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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttttcttctgaaaattcaaaagcatttaagtataactttttgaaatctgatgttttgagttgttcttgatttaattttattttttttacttgatgcagGAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGATAGTGACAGGGAAGTTTGTGTCCTTATCTGAACAAGAACTTGTGGACTG

Basic information

species Glycine max
transcript GLYMA16G16290.1
intron # 1
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|298174395|gb|HO017731.1|HO017731
EST:     TTGGAGGGTGAAGGGTGCAGTTGCTCCAATCAAAGATCAGGGAAGTTGTG                         GAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGA
genomic: TTGGAGGGTGAAGGGTGCAGTTGCTCCAATCAAAGATCAGGGAAGTTGTGgtgagtattt ... cttgatgcagGAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGA
EST: gi|6481416|gb|AW200687.1|AW200687
EST:     AGATCAGGGAAGTTGTG                         GAAGTTGTTGGGCGTTCTCAACGGTGGCCACANGTGGAAGCAATAAACAAG
genomic: AGATCAGGGAAGTTGTGgtgagtattt ... cttgatgcagGAAGTTGTTGGGCGTTCTCAACGGTGGCCACA-GTGGAAGCAATAAACAAG
EST: gi|16348173|gb|BI973768.1|BI973768
EST:     TTGGAGGGTGAAGGGTGCAGTTGCTCCCATCAAAGATCAGGGAAGTTGTG                         GAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGA
genomic: TTGGAGGGTGAAGGGTGCAGTTGCTCCAATCAAAGATCAGGGAAGTTGTGgtgagtattt ... cttgatgcagGAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGA
EST: gi|151395182|gb|EV265053.1|EV265053
EST:     TTGGAGAGTGAAGGGTGCAGTTGCTCCAATCAAAGATCAGGGAAGTTGTG                         GAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAACAAACAAGA
genomic: TTGGAGGGTGAAGGGTGCAGTTGCTCCAATCAAAGATCAGGGAAGTTGTGgtgagtattt ... cttgatgcagGAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGA
EST: gi|9203846|gb|BE330070.1|BE330070
EST:     TGGAGGGTGAAGGGTGCAGTTGCTCCAATCAAAGATCAAGGAAGTTGGTG                         -AAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAG
genomic: TGGAGGGTGAAGGGTGCAGTTGCTCCAATCAAAGATCAGGGAAGTTG-TGgtgagtattt ... cttgatgcagGAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAG
EST: gi|7691143|gb|AW759276.1|AW759276
EST:     TTGGAGGGTGAANGGTGCAGTTGCTCCAATCAAAGATCAAGGAAGTNGTG                         GAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGA
genomic: TTGGAGGGTGAAGGGTGCAGTTGCTCCAATCAAAGATCAGGGAAGTTGTGgtgagtattt ... cttgatgcagGAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctgatgttttgagttgttcttgatttaattttattttttttacttgatgcagGAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGATAGTGACAGGGAAGTTTGTGTCCTTATCTGAACAAGAACTTGTGGACTG
                               ttttattttttttact  CT-rich tract
         ttttgagttgttcttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttttcttctgaaaattcaaaagcatttaagtataactttttgaaatctgatgttttgagttgttcttgatttaattttattttttttacttgatgcagGAAGTTGTTGGGCGTTCTCAACGGTGGCCACAGTGGAAGCAATAAACAAGATAGTGACAGGGAAGTTTGTGTCCTTATCTGAACAAGAACTTGTGGACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - -tcttctg
- - - - - - - - - - - - - - - - - - - - - - - -tctgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttcttg