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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGCAGATCTAGGTGGGACAGAGATTGATTTGAGGTTTGCCAATTCTAAGGAAGGGCGTTTATTTGTCATTGTTGCCCCAGTTCTCAGATTTGCAGACAgtaagtttctgacagatcttgtatttaagaccttgacaagtggacaggaatcttgaaatgaaatgcagttctcaagtagttttccatggtgaacttggttcactagcctcagatattcatttcttatcatagtgttgctatgatgtacag

Basic information

species Vitis vinifera
transcript Vv18s0001g15360.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g15360.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA04G42010.1 (Glycine max), 5'ss of exon 3
ATTGCAGATCTAGGTGGGACAGAGATTGATTTGAGGTTTGCCAATTCTAAGGAAGGGCGTTTATTTGTCATTGTTGCCCCAGTTCTCAGATTTGCAGACAgtaagt-----ttctgacagatcttgtatttaagaccttg---acaagtggacaggaatcttgaaatgaaatgcagttctcaagtagttttccatg-gtgaacttggttcacta---gcctcagatattcatttcttatcatagtgttgctatgatgtacag
|| |||||||| ||||| |||||||| |||||||| |||||||  ||||||||||| ||||| |||||||||||||| || ||||| |||||  | ||  || |||      | || |  || || | | |    | | |    | || |   ||||   |  |  |||||   |     |||  |   ||| | | || |  |   || | ||   |  | | ||  | | || ||   |   |    ||||   |     
ATAGCAGATCTTGGTGGCACAGAGATAGATTTGAGATTTGCCAGCTCTAAGGAAGGACGTTTGTTTGTCATTGTTGCTCCTGTTCTTAGATTCTCCGATGgtgagtattgagtttgccccattttctttctccatcttagctttctagagacaaggagaataaagttgaaacagaaagaacaatgaaacttctaggtgtaacttccatttattacttgttttatatgataacttttt--tactatacatctatacag-----

upper sequence: Vv18s0001g15360.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA06G12760.1 (Glycine max), 5'ss of exon 3
ATTGCAGATCTAGGTGGGACAGAGATTGATTTGAGGTTTGCCAATTCTAAGGAAGGGCGTTTATTTGTCATTGTTGCCCCAGTTCTCAGATTTGCAGACAgtaagtttc----tgacagatcttgtatttaagaccttgaca----agtggacaggaatcttgaaatgaaatgcagttctcaagtagttttcca--tggtgaacttggt--tcactagcctcagatattcatttcttatcatagtgttgctatgatgtacag
|| |||||||| ||||| |||||||| |||||||| |||||||  ||||||||||| ||||| |||||||||||||| || ||||| |||||  | ||  || ||| |     |  |  || ||   ||    | |||  |     || |   ||||   |  || |||||   |     |||  |   ||| |  ||||        |  |  || || | | ||  | | || ||   |   |    ||||   |     
ATAGCAGATCTTGGTGGCACAGAGATAGATTTGAGATTTGCCAGCTCTAAGGAAGGACGTTTGTTTGTCATTGTTGCTCCTGTTCTTAGATTCTCTGATGgtgagtattgagtttgcctatttttctttctccatcttagctttccagagacaaggagaataaaattgaaacagaaagaacaatgaaacttctaggtggttcttccatttattgcttgctttatatgataacttttt--tactatacatctatacag-----

upper sequence: Vv18s0001g15360.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT1G77090.1 (Arabidopsis thaliana), 5'ss of exon 3
ATTGCAGATCTAGGTGGGACAGAGATTGATTTGAGGTTTGCCAATTCTAAGGAAGGGCGTTTATTTGTCATTGTTGCCCCAGTTCTCAGATTTGCAGACAgtaagtt-tctgacagatcttgtatttaagaccttgacaagtggacaggaatcttgaaatgaaatgcagttctcaagtagttttccatggtgaacttggttcactagcctcagatattcatttcttatcatagtgttgctatgatgtacag
|| || ||||| ||||| || |||||||| ||||| ||||| | | |||| ||||| ||||| | ||| ||||| || || ||||| ||||||||||| |||||||| |||     ||     ||| |  | ||| ||   |       |     | |||| |||   ||      ||| |  |  ||  |||  ||| ||     |   ||  ||| ||                               
ATCGCTGATCTTGGTGGCACCGAGATTGACTTGAGATTTGCTAGTCCTAAAGAAGGCCGTTTGTCTGTTATTGTAGCTCCTGTTCTTAGATTTGCAGATAgtaagttgtctctgctattaaagattcatcaactttactcttttgagttatataggcaatgcaatcttgtctatttgtactcgtagat--tga--ttgatttgtgtgttccacttatacag------------------------------

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|110731146|gb|EE109038.1|EE109038
EST:     GGAAGGGCGTTTATTTGTCATTGTTGCTCCAGTTCTCAGATTTGCAGACA                         ATCTTGGGGATGATGCTAAAGTTGAAAAAATAGGACCTCCAGAGAAAGTGA
genomic: GGAAGGGCGTTTATTTGTCATTGTTGCCCCAGTTCTCAGATTTGCAGACAgtaagtttct ... tgatgtacagATCTTGGGGATGATGCTAAAGTTGAAAAAATAGGACCTCCAGAGAAAGTGA