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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcttttgatgtgcacatgcgcgagagactacatgtccatttccttgtatcttggatttcaacttgtttatgtattactattactatatccaaaataaatgttatataaattaatgtttttctttatccttttctaaattttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAATTCTCAGTTAGAAGATGGCGATTGGCCCCAACAA

Basic information

species Glycine max
transcript GLYMA15G07110.1
intron # 15
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|10253081|gb|BE820847.1|BE820847
EST:     ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAG                         GCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
genomic: ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAGgtattctttt ... ttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
EST: gi|192296267|gb|FG989059.1|FG989059
EST:     ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAG                         GCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
genomic: ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAGgtattctttt ... ttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
EST: gi|192307614|gb|FG999653.1|FG999653
EST:     ATGTTGTACAAACATCATGGGCTCTAATGGCTTTAATTCATGCTGAGCAG                         GCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
genomic: ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAGgtattctttt ... ttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
EST: gi|7028515|gb|AW458298.1|AW458298
EST:     ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAG                         GCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
genomic: ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAGgtattctttt ... ttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
EST: gi|8402861|gb|BE058495.1|BE058495
EST:     ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAG                         GCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
genomic: ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAGgtattctttt ... ttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
EST: gi|192306250|gb|FG995072.1|FG995072
EST:     ATGTTGTACAAACATCATGGGCTCTAATGGCTTTAATTCATGCTGAGCAG                         GCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
genomic: ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAGgtattctttt ... ttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
EST: gi|192304631|gb|FG998717.1|FG998717
EST:     ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAG                         GCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT
genomic: ATGTTGTACAAACATCATGGGCTCTAATGGCTCTAATTCATGCTGAGCAGgtattctttt ... ttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaatgttatataaattaatgtttttctttatccttttctaaattttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAATTCTCAGTTAGAAGATGGCGATTGGCCCCAACAA
                                    ttctaaa  putative branch site (score: 2)
                                           ttttgctt  CT-rich tract
      ttatataaattaatgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattcttttgatgtgcacatgcgcgagagactacatgtccatttccttgtatcttggatttcaacttgtttatgtattactattactatatccaaaataaatgttatataaattaatgtttttctttatccttttctaaattttgcttatagGCTGAGAGAGATCCAACTCCCCTTCATCATGCAGCAAAGTTACTCATTAATTCTCAGTTAGAAGATGGCGATTGGCCCCAACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG