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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacccaacatttaattcgatcatgcagcgtcatatgcagacgtatttatatttgcatgcgtataaattgacagtaacatatagtatttgtacttttgcagTTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCAGGGACTATGCCAAATTCTAATCTGCGCAAGCAAATGACTTTATAATCCA

Basic information

species Glycine max
transcript GLYMA17G12250.1
intron # 13
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|17964227|gb|BM270965.1|BM270965
EST:     TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAG                         TTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
genomic: TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAGgttagcttca ... acttttgcagTTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
EST: gi|58019760|gb|CX706502.1|CX706502
EST:     TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAG                         TTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
genomic: TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAGgttagcttca ... acttttgcagTTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
EST: gi|57574558|gb|CX547533.1|CX547533
EST:     TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAG                         TTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
genomic: TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAGgttagcttca ... acttttgcagTTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
EST: gi|22522182|gb|BU080993.1|BU080993
EST:     GTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAG                         TTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
genomic: GTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAGgttagcttca ... acttttgcagTTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
EST: gi|7796569|gb|AW781966.1|AW781966
EST:     TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAG                         TTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
genomic: TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAGgttagcttca ... acttttgcagTTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
EST: gi|31458208|gb|CD400236.1|CD400236
EST:     TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAG                         TTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA
genomic: TCATGGTTGATGTTCGGAAGGCCACTGGGGATACTTTTGACTACCACAAGgttagcttca ... acttttgcagTTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatatttgcatgcgtataaattgacagtaacatatagtatttgtacttttgcagTTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCAGGGACTATGCCAAATTCTAATCTGCGCAAGCAAATGACTTTATAATCCA
                         cagtaac  putative branch site (score: 2)
                                            tactttt  putative PPT
                            taacatatagtattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacccaacatttaattcgatcatgcagcgtcatatgcagacgtatttatatttgcatgcgtataaattgacagtaacatatagtatttgtacttttgcagTTTTACAAGAATTTTTGTGGCAAACTAGGAAACATTATTTGGAGACCGGCAGGGACTATGCCAAATTCTAATCTGCGCAAGCAAATGACTTTATAATCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- cccaaca
- - - - - - - - - -tcatgca
- - - - - - - - - - - - - - - - - tgcagac
- - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgcg