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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCGAATAGAACTTCGCTTGGAAATGCAATTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatcattgtataaatgttggtaaagtttagcaattttcacttacacatcattttattgcattaaaaaacttatgcaatgtaaaaaccttggcact...

Basic information

species Glycine max
transcript GLYMA02G45610.1
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G45610.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv02s0025g01350.t01 (Vitis vinifera), 5'ss of exon 15
AATCGAATAGAACTTCGCTTGGAAATGCAATTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatcattgtataaatgttggtaaagtttagcaattttcacttacacatcattttattgcattaaa-----aaacttatgcaatgtaaaa--accttggcact
||| | | ||||| || ||||||||  || | | | ||||||||| ||||||||| ||||||||||| ||  ||||||||||||     ||  |||     |||| |   ||||     ||   ||||    | ||||| ||   || ||     ||| ||  |   |  | ||  |||||      
AATGGGAGAGAACCTCACTTGGAAAATCAGTCAAGTTTTTCAGATTATCATTCTTGCAGCCTTTACTGAAGTCCTGCAAGgtatattgaatcctatttcaattgggatcttttaatt-cttgtgcttattttttatttttttattttgaagctataaaattgcgttttccagaactacctt------
















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|193665158|gb|FK607926.1|FK607926
EST:     TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTGAAAGCCTGCAAG                         GAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
genomic: TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatca ... aatattgcagGAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
EST: gi|193413266|gb|FK376003.1|FK376003
EST:     TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAG                         GAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
genomic: TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatca ... aatattgcagGAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
EST: gi|193535849|gb|FK488781.1|FK488781
EST:     TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAG                         GAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
genomic: TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatca ... aatattgcagGAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
EST: gi|151404405|gb|EV274215.1|EV274215
EST:     TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAG                         GAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAA
genomic: TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatca ... aatattgcagGAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAA
EST: gi|58023254|gb|CX709995.1|CX709995
EST:     TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAG                         GAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
genomic: TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatca ... aatattgcagGAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
EST: gi|193369513|gb|FK333989.1|FK333989
EST:     TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAG                         GAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
genomic: TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatca ... aatattgcagGAGGAGATTGAAAATTCCTATAACTTAAAATTGCAGCAGTCAAAGAATTCC
EST: gi|193320839|gb|FK284778.1|FK284778
EST:     TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAG                         GAGGAGATTGAAAATTCCTATAACTTAAAATTG
genomic: TTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatca ... aatattgcagGAGGAGATTGAAAATTCCTATAACTTAAAATTG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATCGAATAGAACTTCGCTTGGAAATGCAATTACGCTTTTCAGATCATCATTCTTACAGCCTTTACTAAAAGCCTGCAAGgtatggatcattgtataaatgttggtaaagtttagcaattttcacttacacatcattttattgcattaaaaaacttatgcaatgtaaaaaccttggcact

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