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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cattgtaaaccattcaagatgatgtataaaatgatctagttccattgcattgtgcttattttgtttgttgtttcccctttgccactctttcttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAAGGCATGTTTGAGAGCTGGATATTTTTTACGGTGATCTTCTCCACAGTGG

Basic information

species Glycine max
transcript GLYMA02G32780.1
intron # 6
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|151405499|gb|EV275313.1|EV275313
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
EST: gi|4294140|gb|AI442148.1|AI442148
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
EST: gi|193338468|gb|FK304697.1|FK304697
EST:     CGACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
EST: gi|120533070|gb|EH261203.1|EH261203
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
EST: gi|208118799|gb|GD918720.1|GD918720
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAG
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAG
EST: gi|254325639|gb|GR838520.1|GR838520
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
EST: gi|151398084|gb|EV267962.1|EV267962
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
EST: gi|254325640|gb|GR838521.1|GR838521
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
EST: gi|193346236|gb|FK309728.1|FK309728
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACAATATTCAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACA-TATTCAA
EST: gi|58024411|gb|CX711152.1|CX711152
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
EST: gi|120533849|gb|EH261982.1|EH261982
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
EST: gi|193706386|gb|FK646668.1|FK646668
EST:     CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAG                         GTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA
genomic: CAACTATAGTGCTCAACACTTTGATATTCAACTCCTTTGTATTTTGCCAGgtaaagtatc ... cttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcattgtgcttattttgtttgttgtttcccctttgccactctttcttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAAGGCATGTTTGAGAGCTGGATATTTTTTACGGTGATCTTCTCCACAGTGG
             ttttgtttgttgtttc  CT-rich tract
          ttattttgtttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cattgtaaaccattcaagatgatgtataaaatgatctagttccattgcattgtgcttattttgtttgttgtttcccctttgccactctttcttttgctagGTTTTCAATGAGATAAACAGCCGAGAAATCGAAAAGATAAACATATTCAAAGGCATGTTTGAGAGCTGGATATTTTTTACGGTGATCTTCTCCACAGTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - -ccattca
- - - - - - - - -gatgatg
- - - - - - - - - - - - - - - - - - - - -ccattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - tgcttat