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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcatgcaatttcctatagaatttttagtccatattcaatgaagaatttcagtgtttgtcaatttgggttttgattgaagtgtttgaatgcattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCACGATCAGTTGATATAATTTCCCATTGCCTTGATGCAGGAATGTCTG

Basic information

species Glycine max
transcript GLYMA20G33060.1
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|209703125|gb|BW673297.1|BW673297
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAAGTC
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCC-AAAGTC
EST: gi|13251787|gb|BG362690.1|BG362690
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|15815853|gb|BI788128.1|BI788128
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|37996783|gb|CF808372.1|CF808372
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|8282879|gb|BE020440.1|BE020440
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|13311729|gb|BG405380.1|BG405380
EST:     TT-TTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|213590485|gb|DB968077.1|DB968077
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|213592816|gb|DB957846.1|DB957846
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|213620116|gb|DB965408.1|DB965408
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|213601205|gb|DB964684.1|DB964684
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|15663975|gb|BI701346.1|BI701346
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|209724487|gb|BW658204.1|BW658204
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|209729393|gb|BW663668.1|BW663668
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|7285698|gb|AW598185.1|AW598185
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|37995866|gb|CF807455.1|CF807455
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAANATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
EST: gi|14259678|gb|BG882586.1|BG882586
EST:     TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCT                         ACNNNNNNNCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA
genomic: TTCTTGAGGAACCCATTAGGATGGCATCCATCCTTGAGCCATCCAAGCCTgtaagcattt ... cattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcagtgtttgtcaatttgggttttgattgaagtgtttgaatgcattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCACGATCAGTTGATATAATTTCCCATTGCCTTGATGCAGGAATGTCTG
                       ttttgat  putative branch site (score: 4)
                       ttttgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcatgcaatttcctatagaatttttagtccatattcaatgaagaatttcagtgtttgtcaatttgggttttgattgaagtgtttgaatgcattctgcagACTTTTTTTCCGGCTATGACGAAAATTGTTGGCACACTTGGTCCAAAGTCACGATCAGTTGATATAATTTCCCATTGCCTTGATGCAGGAATGTCTG

-tcatgca
- - - - - - - - - - - - - - - - - - -aatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - -gtgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggttttg