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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttctttttctttttgcctcttcaatttgatttctattatttttttcagtttttctctgaaggcgattttgttttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAACATTTTGGAGAATGAATATGTCAAG

Basic information

species Glycine max
transcript GLYMA20G36200.1
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|24136174|gb|BU926684.1|BU926684
EST:     GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
EST: gi|298199419|gb|HO042782.1|HO042782
EST:     GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
EST: gi|298190319|gb|HO032440.1|HO032440
EST:     GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
EST: gi|26058966|gb|CA801880.1|CA801880
EST:     GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
EST: gi|151406328|gb|EV276143.1|EV276143
EST:     GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
EST: gi|254319823|gb|GR830847.1|GR830847
EST:     GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
EST: gi|18040102|gb|BM308396.1|BM308396
EST:     GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
EST: gi|7458586|gb|AW666036.1|AW666036
EST:     GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
EST: gi|207805336|gb|GD777342.1|GD777342
EST:     GACGAGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
EST: gi|298196568|gb|HO041311.1|HO041311
EST:     GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG                         CTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC
genomic: GACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAGgtttttcttt ... tttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttctattatttttttcagtttttctctgaaggcgattttgttttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAACATTTTGGAGAATGAATATGTCAAG
 atttgat  putative branch site (score: 5)
                                       ttttgtttt  putative PPT
     tctattatttttttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttttctttttctttttgcctcttcaatttgatttctattatttttttcagtttttctctgaaggcgattttgttttatactagCTTGCTGATTATGACAAAGAAGGTTCTATTTTACGTGTTCGCGGAAAGAACATTTTGGAGAATGAATATGTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA