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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagttattgatcgattcatcgattatgaatgatgatttccattatatatatgaagagattgatgatcgtgtgttgtttttgtttggaacccaaatagaagGAAGAGATGGCAGGAGAATCATACGAGGAAGCCATCACGAGTCTGACCAAGCTTCTCAG

Basic information

species Glycine max
transcript GLYMA01G03720.2
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|20075541|gb|BQ094324.1|BQ094324
EST:     GAGCATTAAAAAAGTGCATGATGCTGTGTTGCACGAGCAAGATTGTCTCGAAG                       
genomic: GAGCATTAAAAAAGTGCATGATGCTGTGTTGCACGAGCAAGATTGTCTC---Ggtacattatt ... caaataga
EST: gi|20813446|gb|BQ297924.1|BQ297924
EST:     GAGCATTAAAAAAGTGCATGATGCTGTGTTGCACGAGCAAGATTGTCTCGAAG                       
genomic: GAGCATTAAAAAAGTGCATGATGCTGTGTTGCACGAGCAAGATTGTCTC---Ggtacattatt ... caaataga
EST: gi|209715498|gb|BW684743.1|BW684743
EST:     GAGCATTAAAAAAGTGCATGATGCTGTGTTGCACGAGCAAGATTGTCTCG                         GAAGAGATGGCAGGAGAATCATACGAGGAAGCCATCACGAGTCTGACCAAG
genomic: GAGCATTAAAAAAGTGCATGATGCTGTGTTGCACGAGCAAGATTGTCTCGgtacattatt ... caaatagaagGAAGAGATGGCAGGAGAATCATACGAGGAAGCCATCACGAGTCTGACCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatgaagagattgatgatcgtgtgttgtttttgtttggaacccaaatagaagGAAGAGATGGCAGGAGAATCATACGAGGAAGCCATCACGAGTCTGACCAAGCTTCTCAG
           gattgat  putative branch site (score: 4)
                              tttttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagttattgatcgattcatcgattatgaatgatgatttccattatatatatgaagagattgatgatcgtgtgttgtttttgtttggaacccaaatagaagGAAGAGATGGCAGGAGAATCATACGAGGAAGCCATCACGAGTCTGACCAAGCTTCTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - -tgaatga
- - - - - - - - - - - - - - - - - - - - - - - - tatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcgtgtg