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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctttgcttctgtggtggcatcggttcaatgttccttgttgttttgatttattttcatctgtgaaggcctttgtcagactaattcaacatgtctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT

Basic information

species Glycine max
transcript GLYMA15G04300.1
intron # 2
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|208292044|gb|GE094244.1|GE094244
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|151394173|gb|EV264044.1|EV264044
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|192294632|gb|FG986481.1|FG986481
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCATGATTTCGAGAAAACG
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|209724919|gb|BW669608.1|BW669608
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|151401884|gb|EV271697.1|EV271697
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|208294795|gb|GE094768.1|GE094768
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTC
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTC
EST: gi|151402473|gb|EV272286.1|EV272286
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|209720222|gb|BW674562.1|BW674562
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|209720223|gb|BW674563.1|BW674563
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|31468370|gb|CD410398.1|CD410398
EST:     GAAGATACTTATCATATGATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: GAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|209697438|gb|BW675583.1|BW675583
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|31463245|gb|CD405273.1|CD405273
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGTAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|254344722|gb|GR851312.1|GR851312
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCATGATTTCGAGAAAACG
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|151397154|gb|EV267027.1|EV267027
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|192306327|gb|FG995107.1|FG995107
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|209697437|gb|BW675582.1|BW675582
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|207830761|gb|GD803699.1|GD803699
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|31474890|gb|CD416918.1|CD416918
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|192306328|gb|FG995108.1|FG995108
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|209724918|gb|BW669607.1|BW669607
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|31468248|gb|CD410276.1|CD410276
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCGTGATTTCGAGAAAACT
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
EST: gi|193397507|gb|FK361525.1|FK361525
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCATGATTTCGAGAAAACG
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaactaagc ... tctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttattttcatctgtgaaggcctttgtcagactaattcaacatgtctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT
                              gactaat  putative branch site (score: 2)
                                             tctgttcc  putative PPT
                                 taattcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctttgcttctgtggtggcatcggttcaatgttccttgttgttttgatttattttcatctgtgaaggcctttgtcagactaattcaacatgtctgttccagGGAATATCTCAAGTCGTGATTTCGAGAAAACT

- ttgcttc
- - - - -tgtggtg
- - - - - - - - - - - - -caatgtt
- - - - - - - - - - - - - - - - -cttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaggcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacatg