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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatagaaaaagaaaaagctttcagttccttgaatgaataacttaactgtgtggtcttttgttaattcttctgtttaatttgttgctgattaagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCTTCAAAATGTAGCAAAATAGCGCCATTTGAGGCAGTAGAGCATGAACTAC

Basic information

species Glycine max
transcript GLYMA12G10210.3
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|7691759|gb|AW759880.1|AW759880
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAG                         AAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGgtgtgtatat ... taagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
EST: gi|298183030|gb|HO028293.1|HO028293
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGTCACAG                    
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGA-CC-C--T--CAGgtgtgtatat ... taagt
EST: gi|31456519|gb|CD398547.1|CD398547
EST:     TGGGAGCGTCACTTCAAGCATTTCCCCCTCAAGACCCTCAG                         AAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATTATCT
genomic: TGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGgtgtgtatat ... taagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
EST: gi|213618025|gb|DB963658.1|DB963658
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAG                         AAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGgtgtgtatat ... taagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
EST: gi|23064258|gb|BU579031.1|BU579031
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAG                         ---CA-C-C-TAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGgtgtgtatat ... taagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
EST: gi|298182663|gb|HO031398.1|HO031398
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGTCACAG                    
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGA-CC-C--T--CAGgtgtgtatat ... taagt
EST: gi|192316108|gb|FK007169.1|FK007169
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAG                         AAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGgtgtgtatat ... taagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
EST: gi|192305211|gb|FG993963.1|FG993963
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAG                         AAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGgtgtgtatat ... taagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
EST: gi|27425967|gb|CA937487.1|CA937487
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGTCACAG                    
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGA-CC-C--T--CAGgtgtgtatat ... taagt
EST: gi|209725576|gb|BW677878.1|BW677878
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAG                         AAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGgtgtgtatat ... taagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
EST: gi|298193194|gb|HO033628.1|HO033628
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGTCACAG                    
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGA-CC-C--T--CAGgtgtgtatat ... taagt
EST: gi|192299092|gb|FG990406.1|FG990406
EST:     CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAG                         AAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
genomic: CAGTTAACATGGGAGCTTCACTTCAAGCATTTCCCCCTCAAGACCCTCAGgtgtgtatat ... taagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
EST: gi|31312023|gb|CD397226.1|CD397226
EST:     TTCAAGCATTTCCCCCTCAAGACCCTCAG                         AAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT
genomic: TTCAAGCATTTCCCCCTCAAGACCCTCAGgtgtgtatat ... taagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgtgtggtcttttgttaattcttctgtttaatttgttgctgattaagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCTTCAAAATGTAGCAAAATAGCGCCATTTGAGGCAGTAGAGCATGAACTAC
                                      tgctgat  putative branch site (score: 3)
           ttttgttaattctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaatagaaaaagaaaaagctttcagttccttgaatgaataacttaactgtgtggtcttttgttaattcttctgtttaatttgttgctgattaagtcacagAAACAGCACCTAAGCTTTCAAGAACCAAGCAGCAAGGAACTGGGATCATCTTCAAAATGTAGCAAAATAGCGCCATTTGAGGCAGTAGAGCATGAACTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
-aatagaaa
- - - - -aagaaaa
- - - - - - - - -gctttca
- - - - - - - - - - - - - -ccttgaa
- - - - - - - - - - - - - - - - - -gaataac
- - - - - - - - - - - - - - - - - - - - - - - -tgtgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgat