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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agctgaaaaactgctcattgaaattgtgaaagatctagttatgtagacatatttttcaacttctgtgcttgacgaaagttgagtatcatgtctgggccagCTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAACAATGGTGCAGTTAATTTATCTGAAGGTGACAAGGAGAAAGGAGCTGGAA

Basic information

species Glycine max
transcript GLYMA20G34780.4
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|6482098|gb|AW201369.1|AW201369
EST:     TGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTGAATTGAAGAAG                         CTTCCAGCCACGCGAGCAAAATCTCCAAAG
genomic: TGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTGAATTGAAGAAGgtttgtactg ... tctgggccagCTTCCAGCCACGCGAGCAAAATCTCCAAAG
EST: gi|10236980|gb|BE805868.1|BE805868
EST:     TGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTGAATTGAAGAAG                         CTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC
genomic: TGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTGAATTGAAGAAGgtttgtactg ... tctgggccagCTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC
EST: gi|6725249|gb|AW309648.1|AW309648
EST:     TGCCAAGCTTTTACCATGAAGGGCCTCCTCNTAAGGTTGAATTGAAGAAG                         CTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC
genomic: TGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTGAATTGAAGAAGgtttgtactg ... tctgggccagCTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC
EST: gi|192331632|gb|FK023450.1|FK023450
EST:     AAGGTTGAATTGAAGAAG                         CTTCCGGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC
genomic: AAGGTTGAATTGAAGAAGgtttgtactg ... tctgggccagCTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC
EST: gi|192330167|gb|FK020512.1|FK020512
EST:     TGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTGAATTGAAGAAG                         CTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC
genomic: TGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTGAATTGAAGAAGgtttgtactg ... tctgggccagCTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC
EST: gi|192309425|gb|FK000941.1|FK000941
EST:     TGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTGAATTGAAGAAG                         CTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC
genomic: TGCCAAGCTTTTACCATGAAGGGCCTCCTCCTAAGGTTGAATTGAAGAAGgtttgtactg ... tctgggccagCTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacatatttttcaacttctgtgcttgacgaaagttgagtatcatgtctgggccagCTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAACAATGGTGCAGTTAATTTATCTGAAGGTGACAAGGAGAAAGGAGCTGGAA
                     gcttgac  putative branch site (score: 4)
     atttttcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agctgaaaaactgctcattgaaattgtgaaagatctagttatgtagacatatttttcaacttctgtgcttgacgaaagttgagtatcatgtctgggccagCTTCCAGCCACGCGAGCAAAATCTCCAAAGCTGGGTCGGCGAAAGAGCAACAATGGTGCAGTTAATTTATCTGAAGGTGACAAGGAGAAAGGAGCTGGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA