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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatttgaacaattttgcatacctgttgtgcagaaatgtttgattttacaccttatcagttttaaaatgtcatgaagataactttcttgtagtacattacagCTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAGATCAAGTGCTTGGAAACGTTAGGCAGTTTGAATGCTGGAGCTGATTCCA

Basic information

species Glycine max
transcript GLYMA20G34750.1
intron # 7
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|14259440|gb|BG882348.1|BG882348
EST:     TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAA                         CTTATAGGGCGGGAAG-ATGGTGAT
genomic: TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAGgtaaatttga ... tacattacagCTTATAGGGCGG-AAGGATGGTGAT
EST: gi|209701615|gb|BW660971.1|BW660971
EST:     TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAG                         CTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAG
genomic: TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAGgtaaatttga ... tacattacagCTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAG
EST: gi|193491125|gb|FK455564.1|FK455564
EST:     TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAG                         CTTATAGGGCGGAAGGATGGTGAT
genomic: TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAGgtaaatttga ... tacattacagCTTATAGGGCGGAAGGATGGTGAT
EST: gi|15337676|gb|BI498332.1|BI498332
EST:     TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAG                         CTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAG
genomic: TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAGgtaaatttga ... tacattacagCTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAG
EST: gi|193660091|gb|FK604261.1|FK604261
EST:     TGTTGGTGGTCCACCAAAG                         CTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAG
genomic: TGTTGGTGGTCCACCAAAGgtaaatttga ... tacattacagCTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAG
EST: gi|209708386|gb|BW665359.1|BW665359
EST:     TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAG                         CTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAG
genomic: TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAGgtaaatttga ... tacattacagCTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAG
EST: gi|22933986|gb|BU551125.1|BU551125
EST:     TTGATAATGCCAGACNCTATTGCACAAATGCTGTTGGTGGTCCACCAAAG                         CTTATAGGGCGGAAGGATGGTGATCACAANCTACTAGTGGATCGTGAAGAG
genomic: TTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAGgtaaatttga ... tacattacagCTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaccttatcagttttaaaatgtcatgaagataactttcttgtagtacattacagCTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAGATCAAGTGCTTGGAAACGTTAGGCAGTTTGAATGCTGGAGCTGATTCCA
                            agataac  putative branch site (score: 3)
     ttatcagttttaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatttgaacaattttgcatacctgttgtgcagaaatgtttgattttacaccttatcagttttaaaatgtcatgaagataactttcttgtagtacattacagCTTATAGGGCGGAAGGATGGTGATCACAATCTACTAGTGGATCGTGAAGAGATCAAGTGCTTGGAAACGTTAGGCAGTTTGAATGCTGGAGCTGATTCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT