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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acacgatttcacatttcatcgccaaaaataaagagtaattaagagaattgcagttatctttaccatatattaaactaattagtatcttttactccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCAAGCGGAAACAAAACATCAATGTTCTTCGGCCCCAACTTCTTGTCCGACA

Basic information

species Glycine max
transcript GLYMA16G26060.1
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|192304668|gb|FG998740.1|FG998740
EST:     CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAG                         TACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
genomic: CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAGgtatgcttct ... actccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
EST: gi|192316231|gb|FK011632.1|FK011632
EST:     CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAG                         TACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
genomic: CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAGgtatgcttct ... actccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
EST: gi|37996785|gb|CF808374.1|CF808374
EST:     CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAG                         TACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
genomic: CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAGgtatgcttct ... actccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
EST: gi|192294575|gb|FG986424.1|FG986424
EST:     CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAG                         TACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
genomic: CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAGgtatgcttct ... actccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
EST: gi|151402824|gb|EV272637.1|EV272637
EST:     CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAG                         TACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATCTGCTCCA
genomic: CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAGgtatgcttct ... actccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
EST: gi|192328489|gb|FK023521.1|FK023521
EST:     CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAG                         TACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
genomic: CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAGgtatgcttct ... actccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
EST: gi|192328359|gb|FK020070.1|FK020070
EST:     CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAG                         TACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA
genomic: CAGCTTTTGCTCCAGACACTGAACACCACCCATCTTATGTCTTGGAAAAGgtatgcttct ... actccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgcagttatctttaccatatattaaactaattagtatcttttactccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCAAGCGGAAACAAAACATCAATGTTCTTCGGCCCCAACTTCTTGTCCGACA
                           aactaat  putative branch site (score: 2)
                                       tcttttactcc  putative PPT
                   atatattaaactaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acacgatttcacatttcatcgccaaaaataaagagtaattaagagaattgcagttatctttaccatatattaaactaattagtatcttttactccaatagTACAATGAGAGGACCCCGTTAGCTGCATGGTTAGACACTGAATTTGCTCCAAGCGGAAACAAAACATCAATGTTCTTCGGCCCCAACTTCTTGTCCGACA

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