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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatactttttaccctatgtacttttttacttcttactcatattgtatataattgtttataatttattgaacttgttattttgatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTCAATGATGACGAGGAAGATGAGGTAGATTGATCTAATTGGTTATTTTGAT

Basic information

species Glycine max
transcript GLYMA16G22060.4
intron # 5
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|193615859|gb|FK567365.1|FK567365
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|208088787|gb|GD891201.1|GD891201
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|192297534|gb|FG989540.1|FG989540
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGA
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGA
EST: gi|193494636|gb|FK458886.1|FK458886
EST:     GAAGAAACAGGAGTATGAAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GGAGGGAAAGAATTCAGAGGAAGACGAGTCTGGCAAGTCAAAGTCTGAAGT
genomic: GAAGAAACAGGAGTATGA-GAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagG-AGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGT
EST: gi|15814123|gb|BI786398.1|BI786398
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|208080846|gb|GD876656.1|GD876656
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|5058411|gb|AI736943.1|AI736943
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCANAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|193585396|gb|FK539075.1|FK539075
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|10843286|gb|BF066593.1|BF066593
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|208079717|gb|GD875401.1|GD875401
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|208284395|gb|GE086371.1|GE086371
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|193456025|gb|FK417073.1|FK417073
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|193412782|gb|FK378671.1|FK378671
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
EST: gi|17401598|gb|BM178380.1|BM178380
EST:     AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG                         GAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC
genomic: AGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTGgtgaatactt ... gatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatattgtatataattgtttataatttattgaacttgttattttgatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTCAATGATGACGAGGAAGATGAGGTAGATTGATCTAATTGGTTATTTTGAT
                                         ttttgat  putative branch site (score: 4)
     ttgtatataattgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaatactttttaccctatgtacttttttacttcttactcatattgtatataattgtttataatttattgaacttgttattttgatgtgttagGAGGGAAAGAATTCAGAGGAAGACGAGTCTGACAAGTCAAAGTCTGAAGTCAATGATGACGAGGAAGATGAGGTAGATTGATCTAATTGGTTATTTTGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG