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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctatggaaaaaaaattgttaagaagcttgagacaacaacattcaacaatgtatagatgtcatatgtgtgctaacaatttctggttcttttattttttcagGGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTTGTTGGATATGGCTCTGAAAATGGTGTGGATTACTGGCTGGTGAGGAATT

Basic information

species Glycine max
transcript GLYMA16G16290.1
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|6481416|gb|AW200687.1|AW200687
EST:     TAAGCATTGCTATTGAAGCCTCTGGCAGAGATTTGCAACTTTATCAATCG                         GGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT
genomic: TAAGCATTGCTATTGAAGCCTCTGGCAGAGATTTGCAACTTTATCAATCGgtaagcgtct ... attttttcagGGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT
EST: gi|16348173|gb|BI973768.1|BI973768
EST:     TAAGCATTGCTATTGAAGCCTCTGGCAGAGCTTTGCAACTTTATCAATCG                         GGTGTATTTACTGGTGAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT
genomic: TAAGCATTGCTATTGAAGCCTCTGGCAGAGATTTGCAACTTTATCAATCGgtaagcgtct ... attttttcagGGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT
EST: gi|19452607|gb|BM954017.1|BM954017
EST:     CTTTATCAATCG                         GGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT
genomic: CTTTATCAATCGgtaagcgtct ... attttttcagGGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT
EST: gi|22928301|gb|BU545440.1|BU545440
EST:     TAAGCATTGCTATTGAAGCCTCTGGCAGAGATTTGCAACTTTATCAATCG                         GGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT
genomic: TAAGCATTGCTATTGAAGCCTCTGGCAGAGATTTGCAACTTTATCAATCGgtaagcgtct ... attttttcagGGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT
EST: gi|22927914|gb|BU545053.1|BU545053
EST:     TAAGCATTGCTATTGAAGCNNCTGGCAGAGATTTGCAACTTTATCAATCG                         GGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT
genomic: TAAGCATTGCTATTGAAGCCTCTGGCAGAGATTTGCAACTTTATCAATCGgtaagcgtct ... attttttcagGGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatgtatagatgtcatatgtgtgctaacaatttctggttcttttattttttcagGGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTTGTTGGATATGGCTCTGAAAATGGTGTGGATTACTGGCTGGTGAGGAATT
                      tgctaac  putative branch site (score: 1)
                               tttctggttcttttat  putative PPT
                                      ttcttttattttttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctatggaaaaaaaattgttaagaagcttgagacaacaacattcaacaatgtatagatgtcatatgtgtgctaacaatttctggttcttttattttttcagGGTGTATTTACTGGTAAATGTGGGACAAGTTTAGACCATGGTGTGGTTGTTGTTGGATATGGCTCTGAAAATGGTGTGGATTACTGGCTGGTGAGGAATT

- - - aaaaaaa
- - - - - - - - - - - - gcttgag
- - - - - - - - - - - - - - - - caacaac
- - - - - - - - - - - - - - - - - - - - - - -caatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctaac