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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaatgtctattcaaagatgaatttcgcagacaagcctgctaaccttttctgtggtagtgagtcatacgcatttgactaatgcaatttcactttttgcagAGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACGATTCTGAAAAGCCAAGTGGATCAAATCTTCAGCAGAGTCCTCCAGGTTCTGATGAG

Basic information

species Glycine max
transcript GLYMA05G33980.1
intron # 9
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|14991490|gb|BI317163.1|BI317163
EST:     AGCATGCCTCCTTACCTAG                         AGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACGATTCTGA
genomic: AGCATGCCTCCTTACCTAGgcaagtgttg ... ctttttgcagAGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACGATTCTGA
EST: gi|213603096|gb|DB980992.1|DB980992
EST:     ATTGCAGAGACAGCATGCCTCCTTACCTAG                         AGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACCTA-GCTG
genomic: ATTGCAGAGACAGCATGCCTCCTTACCTAGgcaagtgttg ... ctttttgcagAGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAA-CGATTCTG
EST: gi|192306379|gb|FG996139.1|FG996139
EST:     GGTGAACGAAGCACTCCACCATTGCAGAGACAGCATGCCTCCTTACTTAG                         AGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACGATTCTGA
genomic: GGTGAACGAAGCACTCCACCATTGCAGAGACAGCATGCCTCCTTACCTAGgcaagtgttg ... ctttttgcagAGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACGATTCTGA
EST: gi|209712400|gb|BW671252.1|BW671252
EST:     GGTGAACGAAGCACTCCACCATTGCAGAGACAGCATGCCTCCTTACCTAG                         AGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACGATTCTGA
genomic: GGTGAACGAAGCACTCCACCATTGCAGAGACAGCATGCCTCCTTACCTAGgcaagtgttg ... ctttttgcagAGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACGATTCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctgtggtagtgagtcatacgcatttgactaatgcaatttcactttttgcagAGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACGATTCTGAAAAGCCAAGTGGATCAAATCTTCAGCAGAGTCCTCCAGGTTCTGATGAG
                             gactaat  putative branch site (score: 2)
                                        tttcacttttt  putative PPT
                                      aatttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaatgtctattcaaagatgaatttcgcagacaagcctgctaaccttttctgtggtagtgagtcatacgcatttgactaatgcaatttcactttttgcagAGAGCGAGTTTGTGCTCCCAAGGATGAAAGTAAACAAAACAACGATTCTGAAAAGCCAAGTGGATCAAATCTTCAGCAGAGTCCTCCAGGTTCTGATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - -ctattca
- - - - - - - - - - - - - gcagaca
- - - - - - - - - - - - - - - - -agcctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - -ggtagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catacgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgcaa