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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataagaaaacccttcctcccctctctactttttttttttctttcaattaatcaattttttaattgctgattttttcgatgtttgttggtgcactgcgttttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCGTTTACGCGAATCCAGAAAAGGGTTCGGAGAAAGTGCTTGTCAAGTGCCT

Basic information

species Glycine max
transcript GLYMA15G17840.1
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|18040483|gb|BM308777.1|BM308777
EST:     TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATG                         ACGAGGTGTCCGTTGATCTCTGGAACGAGCTGAACGACGAGTACGCGTTCG
genomic: TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATGgtaataagaa ... ttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
EST: gi|7693170|gb|AW761267.1|AW761267
EST:     GTTTTCTGACCCATCCAATG                         ACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
genomic: GTTTTCTGACCCATCCAATGgtaataagaa ... ttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
EST: gi|151408833|gb|EV278641.1|EV278641
EST:     TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATG                         ACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
genomic: TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATGgtaataagaa ... ttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
EST: gi|151401061|gb|EV270875.1|EV270875
EST:     TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATG                         ACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
genomic: TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATGgtaataagaa ... ttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
EST: gi|298198745|gb|HO042108.1|HO042108
EST:     TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATG                         ACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
genomic: TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATGgtaataagaa ... ttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
EST: gi|24135432|gb|BU925942.1|BU925942
EST:     TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATG                         ACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
genomic: TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATGgtaataagaa ... ttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
EST: gi|192300523|gb|FG991505.1|FG991505
EST:     TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATG                         ACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
genomic: TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATGgtaataagaa ... ttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
EST: gi|298168531|gb|HO009461.1|HO009461
EST:     TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATG                         ACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG
genomic: TACGGGTCCCCAGGCCCTCTCCGACGATGCGTTTTCTGACCCATCCAATGgtaataagaa ... ttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttaattgctgattttttcgatgtttgttggtgcactgcgttttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCGTTTACGCGAATCCAGAAAAGGGTTCGGAGAAAGTGCTTGTCAAGTGCCT
         tgctgat  putative branch site (score: 3)
            tgatttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataagaaaacccttcctcccctctctactttttttttttctttcaattaatcaattttttaattgctgattttttcgatgtttgttggtgcactgcgttttgtgtgcagACGAGGTGTCCGTTGATCACTGGAACGAGCTGAACGACGAGTACGCGTTCGTTTACGCGAATCCAGAAAAGGGTTCGGAGAAAGTGCTTGTCAAGTGCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA