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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataatttccccttttttattaattttattttagtggttgagtcacaagattcttctaatgttaagttgttagattcaaaatagccaaataggaagtaaattaggtaactgatgaaattcccaatatagGTACTTGCATATACAGGAAACGATGATGGAAGAAAATTTTTGCTTGATGAGGAGCTGACTGTTGACACAATTACG

Basic information

species Glycine max
transcript GLYMA12G07260.1
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|5057635|gb|AI736111.1|AI736111
EST:     TAGGAAAGCCTGTTGCAGATTATTTTGGTATCACTGNGAATGGTCCCAAA                         GTACTTGCATATACAGGAAACGATGATGGAA
genomic: TAGGAAAGCCTGTTGCAGATTATTTTGGTATCACTGGGAATGGTCCCAAAgtaataattt ... cccaatatagGTACTTGCATATACAGGAAACGATGATGGAA
EST: gi|27423459|gb|CA934979.1|CA934979
EST:     TAGGAAAGCCTGTTGCAGATTATTTTGGTATCACTGGGAATGGTCCCAAA                         GTACTTGCATATACAGGAAACGATGATGGAAGAAAATTTTTGCTTGATGAG
genomic: TAGGAAAGCCTGTTGCAGATTATTTTGGTATCACTGGGAATGGTCCCAAAgtaataattt ... cccaatatagGTACTTGCATATACAGGAAACGATGATGGAAGAAAATTTTTGCTTGATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaaaatagccaaataggaagtaaattaggtaactgatgaaattcccaatatagGTACTTGCATATACAGGAAACGATGATGGAAGAAAATTTTTGCTTGATGAGGAGCTGACTGTTGACACAATTACG
                                aactgat  putative branch site (score: 3)
                                           ttccc  putative PPT
                   aagtaaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataatttccccttttttattaattttattttagtggttgagtcacaagattcttctaatgttaagttgttagattcaaaatagccaaataggaagtaaattaggtaactgatgaaattcccaatatagGTACTTGCATATACAGGAAACGATGATGGAAGAAAATTTTTGCTTGATGAGGAGCTGACTGTTGACACAATTACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA