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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTATGTAGTTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataagctattttaagttatgctcatcagatagcttgccttgttagtgaagctaaggtttggtggctttgttgcag

Basic information

species Oryza sativa
transcript LOC_Os02g47110.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G106795_T03 (Zea mays), 5'ss of exon 4
ATCTATGTAGTTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataagctattt-taagttatgctcatcagatagcttgccttgtt-agtgaagctaaggtttggtggctttgttgcag
|||||||||||||||||||||||| | ||||| || |||||||| ||||| || |||||||| |  ||   | |   | ||   |||| |||    |  ||   || || |   ||| |||  ||       | ||||||||
ATCTATGTAGTTGATTCATTGGATCGGGAGAGGATTGGAAAAGCTAAAGCTGAATTTCAGgtctg-tagattgtcagtcagagctgcttatcgctgaatttaatttcttcaaccaagttaatattgaacaattctgttgcag

upper sequence: LOC_Os02g47110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G113995_T03 (Zea mays), 5'ss of exon 3
----------------------------------------ATCTATGTAGTTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataa--gctattttaagttatgctcatcagatagcttgccttgtt-agtgaagctaaggtttggtggctttgttgcag
                                        ||||| ||||||||||| |||||| | |||||||| |||||||| ||||| || |||||||| |   ||  |  |   | ||   | || ||     |  | |  || || |   | | |||  |   |    | ||||||||
GTTATACATGGTAACTCTTTATGCACGTTTCGAGTTGTAGATCTACGTAGTTGATTCGTTGGATCGGGAGAGAATTGGAAAAGCCAAAGCTGAATTTCAGgtctgtaaattgtcacagtcagggcttctaattgctgaattcgttttcttcaaccaggttaatatcgagcaattctgttgcag

upper sequence: LOC_Os02g47110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G106795_T02 (Zea mays), 5'ss of exon 4
ATCTATGTAGTTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataagctattt-taagttatgctcatcagatagcttgccttgtt-agtgaagctaaggtttggtggctttgttgcag-------------------
|||||||||||||||||||||||| | ||||| || |||||||| ||||| || |||||||| |  ||   | |   | ||   |||| |||    |  ||   || || |   ||| |||  ||       | ||||||||                   
ATCTATGTAGTTGATTCATTGGATCGGGAGAGGATTGGAAAAGCTAAAGCTGAATTTCAGgtctg-tagattgtcagtcagagctgcttatcgctgaatttaatttcttcaaccaagttaatattgaacaattctgttgcaggcaataatcaatgatcctt

upper sequence: LOC_Os02g47110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G113995_T01 (Zea mays), 5'ss of exon 4
ATCTATGTAGTTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataa--gctattttaagttatgctcatcagatagcttgccttgtt-agtgaagctaaggtttggtggctttgttgcag
||||| ||||||||||| |||||| | |||||||| |||||||| ||||| || |||||||| |   ||  |  |   | ||   | || ||     |  | |  || || |   | | |||  |   |    | ||||||||
ATCTACGTAGTTGATTCGTTGGATCGGGAGAGAATTGGAAAAGCCAAAGCTGAATTTCAGgtctgtaaattgtcacagtcagggcttctaattgctgaattcgttttcttcaaccaggttaatatcgagcaattctgttgcag

upper sequence: LOC_Os02g47110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv16s0039g02240.t01 (Vitis vinifera), 5'ss of exon 4
ATCTATGTAGTTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataagctattttaagttatgctcatcagatagcttgccttgttagtgaagctaaggtttggtggctttgttgcag-------
|||||||| |||||||| |||||| ||||||| || |||||||| || || ||||||||||||   |   |||  | ||   ||     ||| |   |||   | |||  | |   |     || ||    || || |         
ATCTATGTTGTTGATTCCTTGGATCGAGAGAGGATTGGAAAAGCAAAGGCAGAGTTTCAGgttgggtgtcctagat-aatgcatttatgtcaaacgtcttaattggttgattagtttctcagttagtttacttatttcttctttcag

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|8527517|gb|AU092332.1|AU092332
EST:     TTGATNCATTGGATAGAGAGAGANTCGGAAAAGCGAAAGCGGAGTTNCAG                         GCAATCGTTAATGATCCTTTGATGCTTNACAGTGTAATATTGGTATTTGCC
genomic: TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataag ... tttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC
EST: gi|66919065|gb|CX105913.1|CX105913
EST:     TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAG                         GCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC
genomic: TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataag ... tttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC
EST: gi|2310427|gb|C26582.1|C26582
EST:     GATTCATTGGNTAGAGGAGAGAATCGGAAAAGCGAAA-CGGNAGTTTCAG                         GCAATCGTTAAT
genomic: GATTCATTGGATAGAG-AGAGAATCGGAAAAGCGAAAGCGG-AGTTTCAGgtttaataag ... tttgttgcagGCAATCGTTAAT
EST: gi|33692402|gb|CF320641.1|CF320641
EST:     TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAG                         GCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC
genomic: TTGATTCATTGGATAGAGAGAGAATCGGAAAAGCGAAAGCGGAGTTTCAGgtttaataag ... tttgttgcagGCAATCGTTAATGATCCTTTGATGCTTAACAGTGTAATATTGGTATTTGCC