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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttctgacagctaaaaaaagttgtttgaattttattttagttgatttatttatttatttatggtttaaatttttttttctaatccttttcttaaaagaatgctaaatatttttttggcggttattaccctagGTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCTGTTGTGGCCAAGCCCTCTGCCTATCTCAACAAGACTATTAAGCTGAAAA

Basic information

species Glycine max
transcript GLYMA12G28490.1
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|14125247|gb|BG789685.1|BG789685
EST:     TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAG                         GTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCT
genomic: TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAGgtaatttctg ... attaccctagGTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCT
EST: gi|9204213|gb|BE330437.1|BE330437
EST:     TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAG                         GTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCG
genomic: TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAGgtaatttctg ... attaccctagGTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCG
EST: gi|51344087|gb|CO984820.1|CO984820
EST:     TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAG                         GTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCT
genomic: TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAGgtaatttctg ... attaccctagGTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCT
EST: gi|9204219|gb|BE330443.1|BE330443
EST:     TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAG                         GTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCT
genomic: TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAGgtaatttctg ... attaccctagGTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCT
EST: gi|31459065|gb|CD401093.1|CD401093
EST:     TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAG                         GTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCT
genomic: TTGTTGAACAAACACAGATATTGAAAACTAGGTCCAGGTGCTTGAAAGAGgtaatttctg ... attaccctagGTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaatccttttcttaaaagaatgctaaatatttttttggcggttattaccctagGTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCTGTTGTGGCCAAGCCCTCTGCCTATCTCAACAAGACTATTAAGCTGAAAA
                      tgctaaa  putative branch site (score: 2)
                                              ttaccct  putative PPT
        ttttcttaaaagaatg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatttctgacagctaaaaaaagttgtttgaattttattttagttgatttatttatttatttatggtttaaatttttttttctaatccttttcttaaaagaatgctaaatatttttttggcggttattaccctagGTTCTTGAGAAAAGTGGGTGGGACGTGCTTGAATCGTGTGCGGGTGTGTCTGTTGTGGCCAAGCCCTCTGCCTATCTCAACAAGACTATTAAGCTGAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA