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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCAATGGCATCTTCCTTAATTGAAATGGGTGCTACAAACCAGGATGTTGATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattgtaactcacaaatatgtcaatcatatgtgggacttcgtaggtgaatgcggatttactttgctaatttgaagagcacatttcagtttttact...

Basic information

species Glycine max
transcript GLYMA14G36520.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G36520.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv13s0067g03210.t01 (Vitis vinifera), 5'ss of exon 9
CTCAATGGCATCTTCCTTAATTGAAATGGGTGCTACAAACCAGGATGTTGATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattgtaactcacaaatatgtcaatcatatgtgggacttcgtaggtgaatgcggatttactttgctaatttgaagagcacatttcagtttttact-
 |||||||||||| | |||||||||||||||||||||||| |||| || |||   | |||||||||||| |||||||||||  |||||||||||||| |||||||   |   | |  ||  ||   |  |   ||||  |      |              ||  | | ||  ||         | | |     |||  | 
GTCAATGGCATCTGCTTTAATTGAAATGGGTGCTACAAACAAGGACGTGGATTTCAGGGCCTTTGCAAGGGATTTGGAAAAGATATTCTCATCAATTCAGgcaaggcctaggattttcag-tacagccctttgatgtctgttgggattttctttcttcttcttcttcttcttcttcttcttcttcttcttgtcctttgttt
















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|20813181|gb|BQ297659.1|BQ297659
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|15284846|gb|BI468737.1|BI468737
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|20812402|gb|BQ296880.1|BQ296880
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|11689259|gb|BF596935.1|BF596935
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|27426538|gb|CA938058.1|CA938058
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|120494194|gb|EH222361.1|EH222361
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|7693429|gb|AW761521.1|AW761521
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|27424131|gb|CA935651.1|CA935651
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|151394405|gb|EV264276.1|EV264276
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCCCAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|209714640|gb|BW671558.1|BW671558
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|15204835|gb|BI427603.1|BI427603
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|31310955|gb|CD396158.1|CD396158
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|120495353|gb|EH223520.1|EH223520
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|22524562|gb|BU083373.1|BU083373
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|16104932|gb|BI892672.1|BI892672
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|9900691|gb|BE609659.1|BE609659
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
EST: gi|22928845|gb|BU545984.1|BU545984
EST:     ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAG                         GAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT
genomic: ATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattg ... gcaactgcagGAATTGGACACTGAAATAGTTGTAGCAACTACAACTGGAACAGCCACAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCAATGGCATCTTCCTTAATTGAAATGGGTGCTACAAACCAGGATGTTGATGCTAAGGCCTTTGCAAGAGATTTGGAAAAAGTATTCTCATCAATTAAGgcaagtattgtaactcacaaatatgtcaatcatatgtgggacttcgtaggtgaatgcggatttactttgctaatttgaagagcacatttcagtttttact

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA