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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagcattttgtttctgacttaagattttgtttttttggtgaagattgtttttgcagtgagccaaacttttgaatttggattgaactgtcttgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG

Basic information

species Glycine max
transcript GLYMA20G31750.1
intron # 2
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|193348171|gb|FK309883.1|FK309883
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|14991902|gb|BI317575.1|BI317575
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|4299521|gb|AI442916.1|AI442916
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|208101027|gb|GD898148.1|GD898148
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTG
EST: gi|208158506|gb|GD957419.1|GD957419
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|7326700|gb|AW620498.1|AW620498
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|21887069|gb|BQ740282.1|BQ740282
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|4306884|gb|AI443968.1|AI443968
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|27424733|gb|CA936253.1|CA936253
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|208050888|gb|GD848953.1|GD848953
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTG
EST: gi|21600904|gb|BQ611235.1|BQ611235
EST:     GTTGTAGAAATTGCTCCCAAAATTTAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|298191719|gb|HO035801.1|HO035801
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCAATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|31561311|gb|CD487149.1|CD487149
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|192308363|gb|FK002791.1|FK002791
EST:     GTTGAAGAAATTGCTCCCAAGATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|120532246|gb|EH260379.1|EH260379
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|6845801|gb|AW348091.1|AW348091
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
EST: gi|10235113|gb|BE804001.1|BE804001
EST:     GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATG                         GTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG
genomic: GTTGAAGAAATTGCTCCCAAAATTCAACAAGTTATAGAATGgtaagtcaaa ... tgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttgcagtgagccaaacttttgaatttggattgaactgtcttgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG
                                       ctgtctt  CT-rich tract
                 aaacttttgaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagcattttgtttctgacttaagattttgtttttttggtgaagattgtttttgcagtgagccaaacttttgaatttggattgaactgtcttgtgtggcagGTTTGGACAGCTGCAGGGTATTGATCTTGAAAGTGTTGAACCCTCGATCAGAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - -ttctgac
- - - - - - - - - - - - - - - - -tttggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaaact