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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCCAGgtattcgagtatttatctttcatttaacttttcaaaacttgttggacatcctttttcatttgtcacctgctttttgtagtctgtcttctgtgtttcagtgcatgtttcattaatgattttattttactattttgtggtgtaattactctgtcttttgaacctagacag

Basic information

species Glycine max
transcript GLYMA11G11950.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11950.3 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G002859_T02 (Zea mays), 5'ss of exon 5
TGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCCAGgt-attcgagtatttatctttcatttaacttttcaaaacttgttggacatcctttttcatttgtcacctgctttttgtagtctgtcttctgtgtttcagtgcatgtttcattaatgattttattttactattttgtggtgtaattactctgtcttttgaacctagacag
|||||| ||  | ||||| |||||  |||||||||| |||||||||||| | || ||||||||| | || ||||||||||| || ||||| ||||| ||||| |||  | ||| |||      |  |   || || ||   |||      |||||  | ||||||        |||||| ||| | |  |        | |||| || ||||     ||||                                                
TGCAGAACCTCTGAGGGCTATGGTTATGGGAGCTCCTTTGGAGGATGCTCGCCACCTTGCTCAAAGGTACGACAGAATGCGTCAAGAAGCTGAAGCGCAGgtgatttcactatgtat------tacactattgcataatgagttta----cctttaccttttgtc--------tttgta-tctctttatta-acaagggggcatatt-cattgtcactttt------------------------------------------------

upper sequence: GLYMA11G11950.3 (Glycine max), 5'ss of exon 5
lower sequence: AT4G34660.2 (Arabidopsis thaliana), 5'ss of exon 5
TGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCCAGgtat--tcgagtatt-tatctttcatttaacttttcaaaacttgttggacatcctttttcatttgtcacctgctttttgtagtctgtcttctgtgtttcagtgcatgtttcattaatgattttattttactattttgtggtgtaattactctgtcttttgaacctagacag
||| ||||||||| ||||||||||  ||||||||||||||||||||||||| |||||||||||||| |||||||||||||| || ||||| ||||| ||||||   |  |  ||  || | |  |  ||  |  | |    | || | | ||   ||||    | |  |  |   |    | | | |  |  |  |   ||  |    || | | |||    |  |||| |        |                               
TGCTGAGCCATTACGGGCAATGGTTTTGGGAGCTCCATTGGAGGATGCTAGACATCTTGCTCAACGCTATGACAGAATGCGCCAAGAAGCTGAAGCTCAGgtacggtgaaagataataccatgaagctatttaattaccgttagtagaatatgggttttttcctcttccaagaactagtcattttattattcgcatgatagaac----tttacttatgcgcctgctttaat-ccaaacag-------------------------------

upper sequence: GLYMA11G11950.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv03s0038g00460.t01 (Vitis vinifera), 5'ss of exon 5
TGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCCAGgtattcgagtatttatctttcatttaacttttcaaaacttgttggacatcctttttcatttgtcacctgctttttgtagtctgtcttctgtgtttcagtgcatgtttcattaatgattttattttactattttgtggtgtaattactctgtcttttgaacctagacag
||||||||||||||| || |||||  ||||||||||||||||||||||| | |||||||||||||| ||||| ||||||||||| ||||| ||||| |||||||||    |      ||| |||||  ||||||||  |   || || |   |  |    | | |      |||  || | |  ||| | |   | |||   |||||                                                             
TGCAGAGCCATTAAGAGCGATGGTAATGGGAGCTCCATTGGAGGATGCTCGACATCTTGCTCAACGCTATGAAAGAATGCGACAAGAAGCTGAAGCTCAGgtattcttaaacaa---ttttatttagtttttcaaa--tgtatgcacttttctcctagggtttgagtcatatttgatatttt--cttttattgctgagtttttgttt-------------------------------------------------------------

upper sequence: GLYMA11G11950.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0001g13530.t01 (Vitis vinifera), 5'ss of exon 5
TGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCTAGGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCCAGgtat--tcgagtatttatctttcatttaacttttcaaaacttgttggacatcctttttcatttgtcacctgctttttgtagtctgtcttctgtgtttcagtgcatgtttcattaatgattttattttactattttgtggtgtaattactctgtcttttgaacctagacag
|| ||| || ||||| ||||||||  |||||||||| |||||||||||| | |||||||||||||| ||||| |||||||||  |||||| ||||| ||||||   |    |||    | ||  ||||  | | ||     || ||||   | | || ||||| | |||    |||    |  |   |||  |||   | | |                                                                   
TGGAGAACCCTTAAGAGCAATGGTAATGGGAGCTCCCTTGGAGGATGCTCGACATCTTGCTCAACGATATGAGAGAATGCGAATGGAAGCTGAAGCTCAGgtaacgttagatatgagacatttctttatatctgca--gtctgctggatg-catcttccatttcttaccaaaatttgagcgattcatttcattgtcatattcc-------------------------------------------------------------------

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|15285961|gb|BI469852.1|BI469852
EST:     GGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCCAG                         GCTATTGAAGTTTCTAAACGCCAGGCAAAAGTAAGAGAAATGCCACCCAAT
genomic: GGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCCAGgtattcgagt ... acctagacagGCTATTGAAGTTTCTAAACGCCAGGCAAAAGTAAGAGAAATGCCACCCAAT
EST: gi|193419399|gb|FK383119.1|FK383119
EST:     GGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCCAG                         GCTATTGAAGTTTACTAAACGCCAGGCAAAAGTAAGAGAAATGCCACCCAA
genomic: GGCATCTTGCTCAACGTTATGACAGAATGCGACAGGAAGCGGAAGCCCAGgtattcgagt ... acctagacagGCTATTGAAGTTT-CTAAACGCCAGGCAAAAGTAAGAGAAATGCCACCCAA