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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agctggatgatatgtatagaatcctatttcacggtctactttgctgtgtgattttatatataatctttagactttcattatcagttctgattttacatagGAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAATAATTTTCAGCATTTTGGGTGTTGTCATGCTTGGAACTTTGGTGTACACT

Basic information

species Glycine max
transcript GLYMA20G31130.1
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|192301408|gb|FG998400.1|FG998400
EST:     GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAA                         GAACGGCACAGCACCCCAAAGAAAGCATTCATCTATCGTGACTCTAAGAAT
genomic: GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAAgtatgtctac ... ttttacatagGAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAAT
EST: gi|151397729|gb|EV267602.1|EV267602
EST:     GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAA                         GAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAAT
genomic: GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAAgtatgtctac ... ttttacatagGAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAAT
EST: gi|18040383|gb|BM308677.1|BM308677
EST:     GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAA                         GAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAAT
genomic: GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAAgtatgtctac ... ttttacatagGAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAAT
EST: gi|213595164|gb|DB972098.1|DB972098
EST:     GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAA                         GAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCG
genomic: GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAAgtatgtctac ... ttttacatagGAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCG
EST: gi|192294992|gb|FG986711.1|FG986711
EST:     GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAA                         GAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAAT
genomic: GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAAgtatgtctac ... ttttacatagGAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAAT
EST: gi|213617205|gb|DB963768.1|DB963768
EST:     GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAA                         GAACGGCACAGCACCTCANAGAAAGCATTCATCTATCGTGACTCTAACAAT
genomic: GAATCTTCACAGGATCCTATGTATTATGTTCTATTGCGGAATCCAAATAAgtatgtctac ... ttttacatagGAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgattttatatataatctttagactttcattatcagttctgattttacatagGAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAATAATTTTCAGCATTTTGGGTGTTGTCATGCTTGGAACTTTGGTGTACACT
                                       ttctgat  putative branch site (score: 3)
     attttatatataatct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agctggatgatatgtatagaatcctatttcacggtctactttgctgtgtgattttatatataatctttagactttcattatcagttctgattttacatagGAACGGCACAGCACCTCAAAGAAAGCATTCATCTATCGTGACTCTAAGAATAATTTTCAGCATTTTGGGTGTTGTCATGCTTGGAACTTTGGTGTACACT

- - - -tgatatg
- - - - - - - - - - - - - - - - - - - - ttgctgt