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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGTTGCCTTTGAAAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAGgtatttatgtttacatttatgtaaaaacttactataatttactggaggcttgattctactgctcaattttcacacaagaatattctttgttaataatgaa...

Basic information

species Glycine max
transcript GLYMA11G15470.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G15470.3 (Glycine max), 5'ss of exon 8
lower sequence: AT3G46220.3 (Arabidopsis thaliana), 5'ss of exon 15
TGGGTTGCCTTTGAAAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAGgtatttatgtttacatttatgtaaaaacttactataatttactggaggcttgattctactgctcaattttcacacaagaatattctttgttaataatgaa
||||||    ||||| ||||||||||| ||||| ||||| |||||  ||||||||||||| ||||||| ||     |||   ||||      || ||||||  |  ||    ||     || ||  | |    |   |  |  || || | | |   |   |  
TGGGTTAGTCTTGAAGAAGCTTGACAAAAAACTGGAAAGGACACTCCTACATTCATATCGTAAGgtatgtac---cacacc-atgtcggtgttt-ctataacgttatgatctctcatcactgctttttatcccttcaatgatgatgttatctatgcttgcag--

upper sequence: GLYMA11G15470.3 (Glycine max), 5'ss of exon 8
lower sequence: Vv06s0004g03970.t01 (Vitis vinifera), 5'ss of exon 16
TGGGTTGCCTTTGAAAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAGgtatttatgtttacatttatgtaaaaacttactataatttactggaggcttgattctact--gctcaattttcacacaagaatattctttgttaataatgaa
|||||| |  |||||||||||||| |||||| | |||||||||||  | ||||||||||| ||||||    |  |  || | ||  || |   |   |   ||  ||  |    |   | | ||    | | | ||   |  |  ||  |  || ||| || | | 
TGGGTTACTCTTGAAAAAGCTTGATAAGAAATTGGAAAGAACACTCCTGCATTCATATCGTAAGgtacacctactgtcaataattcaagataattgaactgttctcttcacaaataggtttgctttatttattattattattattattattattatta-tattta-
















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|254348098|gb|GR851777.1|GR851777
EST:     AAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAG                         GAGTTGACATCTCAAGTTTCTGCTGAGACTGACCCTGTATCGCTTCTGCCA
genomic: AAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAGgtatttatgt ... tattaaacagGAGTTGACATCTCAAGTTTCTGCTGAGACTGACCCTGTATCGCTTCTGCCA
EST: gi|11687562|gb|BF595238.1|BF595238
EST:     AAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAG                         GAGTTGACATCTCAAGTTTCTGCTGAGACTGACCCTGTATCGCTTCTGCCA
genomic: AAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAGgtatttatgt ... tattaaacagGAGTTGACATCTCAAGTTTCTGCTGAGACTGACCCTGTATCGCTTCTGCCA
EST: gi|207688666|gb|GD673369.1|GD673369
EST:     AAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGTAAG                         GAGTTGACAGCTCAAGTTTCTGCTGAGACTGACCCTGTATCGCTTCTTCCA
genomic: AAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAGgtatttatgt ... tattaaacagGAGTTGACATCTCAAGTTTCTGCTGAGACTGACCCTGTATCGCTTCTGCCA
EST: gi|207843904|gb|GD816035.1|GD816035
EST:     AAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAG                         GAGTTGACATCTCAAGTTTCTG
genomic: AAA-GCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAGgtatttatgt ... tattaaacagGAGTTGACATCTCAAGTTTCTG
EST: gi|31474848|gb|CD416876.1|CD416876
EST:     AGAACACTTTTACATTCATATCGCAAG                         GAGTTGACATCTCAAGTTTCTGCTGAGACTGACCCTGTATCGCTTCTGCCC
genomic: AGAACACTTTTACATTCATATCGCAAGgtatttatgt ... tattaaacagGAGTTGACATCTCAAGTTTCTGCTGAGACTGACCCTGTATCGCTTCTGCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGTTGCCTTTGAAAAAGCTTGACAAGAAACTAGAAAGAACACTTTTACATTCATATCGCAAGgtatttatgtttacatttatgtaaaaacttactataatttactggaggcttgattctactgctcaattttcacacaagaatattctttgttaataatgaa

- - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - AAGAAC