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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgggaagtcctgttgtcaaacattgtcgttaattatgtttagttagatgttacaaatctgagaatcctctttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGGCTTG

Basic information

species Glycine max
transcript GLYMA08G11590.1
intron # 4
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|26058039|gb|CA800953.1|CA800953
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|193645405|gb|FK590821.1|FK590821
EST:     AGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: AGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|208209586|gb|GE001855.1|GE001855
EST:     AGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCATACTTGG
genomic: AGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|151401990|gb|EV271803.1|EV271803
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|207830973|gb|GD805031.1|GD805031
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|208089758|gb|GD889147.1|GD889147
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|193315804|gb|FK281856.1|FK281856
EST:     AGCTGATGATAACCCAG                         GATGGATATCAGTAGG-AAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTG
genomic: AGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGT-GGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTG
EST: gi|193402587|gb|FK368085.1|FK368085
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGG-AAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|193623696|gb|FK578210.1|FK578210
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|193358951|gb|FK325381.1|FK325381
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|193411960|gb|FK379949.1|FK379949
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCGGGAGCTGATGATAACCCAG                         GATGGATATCA
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCA
EST: gi|207729670|gb|GD707762.1|GD707762
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGG
EST: gi|193520532|gb|FK475107.1|FK475107
EST:     AGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGNGGAAAGTATTAAGCAAACTTGG
genomic: AGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|193670095|gb|FK608635.1|FK608635
EST:     AGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: AGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|193709028|gb|FK648598.1|FK648598
EST:     AGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: AGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|208173942|gb|GD966825.1|GD966825
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACTCAG                         GATGGATATCAGTAGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGT-GGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTG
EST: gi|208160228|gb|GD953484.1|GD953484
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|26057130|gb|CA800044.1|CA800044
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAA
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAA
EST: gi|208096729|gb|GD892926.1|GD892926
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATAGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|208330313|gb|GE132230.1|GE132230
EST:     AAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: AAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
EST: gi|193430744|gb|FK396434.1|FK396434
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCACGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCA-GTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTG
EST: gi|208045636|gb|GD838938.1|GD838938
EST:     CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAG                         GATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG
genomic: CTACAAGTCAGAAGAGTCAAGTGAAAATGCAGGAGCTGATGATAACCCAGgtatgggaag ... tttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcgttaattatgtttagttagatgttacaaatctgagaatcctctttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGGCTTG
  cgttaat  putative branch site (score: 4)
                                        tcctctttgct  putative PPT
     taattatgtttagtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgggaagtcctgttgtcaaacattgtcgttaattatgtttagttagatgttacaaatctgagaatcctctttgctgcagGATGGATATCAGTGGAAAAAGTGGGAAGTGGAAAGTATTAAGCAAACTTGGCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA