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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattattgataaaacaagttagacttgcttatgtgattcttctctcctgatttttttttttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATAGACGTGAAGCGATTATATGATTCTGTAAATGTCATTCTCTCACTACAG

Basic information

species Glycine max
transcript GLYMA01G00430.2
intron # 11
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|12773845|gb|BG238772.1|BG238772
EST:     CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAA                         GCTGTTCTATTACTATCCAAAATTGCACCACAAATAGTTGGTGAGCC
genomic: CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAAgtaattattg ... tttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCC
EST: gi|18733901|gb|BM527876.1|BM527876
EST:     CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAA                         GCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
genomic: CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAAgtaattattg ... tttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
EST: gi|22524821|gb|BU083632.1|BU083632
EST:     CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAA                         GCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
genomic: CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAAgtaattattg ... tttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
EST: gi|18732433|gb|BM527041.1|BM527041
EST:     CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAA                         GCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
genomic: CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAAgtaattattg ... tttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
EST: gi|19269470|gb|BM885726.1|BM885726
EST:     CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAA                         GCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
genomic: CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAAgtaattattg ... tttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
EST: gi|213590932|gb|DB973729.1|DB973729
EST:     CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAA                         GCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
genomic: CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAAgtaattattg ... tttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
EST: gi|24136389|gb|BU926899.1|BU926899
EST:     CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAA                         GCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA
genomic: CTGGAGATCATGGATGGCCAATTTCTGACTGCACAGCTGAAGGACTGAAAgtaattattg ... tttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagttagacttgcttatgtgattcttctctcctgatttttttttttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATAGACGTGAAGCGATTATATGATTCTGTAAATGTCATTCTCTCACTACAG
                               tcctgat  putative branch site (score: 3)
                  tgtgattcttctctcc  CT-rich tract
                                  tgattttttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattattgataaaacaagttagacttgcttatgtgattcttctctcctgatttttttttttttctcagGCTGTTCTATTACTATCCAAAATTGCACCAGAAATAGTTGGTGAGCCAATAGACGTGAAGCGATTATATGATTCTGTAAATGTCATTCTCTCACTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC