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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tataagtatttattgaaaagttaatttaaacaaaaccttaaggtgattcttgtttgtttcactttgataggcttaatcgtgtctttttctctcttttcagGGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTGACAAATTATTTCAAGTGAAACTTTGAAAGCTAGCTATATTTTCTGACAG

Basic information

species Glycine max
transcript GLYMA16G26380.1
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|33387500|gb|CA850707.1|CA850707
EST:     AGCAGGAATTGGTGCAACCCTTATTCGTCCATCGCTCGGCCAGTGGGTTG                         GGTGTGCTCTTGGTGATTTGGGCGGTCCCATCATTGTAGCATTTTGTGCTG
genomic: AGCAGGAATTGGTGCAACCCTTATTCGTCCATCGCTCGGCCAGTGGGTTGgtaagattgt ... ctcttttcagGGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG
EST: gi|58015676|gb|CX702418.1|CX702418
EST:     AGCAGGAATTGGTGCAACCCTTATTCGTCCATCGCTCGGCCAGTGGGTTG                         GGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG
genomic: AGCAGGAATTGGTGCAACCCTTATTCGTCCATCGCTCGGCCAGTGGGTTGgtaagattgt ... ctcttttcagGGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG
EST: gi|193471328|gb|FK438445.1|FK438445
EST:     CGGCCAGTGGGTTG                         GGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG
genomic: CGGCCAGTGGGTTGgtaagattgt ... ctcttttcagGGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG
EST: gi|33388517|gb|CA851724.1|CA851724
EST:     AGCAGGAATTGGTGCAACCCTTATTCGTCCATCGCTCGGCCAGTGGGTTG                         GGTGTGCTCTTGGTGATTTGGGCGGTCCCATCATTGTAGCATTTTGTGCTG
genomic: AGCAGGAATTGGTGCAACCCTTATTCGTCCATCGCTCGGCCAGTGGGTTGgtaagattgt ... ctcttttcagGGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG
EST: gi|58015425|gb|CX702167.1|CX702167
EST:     AGCAGGAATTGGTGCAACCCTTATTCGTCCATCGCTCGGCCAGTGGGTTG                         GGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG
genomic: AGCAGGAATTGGTGCAACCCTTATTCGTCCATCGCTCGGCCAGTGGGTTGgtaagattgt ... ctcttttcagGGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG
EST: gi|208045158|gb|GD843248.1|GD843248
EST:     TCGGCCAGTGGGTTG                         GGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG
genomic: TCGGCCAGTGGGTTGgtaagattgt ... ctcttttcagGGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcttgtttgtttcactttgataggcttaatcgtgtctttttctctcttttcagGGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTGACAAATTATTTCAAGTGAAACTTTGAAAGCTAGCTATATTTTCTGACAG
                         gcttaat  putative branch site (score: 4)
                          cttaatcgtgtctttt  CT-rich tract
       tttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tataagtatttattgaaaagttaatttaaacaaaaccttaaggtgattcttgtttgtttcactttgataggcttaatcgtgtctttttctctcttttcagGGTGTGCTCTTGGTGATTTGGGTGGTCCCATCATTGTAGCATTTTGTGCTGACAAATTATTTCAAGTGAAACTTTGAAAGCTAGCTATATTTTCTGACAG

- - - - - - - - - - - - - - - caaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtctt