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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tataaattagaaaacttgcatacgtgtcatcaaatctaataatttctccttatttagagatatattctaagaaaaacttgttttaattttattatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAATTCATGACCTGCCCCATCCTTTGTAATTGTGGTGCCCAGTTGGCTTAGT

Basic information

species Glycine max
transcript GLYMA19G34380.1
intron # 4
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|8825818|gb|BE209548.1|BE209548
EST:     CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTG                         CACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
genomic: CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTGgtaagtatat ... attatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
EST: gi|9204440|gb|BE330664.1|BE330664
EST:     CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTG                         CACCAAGAGCCATGGCAAAATGGCA-GAACAGGAGC
genomic: CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTGgtaagtatat ... attatttcagCACCAAGAGCCATGGCAAAATG-CAAGAACAGGAGC
EST: gi|192303187|gb|FG997763.1|FG997763
EST:     CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTTTTGGTCTTG                         CACCAAGGGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
genomic: CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTGgtaagtatat ... attatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
EST: gi|57574134|gb|CX547109.1|CX547109
EST:     CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTG                         CACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
genomic: CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTGgtaagtatat ... attatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
EST: gi|9259241|gb|BE347449.1|BE347449
EST:     CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTG                         CACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
genomic: CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTGgtaagtatat ... attatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
EST: gi|151409764|gb|EV279572.1|EV279572
EST:     CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTG                         CACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
genomic: CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTGgtaagtatat ... attatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
EST: gi|12772578|gb|BG237569.1|BG237569
EST:     CAAGCGGTTACGCTTCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTG                         CACCAAGAGCCATGGCAAAATGCAAGAACATGAGC
genomic: CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTGgtaagtatat ... attatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGC
EST: gi|209707049|gb|BW661555.1|BW661555
EST:     CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTG                         CACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
genomic: CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTGgtaagtatat ... attatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
EST: gi|214007491|gb|DB987334.1|DB987334
EST:     CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTG                         CACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA
genomic: CAAGCGTTTACGCATCATGAAAGGAAAGGAGGCTATTGGTCTTGGTCTTGgtaagtatat ... attatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccttatttagagatatattctaagaaaaacttgttttaattttattatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAATTCATGACCTGCCCCATCCTTTGTAATTGTGGTGCCCAGTTGGCTTAGT
                                   ttttaat  putative branch site (score: 3)
                                         ttttatt  CT-rich tract
              atatattctaagaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tataaattagaaaacttgcatacgtgtcatcaaatctaataatttctccttatttagagatatattctaagaaaaacttgttttaattttattatttcagCACCAAGAGCCATGGCAAAATGCAAGAACAGGAGCTAGACTAGTCGCACAATTCATGACCTGCCCCATCCTTTGTAATTGTGGTGCCCAGTTGGCTTAGT

- - - - - - - - tgcatac
- - - - - - - - - - - - tgtcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa