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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgagttgttttacacttttacatgactggcagaaagcatcatttgctcattgatttggcttcatatttttatttgcttattctttctgtgttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG

Basic information

species Glycine max
transcript GLYMA20G31750.1
intron # 3
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|14991902|gb|BI317575.1|BI317575
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|4299521|gb|AI442916.1|AI442916
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGG-TAATGCTCCTGAAACATTTGACCATAG
EST: gi|208158506|gb|GD957419.1|GD957419
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|7326700|gb|AW620498.1|AW620498
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|21887069|gb|BQ740282.1|BQ740282
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|4306884|gb|AI443968.1|AI443968
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|27424733|gb|CA936253.1|CA936253
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|21600904|gb|BQ611235.1|BQ611235
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|298191719|gb|HO035801.1|HO035801
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCAATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|31561311|gb|CD487149.1|CD487149
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|192308363|gb|FK002791.1|FK002791
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|120532246|gb|EH260379.1|EH260379
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|6845801|gb|AW348091.1|AW348091
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
EST: gi|10235113|gb|BE804001.1|BE804001
EST:     ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG                         AGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
genomic: ACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAGgttctctatg ... ttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcattgatttggcttcatatttttatttgcttattctttctgtgttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG
  cattgat  putative branch site (score: 4)
                 atatttttatttgctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgagttgttttacacttttacatgactggcagaaagcatcatttgctcattgatttggcttcatatttttatttgcttattctttctgtgttatctgtagAGACTGAAAACAATTTGCGTGGTAATGCTCCTGAAACATTTGACCATAG

- - - - - - - - - -acatgac
- - - - - - - - - - - - - - - - - - - -catttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tggcttc