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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgccacatagaatctgtttcaatttctctagatttgtttgcaatttaagtttttttttttaaaaaaaattattgatgtttgttttaatttcttgggaggcatgccag

Basic information

species Glycine max
transcript GLYMA04G43340.2
intron # 3
splice site 5'
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|19054062|gb|BM732729.1|BM732729
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         AGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccagAGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
EST: gi|213619802|gb|DB967424.1|DB967424
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         AGCTTTAGATAAACAAGTTTCGATGCTTCAGGTGGAACTAGCAGCAGCTAG
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccagAGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
EST: gi|7796823|gb|AW782217.1|AW782217
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         AGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccagAGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
EST: gi|213615386|gb|DB965651.1|DB965651
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         AGCTTTAGATAAACAAGTTTCGATGCTTCAGGTGGAACTAGCAGCAGCTAG
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccagAGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
EST: gi|151395197|gb|EV265068.1|EV265068
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAGCATGCCA                  
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCA-T-----T--CAgtgagtgcca ... ggc
EST: gi|151395197|gb|EV265068.1|EV265068
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAGCATGCCA                  
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCA-T-----T--CAgtgagtgcca ... ggc
EST: gi|31561426|gb|CD487264.1|CD487264
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         G
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccag-
EST: gi|31561426|gb|CD487264.1|CD487264
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         G
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccag-
EST: gi|31561426|gb|CD487264.1|CD487264
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         G
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccag-
EST: gi|209720190|gb|BW674528.1|BW674528
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         AGCTTTAGATAAACAAGTTTCGATGCTTCAGGTGGAACTAGCAGCAGCTAG
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccagAGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
EST: gi|16104724|gb|BI892464.1|BI892464
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGTTTATAACCCATGAAGCCATTCA                         AGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccagAGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
EST: gi|17023237|gb|BM094271.1|BM094271
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         G
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccag-
EST: gi|17023237|gb|BM094271.1|BM094271
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         G
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccag-
EST: gi|17023237|gb|BM094271.1|BM094271
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         G
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccag-
EST: gi|8283506|gb|BE021065.1|BE021065
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCA                         AGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgcca ... ggcatgccagAGCTTTAGATAAACAAGTTTCGATGCTTCAGATGGAACTAGCAGCAGCTAG
EST: gi|192305500|gb|FG994294.1|FG994294
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAGCATGCCA                  
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCA-T-----T--CAgtgagtgcca ... ggc
EST: gi|192305500|gb|FG994294.1|FG994294
EST:     CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAGCATGCCA                  
genomic: CAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCA-T-----T--CAgtgagtgcca ... ggc

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGCAGCCCAAGGATGCAGTGAGCGAATTGCAGAAAACCCATGAAGCCATTCAgtgagtgccacatagaatctgtttcaatttctctagatttgtttgcaatttaagtttttttttttaaaaaaaattattgatgtttgttttaatttcttgggaggcatgccag

- - - - - AGGATG
- - - - - - - - - - - - - - - - - - - -  TGAAGC