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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttcacttgtcttcattttatctttgttctgtacttctagtattttgctatgtctagtcggtttaaacattgggtcatcgatttttgtgatgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG

Basic information

species Glycine max
transcript GLYMA13G23700.1
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|192324138|gb|FK017869.1|FK017869
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
EST: gi|192326112|gb|FK016249.1|FK016249
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCCTCCTACTAAATGGGAAGCTTTT
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCC-TCCTACTAAATGGGAAGCTTTT
EST: gi|58017104|gb|CX703846.1|CX703846
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
EST: gi|23064026|gb|BU578799.1|BU578799
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
EST: gi|298178236|gb|HO023971.1|HO023971
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
EST: gi|254317804|gb|GR826788.1|GR826788
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
EST: gi|6747619|gb|AW318132.1|AW318132
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
EST: gi|8827706|gb|BE211445.1|BE211445
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
EST: gi|192324119|gb|FK017850.1|FK017850
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
EST: gi|18848603|gb|BM567757.1|BM567757
EST:     CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACAT                         CTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA
genomic: CCCTTGTCACCTTGCCTCCCCCACTCACTAAATTGCCTAGAGAAAAACATgtaacccctc ... atgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctatgtctagtcggtttaaacattgggtcatcgatttttgtgatgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG
                                              tgctttc  CT-rich tract
                 tttaaacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttcacttgtcttcattttatctttgttctgtacttctagtattttgctatgtctagtcggtttaaacattgggtcatcgatttttgtgatgctttcagCTGCCAAAACCAAAGCCTCCTACTAAATGGGAAGCTTTTGCCAAAAAGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - cacttgt
- - - - - -cttcatt
- - - - - - - - - - - - - - tctgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgtg