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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaattaaatgaattcatgtaattttttacaaggaacaaagtcaaagtaataatatatttatctgatagaggaacttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGACATTAAAGGAATGAACCGAAGAGACGTAAATTTCTTCTATGATGGACAA

Basic information

species Glycine max
transcript GLYMA08G06090.1
intron # 6
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|6502194|gb|AW203567.1|AW203567
EST:     TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAG                         CCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
genomic: TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAGgtaaaattaa ... ttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
EST: gi|16343572|gb|BI969167.1|BI969167
EST:     TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAG                         CCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
genomic: TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAGgtaaaattaa ... ttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
EST: gi|254331979|gb|GR843722.1|GR843722
EST:     TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAG                         CCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
genomic: TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAGgtaaaattaa ... ttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
EST: gi|31460751|gb|CD402779.1|CD402779
EST:     TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAG                         CCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
genomic: TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAGgtaaaattaa ... ttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
EST: gi|213598094|gb|DB977664.1|DB977664
EST:     TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAG                         CCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
genomic: TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAGgtaaaattaa ... ttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
EST: gi|192331088|gb|FK020308.1|FK020308
EST:     TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAG                         CCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGG
genomic: TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAGgtaaaattaa ... ttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
EST: gi|254331980|gb|GR843723.1|GR843723
EST:     TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAG                         CCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
genomic: TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAGgtaaaattaa ... ttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
EST: gi|9258428|gb|BE346575.1|BE346575
EST:     TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAG                         CCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA
genomic: TACATGAACGGGCATGATCATTGTCTTGAGCACATTAGTGACACGGAGAGgtaaaattaa ... ttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggaacaaagtcaaagtaataatatatttatctgatagaggaacttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGACATTAAAGGAATGAACCGAAGAGACGTAAATTTCTTCTATGATGGACAA
                              atctgat  putative branch site (score: 4)
                                            cttgttt  putative PPT
     acaaagtcaaagtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaattaaatgaattcatgtaattttttacaaggaacaaagtcaaagtaataatatatttatctgatagaggaacttgtttgcagCCCCATTCAGTTCCTGACTAGCGGGGCAGGGTCAAAGGCTTGGAGAGGAGACATTAAAGGAATGAACCGAAGAGACGTAAATTTCTTCTATGATGGACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA