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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaattggatcagtttatgagcactcatacttcttgcagtcgttaactttctgcatcctatttggctgttctattgttctgtttttattcttttgaaacagAGGCTTCACAGATGCACAGCCAATTGCTCACTCTATACATGCCTTATTAAAGTAAGGCTTCAGGCATCACTTTATGTGGTTCCAAAGGCAAAGAAACAGA

Basic information

species Glycine max
transcript GLYMA20G02720.2
intron # 3
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|208122767|gb|GD924971.1|GD924971
EST:     AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAG                         AGGCTTCACAGATGCACAGCCAATTGCTCACTCTATACATGCCTTATTAAA
genomic: AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAGgtaacgattt ... tttgaaacagAGGCTTCACAGATGCACAGCCAATTGCTCACTCTATACATGCCTTATTAAA
EST: gi|207827815|gb|GD797510.1|GD797510
EST:     AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAG                         AGGCTTCACAGATGCACAGCCAATTGCT
genomic: AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAGgtaacgattt ... tttgaaacagAGGCTTCACAGATGCACAGCCAATTGCT
EST: gi|208117825|gb|GD916807.1|GD916807
EST:     AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAG                         AGGCTTCACAGATGCA
genomic: AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAGgtaacgattt ... tttgaaacagAGGCTTCACAGATGCA
EST: gi|193579074|gb|FK535842.1|FK535842
EST:     AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAG                         AGGCTTCACAGATGCACA
genomic: AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAGgtaacgattt ... tttgaaacagAGGCTTCACAGATGCACA
EST: gi|193673772|gb|FK619397.1|FK619397
EST:     AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAG                         AGGCTTCACAGATGCACAGCCAATTG
genomic: AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAGgtaacgattt ... tttgaaacagAGGCTTCACAGATGCACAGCCAATTG
EST: gi|193370254|gb|FK336788.1|FK336788
EST:     AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAG                         AGGCTTCACAGATGCACAGCCAATTGCTCACTCTATACATGCC
genomic: AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAGgtaacgattt ... tttgaaacagAGGCTTCACAGATGCACAGCCAATTGCTCACTCTATACATGCC
EST: gi|193621108|gb|FK568062.1|FK568062
EST:     AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAG                         AGGCTTCACAGATGCACAGCCAATTGCTCACTCTATACATGCCTTATTAAA
genomic: AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAGgtaacgattt ... tttgaaacagAGGCTTCACAGATGCACAGCCAATTGCTCACTCTATACATGCCTTATTAAA
EST: gi|208189875|gb|GD987779.1|GD987779
EST:     AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAG                         AGGCTTCACAGATGCACAGCCAATTGCTC
genomic: AAGCTCAGGTTTCTGAAGTTAAAGATGTCATGATGGAGAACATTGAAAAGgtaacgattt ... tttgaaacagAGGCTTCACAGATGCACAGCCAATTGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttctgcatcctatttggctgttctattgttctgtttttattcttttgaaacagAGGCTTCACAGATGCACAGCCAATTGCTCACTCTATACATGCCTTATTAAAGTAAGGCTTCAGGCATCACTTTATGTGGTTCCAAAGGCAAAGAAACAGA
                           ttgttctgtttttatt  CT-rich tract
                                   tttttattcttttgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaattggatcagtttatgagcactcatacttcttgcagtcgttaactttctgcatcctatttggctgttctattgttctgtttttattcttttgaaacagAGGCTTCACAGATGCACAGCCAATTGCTCACTCTATACATGCCTTATTAAAGTAAGGCTTCAGGCATCACTTTATGTGGTTCCAAAGGCAAAGAAACAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - cactcat
- - - - - - - - - - - - - - - - -tgcagtc
- - - - - - - - - - - - - - - - - - - - - - - - - tgcatcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggctgt