_Os05g15240Os.27004.1.A1_at2/115+8623190..8626815expressed protein
LOC_Os05g15240OsAffx.9772.1.S1_at1/115+8623190..8626815expressed protein
LOC_Os05g15250OsAffx.19542.3.S1_x_at3/115+8628495..8632701retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g15260OsAffx.4344.1.S1_at11/115+8634354..8635570hypothetical protein
LOC_Os05g15270Os.36426.1.S1_at1/115+8635965..8642312retrotransposon protein, putative, unclassified
LOC_Os05g15270OsAffx.199.1.S1_at1/115+8635965..8642312retrotransposon protein, putative, unclassified
LOC_Os05g15280OsAffx.20877.1.S1_at1/115+8644822..8647071retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g15280Os.48015.1.A1_x_at1/115+8644822..8647071retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g15280OsAffx.10665.2.S1_at1/115+8644822..8647071retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54939.1.S1_at--413--2971Chr05:8620964..8620988 (25 bp)
AATGGAGATACCCACAGTCCTGATC
LOC_Os05g15230
Os.54939.1.S1_at--765--3931Chr05:8621209..8621233 (25 bp)
CGGCGGGCTACGACTCGCAGGCCTT
LOC_Os05g15230
Os.54939.1.S1_at--540--871Chr05:8621227..8621251 (25 bp)
AGGCCTTCTCCGGACTGTACGACGA
LOC_Os05g15230
Os.54939.1.S1_at--561--8671Chr05:8621265..8621289 (25 bp)
TGTGGGACATGGTGGCACAGCCACA
LOC_Os05g15230
Os.54939.1.S1_at--288--8331Chr05:8621296..8621320 (25 bp)
GGCTCCGGCGCAATTATTTTCCCAG
LOC_Os05g15230
Os.54939.1.S1_at--342--3171Chr05:8621306..8621330 (25 bp)
CAATTATTTTCCCAGCCCGTGGTCG
LOC_Os05g15230
Os.54939.1.S1_at--767--91Chr05:8621354..8621378 (25 bp)
ATTCGTCATCGCTCTAGCCGCTACA
LOC_Os05g15230
Os.54939.1.S1_at--793--9991Chr05:8621368..8621392 (25 bp)
TAGCCGCTACACAGACATACTTCAC
LOC_Os05g15230
Os.54939.1.S1_at--688--2131Chr05:8621378..8621402 (25 bp)
ACAGACATACTTCACGGTGTTCCCA
LOC_Os05g15230
Os.54939.1.S1_at--768--7751Chr05:8621393..8621417 (25 bp)
GGTGTTCCCACCCAACAAGTGATCT
LOC_Os05g15230
Os.54939.1.S1_at--785--2451Chr05:8621406..8621430 (25 bp)
AACAAGTGATCTCTCGTGGATTAGA
LOC_Os05g15230
Target Sequence 
AATGGAGATACCCACAGTCCTGATCGACGACGCGAGGCGGCCGCTGCTCGCGAACCTGCTCGCGTTCGAGCAGAGCCAGC
GCGGCGAGGAGGAGGGGCTCCTGAGCAGCTACGTGGCACTGATGAGCCAGCTCATCGTGACAGCACGCGACGTGGAGCTG
CTCCGCCGGCGCGGCGTCGTGGTGAACCTGTTGGACAACGACGAGGAGGCGGCCCGGTTCTTCAACCGCCTCGACGACTG
CCACCCGGCGGGCTACGACTCGCAGGCCTTCTCCGGACTGTACGACGACGTGACGCGCTACTGTGGGACATGGTGGCACA
GCCACATGGCTGGGCTCCGGCGCAATTATTTTCCCAGCCCGTGGTCGGCCATCTCCGTTGCCGTCGCCACATTCGTCATC
GCTCTAGCCGCTACACAGACATACTTCACGGTGTTCCCACCCAACAAGTGATCTCTCGTGGATTAGA

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.54939.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis