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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgccagttttgcattaaaaagcaaaactgaccagtgttcgcacaaaattgtttgtgcttgcgtctgatcatattataagttttaagttcttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAACAGAGGAACTTCCCCCTGAGACCGGTAGCAATGGGGATTTGGAACTAAA

Basic information

species Glycine max
transcript GLYMA10G21350.1
intron # 21
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|24206274|gb|BU965527.1|BU965527
EST:     TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTG                         AAACTAAAAGTGACTCCTCTGAAGTT
genomic: TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTGgtaagcaaaa ... cttggtgcagAAACTAAAAGTGACTCCTCTGAAGTT
EST: gi|208167807|gb|GD959971.1|GD959971
EST:     TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTG                         AAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
genomic: TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTGgtaagcaaaa ... cttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
EST: gi|9903126|gb|BE612094.1|BE612094
EST:     TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTG                         AAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
genomic: TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTGgtaagcaaaa ... cttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
EST: gi|16348583|gb|BI974178.1|BI974178
EST:     TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTG                         AAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
genomic: TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTGgtaagcaaaa ... cttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
EST: gi|9565885|gb|BE475394.1|BE475394
EST:     TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTG                         AAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
genomic: TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTGgtaagcaaaa ... cttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
EST: gi|151406200|gb|EV276015.1|EV276015
EST:     TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACCG                         AAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
genomic: TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTGgtaagcaaaa ... cttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
EST: gi|208215023|gb|GE010652.1|GE010652
EST:     TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTG                         AAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
genomic: TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTGgtaagcaaaa ... cttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
EST: gi|5760830|gb|AI966193.1|AI966193
EST:     TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTG                         AAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
genomic: TGGTTCTCCTGTTGCTAGCAGGAGTCCTATCACTGAAGGTAGTGCTACTGgtaagcaaaa ... cttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
EST: gi|192326285|gb|FK017632.1|FK017632
EST:     TATCACTGAAGGTAGTGCTACTG                         AAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA
genomic: TATCACTGAAGGTAGTGCTACTGgtaagcaaaa ... cttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaattgtttgtgcttgcgtctgatcatattataagttttaagttcttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAACAGAGGAACTTCCCCCTGAGACCGGTAGCAATGGGGATTTGGAACTAAA
                  gtctgat  putative branch site (score: 4)
                                           ttctt  putative PPT
                       atcatattataagttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgccagttttgcattaaaaagcaaaactgaccagtgttcgcacaaaattgtttgtgcttgcgtctgatcatattataagttttaagttcttggtgcagAAACTAAAAGTGACTCCTCTGAAGTTGAAGAAGTTGCAGAAGCCAAGGAAACAGAGGAACTTCCCCCTGAGACCGGTAGCAATGGGGATTTGGAACTAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
aatgcca
- - - - - -tgcatta
- - - - - - - - - - aagcaaaa
- - - - - - - - - - - - - - ctgacca
- - - - - - - - - - - - - - - - - - - - -gcacaaa
- - - - - - - - - - - - - - - - - - - - - - - - -ttgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttgc