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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACGATTCCGCAGGCATCGCGATCGACGATTCCAATTTCTCTCCCCTTGTTTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagcaatacattcattcctctttatttgtttcttcgccattgctattgtatctgatttttatttttttatttttttttgtgtgcgtgtgttaatgaatgaacag

Basic information

species Glycine max
transcript GLYMA09G38460.1
intron # 1
splice site 5'
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|298174041|gb|HO017377.1|HO017377
EST:     TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAG                         AAGTGGGAGGAACTGAACTGAACTTGGGGGAATGCTCCGGCACTCACGCGG
genomic: TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagc ... gaatgaacagAAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGGCACTCACGCGG
EST: gi|193550075|gb|FK505558.1|FK505558
EST:     TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAG                         AAGTGGGAGAAACTGAACTGAACTTGGGGGGTAATTGCTTCGGCACTCACG
genomic: TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagc ... gaatgaacagAAGTGGGAGAAACTGAACTGAACTT-GGGGG-AA-TGCTTCGGCACTCACG
EST: gi|298173459|gb|HO016795.1|HO016795
EST:     TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAG                         AAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGGCACTCACGCGG
genomic: TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagc ... gaatgaacagAAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGGCACTCACGCGG
EST: gi|207769705|gb|GD741291.1|GD741291
EST:     TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAG                         AAGTGGGAGAAACTGAACTGAACTT
genomic: TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagc ... gaatgaacagAAGTGGGAGAAACTGAACTGAACTT
EST: gi|213620145|gb|DB965423.1|DB965423
EST:     TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAG                         AAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGGCACTCACGCGG
genomic: TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagc ... gaatgaacagAAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGGCACTCACGCGG
EST: gi|193701394|gb|FK638153.1|FK638153
EST:     TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAG                         AAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGG
genomic: TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagc ... gaatgaacagAAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGG
EST: gi|209696470|gb|BW664019.1|BW664019
EST:     TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAG                         AAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGGCACTCACGCGG
genomic: TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagc ... gaatgaacagAAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGGCACTCACGCGG
EST: gi|213618097|gb|DB965254.1|DB965254
EST:     TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAG                         AAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGGCACTCACGCGG
genomic: TTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagc ... gaatgaacagAAGTGGGAGAAACTGAACTGAACTTGGGGGAATGCTTCGGCACTCACGCGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACGATTCCGCAGGCATCGCGATCGACGATTCCAATTTCTCTCCCCTTGTTTTCCGTCAAGAAGGAAACATTGAATCGCTCGTCAAATCGGTTTATCAAGgtataacagcaatacattcattcctctttatttgtttcttcgccattgctattgtatctgatttttatttttttatttttttttgtgtgcgtgtgttaatgaatgaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA