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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGTTATGGCAGTTTTTGCATACATATATCACCAATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggaccatgcttcatttgagcctgtttactattgtcttgtgtgattcttatgcatttccgatcttttgtcatccag

Basic information

species Oryza sativa
transcript LOC_Os01g55360.3
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g55360.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM5G825110_T02 (Zea mays), 5'ss of exon 11
ATGGTTATGGCAGTTTTTGCATACATATATCACCAATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggaccat----gcttcattt-----gag------cctgtttacta------ttgtcttgtgtgattcttatgcatttccgatcttttgtcatccag
|||||||||||||| |||||||||||||| ||||| ||||||||  | || || |||| |||||||||| |||||||||| ||||| |||| | |     |||  |||     |||      ||  ||   ||      || |||| ||| ||| | |  || |  | | ||||| |||| |||
ATGGTTATGGCAGTGTTTGCATACATATACCACCAGTCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAGgtgaggatcgttatcactttttttatcttgagtggttcccccttctttaagcagtttatcttttgtcattgtaac-caatgtctaccttttctcattcag

upper sequence: LOC_Os01g55360.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G452529_T03 (Zea mays), 5'ss of exon 3
ATGGTTATGGCAGTTTTTGCATACATATATCACCAATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggaccatgcttcatttgagcctgtttactattgtcttgtgtgattcttatgcatttccgatcttttgtcatccag-------------------------
|||||||||||||| |||||||||||||| ||||||||||||||  | || || |||| |||||||||| |||||||||| ||||| |||| |||   | | || |   | |||| |  | |   |  |  || ||||||| ||   ||||| |||||| |                           
ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAGgtgaggatcat-tattacttaattttatttatt--tattgcggttcttttttatgcaattt--atcttctgtcattctaacaaatgtgtacctttttcattcag

upper sequence: LOC_Os01g55360.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA10G32660.1 (Glycine max), 5'ss of exon 10
ATGGTTATGGCAGTTTTTGCATACATATATCACCAATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggaccatgcttcatttgagcctgtttactattgtct-tgtgtgattcttat---gcatttccgatcttttgtc-atccag-------------------
||||||||||| || ||||||||||||||||| || |||||  |   ||| ||||    ||| |||||  | || ||||| |||||    |  ||  || |||| |   ||| || || | | | | |||  |||| |     |||||  ||| |||  |  ||  |                    
ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCGCAAACTCTCTCGGTTGAAATGATTTTGGACCAGgt---aattata-tttattttactatgtatattactttgtatatgtatttctaaattaacatttaagatgtttaatttatggaactgccgctgttcgcttcag

upper sequence: LOC_Os01g55360.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA20G34940.1 (Glycine max), 5'ss of exon 11
ATGGTTATGGCAGTTTTTGCATACATATATCACCAATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggaccatgcttcatttgagcctgtttactattgtcttgtgtgattcttatgcatttccgatcttttgtcatccag-----------------------
||||||||||| || |||||||| |||||||| ||||||||  |   ||| ||||    ||| |||||  | || ||||| ||||| |  |   |  ||    | ||  | ||   |  | | |||| |   | |||   |   || |   | | | ||  |                        
ATGGTTATGGCGGTGTTTGCATATATATATCATCAATCATTTGTTGTGCCGCAAACTCTCTCAGTTGAAATGATTTTGGACCAGgtaattatgcttattttactaagtatattgctttgtat-ttgtatttctattaattaacacctaagatgtttaatttatggcactaccactgtttgcttcag

upper sequence: LOC_Os01g55360.1 (Oryza sativa), 5'ss of exon 11
lower sequence: AT1G62430.1 (Arabidopsis thaliana), 5'ss of exon 11
ATGGTTATGGCAGTTTTTGCATACATATATCACCAATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcag----------gaccatgcttca---tttgagcctgtttactattgtcttgtgtgattcttatgcatttccgatcttttgtcatccag
|||||||||||||| ||||| ||||||||||  |||||||| ||     |||||| |   || |||||   |||| | || ||||| |           |||  ||  |||    |  |   | || ||| |||   ||  | |||       |  |  |||  |||    |  ||
ATGGTTATGGCAGTATTTGCCTACATATATCTTCAATCATTTATTGTCTCCCAAAGCGTTTCGGTTGACAAAATCCTAGACCAGgtaaatgaacttctcgactttgtatcaaaactgaaaaatattcacttttgcactgaatcattgaatcaaacatgtgatggtttcat-tgtag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|88990260|gb|CI107686.1|CI107686
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|88828918|gb|CI073788.1|CI073788
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|89162878|gb|CI099768.1|CI099768
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|86437554|gb|CI119276.1|CI119276
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|89198721|gb|CI003458.1|CI003458
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|88844663|gb|CI021238.1|CI021238
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|29679198|gb|CB675473.1|CB675473
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|88258926|gb|CI359316.1|CI359316
EST:     GTTGAGCTAATCTTGGAACAG                         ATTGTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: GTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|86504386|gb|CI147019.1|CI147019
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|88994295|gb|CI117249.1|CI117249
EST:     ATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: ATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|29681975|gb|CB678250.1|CB678250
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|88254829|gb|CI351457.1|CI351457
EST:     ACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: ACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|29671304|gb|CB667579.1|CB667579
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|313081133|gb|HO213719.1|HO213719
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|86433541|gb|CI093884.1|CI093884
EST:     AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
EST: gi|88959995|gb|CI381873.1|CI381873
EST:     AATCATTCATATCGCCCCAAAACTACTCTTTTGAGCTAATCTTGGAACAG                         ATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT
genomic: AATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAGgtcaggacca ... tgtcatccagATTCTAAGAAATCTAACCTTTGAGGAGCAGAAATTCTTATATCAGCAGCTT