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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcttctcctcagtaatgttcctggaattgaagtgatgctgctgatgctgcatggggtttaagggtttttgtatcaagcttaaagttttttattttacagGGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAGGACTTCGAGGTGCTTTTCAAGATACTTTAGAGGCAGAAACTCAGATATA

Basic information

species Glycine max
transcript GLYMA08G22890.1
intron # 3
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|6964108|gb|AW432801.1|AW432801
EST:     GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAG                         GGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAG
genomic: GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAGgtctgtttca ... tattttacagGGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAG
EST: gi|7639624|gb|AW733943.1|AW733943
EST:     GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAG                         GGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTCAAGCTGAGAG
genomic: GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAGgtctgtttca ... tattttacagGGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAG
EST: gi|14990399|gb|BI316072.1|BI316072
EST:     GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAG                         GGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAG
genomic: GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAGgtctgtttca ... tattttacagGGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAG
EST: gi|151399502|gb|EV269373.1|EV269373
EST:     GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAG                         GGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAAAG
genomic: GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAGgtctgtttca ... tattttacagGGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAG
EST: gi|19345821|gb|BM890701.1|BM890701
EST:     GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAG                         GGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAG
genomic: GCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAGgtctgtttca ... tattttacagGGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctgcatggggtttaagggtttttgtatcaagcttaaagttttttattttacagGGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAGGACTTCGAGGTGCTTTTCAAGATACTTTAGAGGCAGAAACTCAGATATA
                                        ttttttatttt  CT-rich tract
                              aagcttaaagtttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcttctcctcagtaatgttcctggaattgaagtgatgctgctgatgctgcatggggtttaagggtttttgtatcaagcttaaagttttttattttacagGGGATGTTGCTTTTAGAATCTTGGAGAACATACACAAAGTTAAGCTGAGAGGACTTCGAGGTGCTTTTCAAGATACTTTAGAGGCAGAAACTCAGATATA

- cttctcc
- - - - - - - - - -tcctgga
- - - - - - - - - - - - - - - - -tgatgct
- - - - - - - - - - - - - - - - - - - - -ctgatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - -ggggttt