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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctttccgcatgttatggaatgaaattatcaacattgttttggtggcctttttttgtttaataactcttcattttgctttgtttttggcttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGATCGCAAGACGTGCGATCGAACTTGCTGAGAGTCGTTTACTGAAGGATGG

Basic information

species Glycine max
transcript GLYMA10G35890.2
intron # 4
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|6726038|gb|AW310437.1|AW310437
EST:     TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAG                         TGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
genomic: TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAGgttcttcctt ... ttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
EST: gi|208051604|gb|GD846001.1|GD846001
EST:     TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAG                         TGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
genomic: TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAGgttcttcctt ... ttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
EST: gi|207805081|gb|GD778674.1|GD778674
EST:     AGTTACCATAATGGAGGATCTTGGCCAG                         TGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
genomic: AGTTACCATAATGGAGGATCTTGGCCAGgttcttcctt ... ttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
EST: gi|13479349|gb|BG508692.1|BG508692
EST:     TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAG                         TGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
genomic: TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAGgttcttcctt ... ttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
EST: gi|14260015|gb|BG882923.1|BG882923
EST:     TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAA                         TGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGA
genomic: TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAGgttcttcctt ... ttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGA
EST: gi|193471191|gb|FK436068.1|FK436068
EST:     TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAG                         TGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
genomic: TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAGgttcttcctt ... ttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
EST: gi|18040752|gb|BM309046.1|BM309046
EST:     TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAG                         TGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA
genomic: TGATCCCAAAAATACCAGATGGAGTTACCATAATGGAGGATCTTGGCCAGgttcttcctt ... ttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcctttttttgtttaataactcttcattttgctttgtttttggcttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGATCGCAAGACGTGCGATCGAACTTGCTGAGAGTCGTTTACTGAAGGATGG
              taataac  putative branch site (score: 1)
     ttttttgtttaataac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctttccgcatgttatggaatgaaattatcaacattgttttggtggcctttttttgtttaataactcttcattttgctttgtttttggcttgtgtgcagTGCTCCTGTGGCTAGTAACAGCTGCTTGTATCAAAACGGGTAGACCACAGATCGCAAGACGTGCGATCGAACTTGCTGAGAGTCGTTTACTGAAGGATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - gcatgtt
- - - - - - - - -ggaatga
- - - - - - - - - - - - - - atcaaca
- - - - - - - - - - - - - - - - - - - - ttggtgg