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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggatctgataatgcaaaatattatggatgatccaatttcagattgacattattgttttcatggtttattacttaatggtattctttttactcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGGCACCTGAGCTAGATCTCATATTAACAGAAGTGGAGCTACCAGCAATATC

Basic information

species Glycine max
transcript GLYMA07G05530.1
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|193401013|gb|FK365406.1|FK365406
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTAGAAGAAGAAG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTT-GAAGAAGAAG
EST: gi|18041234|gb|BM309528.1|BM309528
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|207729542|gb|GD707326.1|GD707326
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|208274437|gb|GE072815.1|GE072815
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|208308153|gb|GE105941.1|GE105941
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|193609035|gb|FK561619.1|FK561619
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|193365729|gb|FK330654.1|FK330654
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|208213787|gb|GE010998.1|GE010998
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|207696858|gb|GD680353.1|GD680353
EST:     TCCACGCGCCAAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAG
genomic: TCCACGCGCCAAA-TCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAG
EST: gi|213595702|gb|DB962474.1|DB962474
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|208133348|gb|GD926605.1|GD926605
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|209726010|gb|BW654795.1|BW654795
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|207813911|gb|GD785146.1|GD785146
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|193679476|gb|FK621058.1|FK621058
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|208308899|gb|GE101627.1|GE101627
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCAGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|208113608|gb|GD911625.1|GD911625
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|208029283|gb|GD830135.1|GD830135
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCGTGGGAAACGTTGAAGAAGAAGG
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGG
EST: gi|208251158|gb|GE045969.1|GE045969
EST:     TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAG                         TTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGA
genomic: TTCCACGCGCCAAATCATCGCCGCGCTTCTTCGCAAATGCAGTTACACAGgtttttcttc ... ctcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacattattgttttcatggtttattacttaatggtattctttttactcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGGCACCTGAGCTAGATCTCATATTAACAGAAGTGGAGCTACCAGCAATATC
                                  tattctttttactc  CT-rich tract
                   tttattacttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggatctgataatgcaaaatattatggatgatccaatttcagattgacattattgttttcatggtttattacttaatggtattctttttactcgatgtagTTATTGCGGTTCCGGATGGATTAAAGGCATGGGAAACGTTGAAGAAGAAGGCACCTGAGCTAGATCTCATATTAACAGAAGTGGAGCTACCAGCAATATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT