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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggtttctagtaagattcctgtactttggatataaaaacactaaattgtgatctttctgatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGATCATGATGCTGGGAGCATGATCAAGTACCACAAGAACTTAACTTCCAAAG

Basic information

species Glycine max
transcript GLYMA16G09320.1
intron # 10
splice site 3'
intron type U2

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|151408190|gb|EV277998.1|EV277998
EST:     ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAG                         AAAAGTGTGGTCAGTAGTTGGGATTTATGCACCGACAGAATTTACTTCGAT
genomic: ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAGgtaaggtttc ... gatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
EST: gi|254339690|gb|GR857815.1|GR857815
EST:     AGTCAGGACAGCAATTCATACTGCACAG                         AAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
genomic: AGTCAGGACAGCAATTCATACTGCACAGgtaaggtttc ... gatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
EST: gi|13479098|gb|BG508441.1|BG508441
EST:     ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAG                         AAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
genomic: ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAGgtaaggtttc ... gatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
EST: gi|193717070|gb|FK654698.1|FK654698
EST:     ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAG                         AAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
genomic: ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAGgtaaggtttc ... gatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
EST: gi|5677334|gb|AI938464.1|AI938464
EST:     ATTTATGGTTAAACACTGAATCAGTCAGGACAGCAATTCATACTGCACAG                         AAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
genomic: ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAGgtaaggtttc ... gatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
EST: gi|57574399|gb|CX547374.1|CX547374
EST:     ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAG                         AAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
genomic: ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAGgtaaggtttc ... gatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
EST: gi|57574752|gb|CX547727.1|CX547727
EST:     ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAG                         AAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT
genomic: ATTCATGGTTAAACAATGAAGCAGTCAGGACAGCAATTCATACTGCACAGgtaaggtttc ... gatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattcctgtactttggatataaaaacactaaattgtgatctttctgatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGATCATGATGCTGGGAGCATGATCAAGTACCACAAGAACTTAACTTCCAAAG
                                      tctttctg  CT-rich tract
                atataaaaacactaaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggtttctagtaagattcctgtactttggatataaaaacactaaattgtgatctttctgatgaaacagAAAAGTGTGGTCAGTAGTTGGGATTTATGCACTGACAGAATTTACTTCGATCATGATGCTGGGAGCATGATCAAGTACCACAAGAACTTAACTTCCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC