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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCTTCCGTCCAAGGATGCAAACTTTGTTGGCTATACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTGgttagcactctctctctctctctaatgaaattgtaaatgatgatgcctttctttagattatgcatttttagtgtcttttgtttgaaaaaaaatgttgtgcttatggaacag

Basic information

species Oryza sativa
transcript LOC_Os05g43570.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g43570.3 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G375904_T01 (Zea mays), 5'ss of exon 11
ATGCTTCCGTCCAAGGATGCAAACTTTGTTGGCTATACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTGgttagcactctctctctctctctaatgaaattgtaaatgatgatgcctttctttagattatgcatttttagtgtcttttgtttgaaaaaaaatgttgtgctt-atggaacag
|||||||| ||||| ||||||||||||||||| ||||| || ||||| ||||||||||| ||||||||||| || |||||||||||||||  ||| |  |    || |  | |   | |  |  ||  | |  || ||||| |  |  || |||||| |          |||||  || | ||||||  || |||||
ATGCTTCCATCCAAAGATGCAAACTTTGTTGGGTATACGTACAAGAACTTTGAAATTGTGAATGATGATGAAGTGGCAGGAATTGgttagttctcccatta---ctatgttcatcctttctactat--ttcacttatttagttgctatatgtttagtctgacaacaacaaaaaatgatttggtgctttgtgcaacag

upper sequence: LOC_Os05g43570.3 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv10s0003g05720.t01 (Vitis vinifera), 5'ss of exon 12
ATGCTTCCGTCCAAGGATGCAAACTTTGTTGGCTATACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTGgttagcactctctctctctctctaatgaaattgtaaatgatgatgcctttctttagattatgcatttttagtgtcttttgtttgaaaaaaaatgttgtgcttatggaacag-
|||||||| |||||||||| ||| || ||||| |||||||| ||||||||||||||||| || ||  || | ||  | || ||||||||| | |  |       || |||  || ||||||    |     |||  | |   | |   |     | | |  | || | ||   | |||  | |  || |   ||   
ATGCTTCCATCCAAGGATGTAAATTTCGTTGGTTATACATACAAGAATTTTGAAATTGTCAACGAGCATCATGTGCCTGGCATTGgttagtattgac-------ctataa-aaatttgtaatcagtag---cttgttatgattcaaaaacccaaacttttctatgatagacccataattctatattt-tattacgaa
















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|325494464|gb|JG458988.1|JG458988
EST:     TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTG                         CTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
genomic: TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTGgttagcactc ... tatggaacagCTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
EST: gi|86827108|gb|CI270824.1|CI270824
EST:     TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTG                         CTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
genomic: TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTGgttagcactc ... tatggaacagCTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
EST: gi|86477542|gb|CI120175.1|CI120175
EST:     TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTG                         GTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
genomic: TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTGgttagcactc ... tatggaacagCTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
EST: gi|55408515|gb|CV720891.1|CV720891
EST:     TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTG                         CTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
genomic: TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTGgttagcactc ... tatggaacagCTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
EST: gi|88850051|gb|CI091346.1|CI091346
EST:     ATTGTAAATGATGATGAGGTTGCAGGAATTG                         CTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
genomic: ATTGTAAATGATGATGAGGTTGCAGGAATTGgttagcactc ... tatggaacagCTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
EST: gi|29623780|gb|CB628791.1|CB628791
EST:     TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTG                         CTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT
genomic: TACATATAAGAATTTTGAAATTGTAAATGATGATGAGGTTGCAGGAATTGgttagcactc ... tatggaacagCTGAGTTGAAGAAGAAGAGTTCCAAGTCAAAGCGGCCAACTATCAAGACAT