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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactccttctctcaattctcgcttccttcgatcctttaatctcatttttcaattttctttgttgtaattgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG

Basic information

species Glycine max
transcript GLYMA20G36200.1
intron # 2
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|24136174|gb|BU926684.1|BU926684
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
EST: gi|298199419|gb|HO042782.1|HO042782
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGCTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
EST: gi|298190319|gb|HO032440.1|HO032440
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
EST: gi|193316754|gb|FK279502.1|FK279502
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
EST: gi|26058966|gb|CA801880.1|CA801880
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
EST: gi|151406328|gb|EV276143.1|EV276143
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGTCGTTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
EST: gi|254319823|gb|GR830847.1|GR830847
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
EST: gi|18040102|gb|BM308396.1|BM308396
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
EST: gi|7458586|gb|AW666036.1|AW666036
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
EST: gi|298196568|gb|HO041311.1|HO041311
EST:     GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAG                         GAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA
genomic: GCGTATAACCTGATAGCTCCCGGAGACTCTGTCATGGCCGTTACTGTCAGgtactccttc ... attgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttccttcgatcctttaatctcatttttcaattttctttgttgtaattgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG
            ctttaat  putative branch site (score: 4)
             tttaatctcatttttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactccttctctcaattctcgcttccttcgatcctttaatctcatttttcaattttctttgttgtaattgtatcagGAAGGTTCTAAGAGAAGCTGCTAGTGGCGGACGGGAAGCAGAACGCGTCAAGCTCAAATTGGAAATTAAAGTCCAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA