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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgttagatatacttgctggcattatgatatatctacttgttatatatacctagtcctgactttttatttgtactgctttgtcaaactttttatatttagGCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCTACAACAAAACAGGAAGATATGGTTGACGTGAACCTGAGGTCTTCTGGTA

Basic information

species Glycine max
transcript GLYMA17G16200.1
intron # 5
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|6746986|gb|AW317442.1|AW317442
EST:     ACGTTATGTTTANGGTAGCTAGTGCAAAAGCTGGCTTTAATATAAAG                         GCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCT
genomic: ACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAGgtaagcctct ... ttatatttagGCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCT
EST: gi|31307061|gb|CD392264.1|CD392264
EST:     TAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAG                         GCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCT
genomic: TAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAGgtaagcctct ... ttatatttagGCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCT
EST: gi|192323740|gb|FK016046.1|FK016046
EST:     TAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAG                         GCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCT
genomic: TAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAGgtaagcctct ... ttatatttagGCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCT
EST: gi|298166624|gb|HO010063.1|HO010063
EST:     TAAACGTTATGTTTATTGAGGCTAGTGCAAAAGCCGGCTTTAATATAAAG                         GCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAAT
genomic: TAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAGgtaagcctct ... ttatatttagGCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAAT
EST: gi|120529270|gb|EH257404.1|EH257404
EST:     TAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAG                         GCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCT
genomic: TAAACGTTATGTTTATTGAAGCTAGTGCAAAAGCTGGCTTTAATATAAAGgtaagcctct ... ttatatttagGCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatacctagtcctgactttttatttgtactgctttgtcaaactttttatatttagGCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCTACAACAAAACAGGAAGATATGGTTGACGTGAACCTGAGGTCTTCTGGTA
         tcctgac  putative branch site (score: 2)
                                         ctttttat  putative PPT
                                tttgtcaaacttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgttagatatacttgctggcattatgatatatctacttgttatatatacctagtcctgactttttatttgtactgctttgtcaaactttttatatttagGCCCTCTTTCGAAAAATTGCTGCTGCATTACCCGGAATGGAAACATTATCTACAACAAAACAGGAAGATATGGTTGACGTGAACCTGAGGTCTTCTGGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - tgctggc
- - - - - - - - - - - - - - - - -ctacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tactgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaaact