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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aactatttatttttttattgcttttgaaaaaaataatcaattttacggctatacaaattgaataaagatattaattttttcgaaaatatattttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTACTCAGAGAGACCACGGTACAGAAGTGCCAGGAAAATTC

Basic information

species Glycine max
transcript GLYMA05G27960.2
intron # 1
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|120494335|gb|EH222502.1|EH222502
EST:     CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAG                         TACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
genomic: CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAGgtaattaaat ... ttttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
EST: gi|23057239|gb|BU577914.1|BU577914
EST:     TAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAG                         TACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
genomic: TAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAGgtaattaaat ... ttttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
EST: gi|120496499|gb|EH224666.1|EH224666
EST:     GAGCATTCTCCAGAGTTCAGCACTTATGAAG                         TACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
genomic: GAGCATTCTCCAGAGTTCAGCACTTATGAAGgtaattaaat ... ttttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
EST: gi|151403065|gb|EV272875.1|EV272875
EST:     CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAG                         TACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
genomic: CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAGgtaattaaat ... ttttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
EST: gi|15000285|gb|BI321099.1|BI321099
EST:     CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAG                         TACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
genomic: CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAGgtaattaaat ... ttttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
EST: gi|23064557|gb|BU579330.1|BU579330
EST:     CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAG                         TACATCTTTGAAACGAGTGCCTATCTAAAAGAGCATGAACAATTAAAGCTA
genomic: CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAGgtaattaaat ... ttttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
EST: gi|120529047|gb|EH257181.1|EH257181
EST:     CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAG                         TACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
genomic: CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAGgtaattaaat ... ttttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
EST: gi|120496135|gb|EH224302.1|EH224302
EST:     CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAG                         TACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA
genomic: CGGGTGATTTAGCATACAAGAGCATTCTCCAGAGTTCAGCACTTATGAAGgtaattaaat ... ttttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggctatacaaattgaataaagatattaattttttcgaaaatatattttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTACTCAGAGAGACCACGGTACAGAAGTGCCAGGAAAATTC
                       tattaat  putative branch site (score: 2)
         aaattgaataaagata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aactatttatttttttattgcttttgaaaaaaataatcaattttacggctatacaaattgaataaagatattaattttttcgaaaatatattttgtacagTACATCTTTGAAACGAGTGCCTATCCAAAAGAGCATGAACAATTAAAGCTACTCAGAGAGACCACGGTACAGAAGTGCCAGGAAAATTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - -gcttttg
- - - - - - - - - - - - - aaaaaaa