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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgtgaaagacatcatatatgaactttaatgcaatttaattgttcttattgttgcatttagaataatcaaatctttcatttggaaatttctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG

Basic information

species Glycine max
transcript GLYMA10G12560.1
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|213587066|gb|DB961761.1|DB961761
EST:     TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAG                         GTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
genomic: TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAGgtttaatttc ... ctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
EST: gi|27425321|gb|CA936841.1|CA936841
EST:     TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAG                         GTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
genomic: TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAGgtttaatttc ... ctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
EST: gi|209712321|gb|BW668509.1|BW668509
EST:     TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAG                         GTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
genomic: TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAGgtttaatttc ... ctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
EST: gi|298198460|gb|HO039999.1|HO039999
EST:     TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAG                         GTTCAAGTACTCACAGATCCTGAAACCTTTCGTTCAATGG
genomic: TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAGgtttaatttc ... ctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
EST: gi|15000726|gb|BI321540.1|BI321540
EST:     TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAG                         GTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
genomic: TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAGgtttaatttc ... ctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
EST: gi|33390579|gb|CA853774.1|CA853774
EST:     TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAG                         GTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
genomic: TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAGgtttaatttc ... ctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
EST: gi|254329771|gb|GR839324.1|GR839324
EST:     TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAG                         GTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
genomic: TGCTCTGGCTGGAGCTCGTGTGGATTATTGATTGGTGGGCCGGTGTTAAGgtttaatttc ... ctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttattgttgcatttagaataatcaaatctttcatttggaaatttctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG
                                          tttct  CT-rich tract
           atttagaataatcaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgtgaaagacatcatatatgaactttaatgcaatttaattgttcttattgttgcatttagaataatcaaatctttcatttggaaatttctggcttcagGTTCAAGTATTCACAGATCCTGAAACCTTTCGTTCAATGG

- - -gaaagac
- - - - - - - - - tatgaac
- - - - - - - - - - - - - - aatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgcattt