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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttgtagttttcaataagtttattaaatgagagttatattatgactattgtctattcgcctgtgagtttccaaatattgcttaatgttgtttggcattgaattgcagattattagttaatgtcaattctgaattgttgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAATCCATTAGGAAAGAAGCTGAACAAATGACATTTGACTAAGGTGCATAAA

Basic information

species Glycine max
transcript GLYMA20G37280.2
intron # 10
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|151409405|gb|EV279213.1|EV279213
EST:     TGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|254338247|gb|GR849772.1|GR849772
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|213606123|gb|DB982424.1|DB982424
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGATACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|254340199|gb|GR858324.1|GR858324
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|254348058|gb|GR854307.1|GR854307
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|254338390|gb|GR845640.1|GR845640
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|308098448|gb|HO760189.1|HO760189
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|254338246|gb|GR849771.1|GR849771
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|5820065|gb|AI988271.1|AI988271
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|58019268|gb|CX706010.1|CX706010
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|58024841|gb|CX711582.1|CX711582
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|193449155|gb|FK411528.1|FK411528
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|58019608|gb|CX706350.1|CX706350
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
EST: gi|193637685|gb|FK583098.1|FK583098
EST:     CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTT                         GTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA
genomic: CGGCAATAAAGGTGGGGAAGAGACCAGAAAATGCAGGAAAGCTCATTGTTgtaagtttgt ... tgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggcattgaattgcagattattagttaatgtcaattctgaattgttgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAATCCATTAGGAAAGAAGCTGAACAAATGACATTTGACTAAGGTGCATAAA
                      agttaat  putative branch site (score: 4)
              agattattagttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttgtagttttcaataagtttattaaatgagagttatattatgactattgtctattcgcctgtgagtttccaaatattgcttaatgttgtttggcattgaattgcagattattagttaatgtcaattctgaattgttgttgtacagGTGATTTTCCCCAGTTTTGGAGAACGTTACTTATCTTCACCACTGTTTGAATCCATTAGGAAAGAAGCTGAACAAATGACATTTGACTAAGGTGCATAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA