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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacaacttagaagcaaaagctcccttgtccaacatataattaattataagttcataacttatcaaattgatccatttgcaatcttattcgttccattcatttgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA

Basic information

species Glycine max
transcript GLYMA08G21300.1
intron # 8
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|192304442|gb|FG997856.1|FG997856
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|14989999|gb|BI315672.1|BI315672
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|17022499|gb|BM093533.1|BM093533
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|58015895|gb|CX702637.1|CX702637
EST:     TACACTGCCCTTTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|15287557|gb|BI471448.1|BI471448
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|14991768|gb|BI317441.1|BI317441
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|14991788|gb|BI317461.1|BI317461
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|17023853|gb|BM094887.1|BM094887
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|163921518|gb|EH039303.1|EH039303
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAG
EST: gi|58016178|gb|CX702920.1|CX702920
EST:     TACACTGCCCTTTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|254329843|gb|GR839396.1|GR839396
EST:     TAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|10709600|gb|BF009324.1|BF009324
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
EST: gi|163926148|gb|EH038402.1|EH038402
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaagtacaa ... tgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttatcaaattgatccatttgcaatcttattcgttccattcatttgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA
                                           tttgtttt  CT-rich tract
                       aatcttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtacaacttagaagcaaaagctcccttgtccaacatataattaattataagttcataacttatcaaattgatccatttgcaatcttattcgttccattcatttgttttgcagCATTACATAAGGAAGGAGCCTATAAGCACTTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT