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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatcctttctcgatcaacttgattttcgattctatttttgtccaaattgttgagaattttccgaaaattcgattaatgttcttccctcgattgattccggattacgtgtttgcgttcaattacttgacgttacttgcatttgcaacatttctgttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCGGGGGGATCTCTGCGCTGCTGAAGCTTGGGATTGTTGGTGGAATTGGTTT

Basic information

species Glycine max
transcript GLYMA09G30410.1
intron # 2
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|26059988|gb|CA802902.1|CA802902
EST:     TAAACCCCACAACAACCTTAAACCCTTCACTCTTTCGATTTTCGAAG                         GTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
genomic: TAAACCCCACAACAACCCCAAACCCTTCACTCTTTCGATTTTCGAAGgtatatcctt ... gttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
EST: gi|33388681|gb|CA851888.1|CA851888
EST:     CACTCTTTCGATTTTCGAAG                         GTAAAAAGATGAATCTGAAGAACATGAAGGNTCCGAACGTTCCAGGTGGCG
genomic: CACTCTTTCGATTTTCGAAGgtatatcctt ... gttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
EST: gi|151410209|gb|EV280024.1|EV280024
EST:     ACAACAACCCCAAACCCTTCACTCTTTCGATTTTCGAAG                         GTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
genomic: ACAACAACCCCAAACCCTTCACTCTTTCGATTTTCGAAGgtatatcctt ... gttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
EST: gi|151411498|gb|EV281309.1|EV281309
EST:     ACTCTTTCGATTTTCGAAG                         GTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
genomic: ACTCTTTCGATTTTCGAAGgtatatcctt ... gttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
EST: gi|254318421|gb|GR832589.1|GR832589
EST:     AAACCCCACAACAACCCCAAACCCTTCACTCTTTCGATTTTCGAAG                         GTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
genomic: AAACCCCACAACAACCCCAAACCCTTCACTCTTTCGATTTTCGAAGgtatatcctt ... gttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
EST: gi|192332492|gb|FK024253.1|FK024253
EST:     ACAACAACCCCAAACCCTTCACTCTTTCGATTTTCGAAG                         GTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
genomic: ACAACAACCCCAAACCCTTCACTCTTTCGATTTTCGAAGgtatatcctt ... gttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
EST: gi|208214207|gb|GE015478.1|GE015478
EST:     GCATAAACCCCACAACAACCCCAAACCCTTCACTCTTTCGATTTTCGAAG                         GTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG
genomic: GCATAAACCCCACAACAACCCCAAACCCTTCACTCTTTCGATTTTCGAAGgtatatcctt ... gttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgcgttcaattacttgacgttacttgcatttgcaacatttctgttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCGGGGGGATCTCTGCGCTGCTGAAGCTTGGGATTGTTGGTGGAATTGGTTT
              acttgac  putative branch site (score: 4)
                                        tttctgttc  putative PPT
       ttcaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatatcctttctcgatcaacttgattttcgattctatttttgtccaaattgttgagaattttccgaaaattcgattaatgttcttccctcgattgattccggattacgtgtttgcgttcaattacttgacgttacttgcatttgcaacatttctgttcaattagGTAAAAAGATGAATCTGAAGAACATGAAGGTTCCGAACGTTCCAGGTGGCGGGGGGATCTCTGCGCTGCTGAAGCTTGGGATTGTTGGTGGAATTGGTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA