Skip to another splice site:
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 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcattttttccctctctctttcttttgcctgaaaaaaattgtggaaaatcaaatcaaatctcttgttttgatgcaaagtttgcctcttttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGCCGGCGGCGATGGATACACACGCGGCTGCTCCGCCACCGCCGCCAAAGGA

Basic information

species Glycine max
transcript GLYMA08G20680.1
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|298175259|gb|HO018140.1|HO018140
EST:     AATGAGTGAAAAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|298168987|gb|HO020291.1|HO020291
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|26059061|gb|CA801975.1|CA801975
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|298192404|gb|HO036486.1|HO036486
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|298193055|gb|HO033489.1|HO033489
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|298190737|gb|HO032858.1|HO032858
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|208075848|gb|GD878571.1|GD878571
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|298187846|gb|HO031803.1|HO031803
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|193608301|gb|FK555282.1|FK555282
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|37995721|gb|CF807310.1|CF807310
EST:     GAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: GAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|208295444|gb|GE092659.1|GE092659
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|298192712|gb|HO033146.1|HO033146
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|298173550|gb|HO016886.1|HO016886
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|192327068|gb|FK019285.1|FK019285
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|254340064|gb|GR858189.1|GR858189
EST:     GAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: GAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|11412462|gb|BF424473.1|BF424473
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|298194283|gb|HO040931.1|HO040931
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGG
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGG
EST: gi|298176001|gb|HO015406.1|HO015406
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|298198098|gb|HO039637.1|HO039637
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC
EST: gi|192297351|gb|FG990657.1|FG990657
EST:     AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAG                         CGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGGACGGGTTCTCCTCGC
genomic: AATGAGTGAAGAAGGTCCTCCAAAGCTATATACCAACAAGCCCGGAAAAGgttcattttt ... tttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaaaatcaaatcaaatctcttgttttgatgcaaagtttgcctcttttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGCCGGCGGCGATGGATACACACGCGGCTGCTCCGCCACCGCCGCCAAAGGA
                       ttttgat  putative branch site (score: 4)
                                    tttgcctcttttgt  putative PPT
        aaatcaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcattttttccctctctctttcttttgcctgaaaaaaattgtggaaaatcaaatcaaatctcttgttttgatgcaaagtttgcctcttttgtaacagCGCAACTGAAGCAGTTTCGGGGGCAACAGAAATCGAACGGGTTCTCCTCGCCGGCGGCGATGGATACACACGCGGCTGCTCCGCCACCGCCGCCAAAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT