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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtttcattctacgtcagtttcttctgccttttgagagagtatagtattgtattgtatttatttacatgctgactttttcctccttttagTACGAGGATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCTTGTTTCTGCTGTCAGCTATGCTAGGTCTGCAGGAGTGAAG

Basic information

species Glycine max
transcript GLYMA08G00560.3
intron # 12
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|193429733|gb|FK395465.1|FK395465
EST:     CAATCATGCAGAGACTTGATGTTAATGATGGAGAACGCCCTATAATTTTG                         TACGAGGATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCTT
genomic: CAATCATGCAGAGACTTGATGTTAATGATGGAGAACGCCCTATAATTTTGgtgtgtttca ... ctccttttagTACGAGGATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCTT
EST: gi|31312544|gb|CD397747.1|CD397747
EST:     CAATCATGCAGAGACTTGATGTTAATGATGGAGAACGCCCTATAATTTTG                         TACGAGGATGATGAAGGTGACAAAATTGTTCTTGCAACCTATAGTGATCTT
genomic: CAATCATGCAGAGACTTGATGTTAATGATGGAGAACGCCCTATAATTTTGgtgtgtttca ... ctccttttagTACGAGGATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCTT
EST: gi|207733915|gb|GD710647.1|GD710647
EST:     AGAGACTTGATGTTAATGATGGAGAACGCCCTATAATTTTG                         TACGAGGAATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCT
genomic: AGAGACTTGATGTTAATGATGGAGAACGCCCTATAATTTTGgtgtgtttca ... ctccttttagTACGAGG-ATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCT
EST: gi|254333300|gb|GR850550.1|GR850550
EST:     CAATCATGCAGAGACTTGATGTTAATGATGGAGAACGCCCTATAATTTTG                         TACGAGGATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCTT
genomic: CAATCATGCAGAGACTTGATGTTAATGATGGAGAACGCCCTATAATTTTGgtgtgtttca ... ctccttttagTACGAGGATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagagtatagtattgtattgtatttatttacatgctgactttttcctccttttagTACGAGGATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCTTGTTTCTGCTGTCAGCTATGCTAGGTCTGCAGGAGTGAAG
                                tgctgac  putative branch site (score: 2)
                                tgctgactttttcctc  CT-rich tract
     tatagtattgtattgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgtttcattctacgtcagtttcttctgccttttgagagagtatagtattgtattgtatttatttacatgctgactttttcctccttttagTACGAGGATGATGAAGGTGACAAAATTGTTCTTGCAACCAATAGTGATCTTGTTTCTGCTGTCAGCTATGCTAGGTCTGCAGGAGTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG