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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacttataacatcaactcaatgtcttatgaaaaaaaattgattttttactgtttttgatatttggattattgaatctgtatgtgggttttcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAAGCCAGGGGACACTTTTCCTAATGCTGCCAAGTGGTACGATGCTGTCTCT

Basic information

species Glycine max
transcript GLYMA02G44460.1
intron # 1
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|7925296|gb|AW831322.1|AW831322
EST:     GGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|192296967|gb|FG990283.1|FG990283
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|41145960|gb|CK606171.1|CK606171
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|38191164|gb|CF920370.1|CF920370
EST:     ATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: ATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|192299184|gb|FG990456.1|FG990456
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|298166777|gb|HO010216.1|HO010216
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|298190179|gb|HO032300.1|HO032300
EST:     GGCTTCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|193587552|gb|FK542587.1|FK542587
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|192314009|gb|FK010345.1|FK010345
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|192332130|gb|FK024590.1|FK024590
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|16519545|gb|BI347330.1|BI347330
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|17022325|gb|BM093359.1|BM093359
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|19052795|gb|BM731462.1|BM731462
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|4306961|gb|AI443979.1|AI443979
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|298169624|gb|HO020984.1|HO020984
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|298194998|gb|HO043526.1|HO043526
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|151409528|gb|EV279336.1|EV279336
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|17963362|gb|BM270112.1|BM270112
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|14259428|gb|BG882336.1|BG882336
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|298169772|gb|HO021132.1|HO021132
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|18040489|gb|BM308783.1|BM308783
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|12689248|gb|BG155584.1|BG155584
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|298190147|gb|HO032268.1|HO032268
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|254342849|gb|GR859011.1|GR859011
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|298198832|gb|HO042195.1|HO042195
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|26048859|gb|CA785312.1|CA785312
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|9565730|gb|BE475239.1|BE475239
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|21889907|gb|BQ743120.1|BQ743120
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
EST: gi|33388439|gb|CA851646.1|CA851646
EST:     GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGG                         GGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA
genomic: GGCATCAAATCCCTCGATCAATTCCTTTCTGGGAAAACCTATATTTCTGGgtaacactta ... tcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttactgtttttgatatttggattattgaatctgtatgtgggttttcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAAGCCAGGGGACACTTTTCCTAATGCTGCCAAGTGGTACGATGCTGTCTCT
        ttttgat  putative branch site (score: 4)
                                          ttttc  putative PPT
     tgtttttgatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacacttataacatcaactcaatgtcttatgaaaaaaaattgattttttactgtttttgatatttggattattgaatctgtatgtgggttttcgagttcagGGATCAGTTGACAAAGGATGATATTAAAGTGTATGCAGCTGTTGTTGAAAAGCCAGGGGACACTTTTCCTAATGCTGCCAAGTGGTACGATGCTGTCTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG