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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttaatgtgtgtatgtgtaatactacactgacgattgtcgcaaccaatataattgggtcatattgattctttaactgcacagactgagaagatgtggtagtgatcttaatcctgatgtttttatttaatataattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTAAAAAAACTTCACGTGAATCAAAGAAAGAAGGAAGAATTGTTAATGTTTCCTCTGAGGCTCA

Basic information

species Glycine max
transcript GLYMA20G30080.1
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|15204724|gb|BI427492.1|BI427492
EST:     CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAG                         GTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTNNNNNNNCTTCAC
genomic: CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAGgtatgtttaa ... aattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTAAAAAAACTTCAC
EST: gi|151394515|gb|EV264386.1|EV264386
EST:     CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAG                         GTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTNNNNNNNCTTCAC
genomic: CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAGgtatgtttaa ... aattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTAAAAAAACTTCAC
EST: gi|151398063|gb|EV267941.1|EV267941
EST:     CAGTCTCTCTAAGGACAAAATTGAACTACAGTTTGCCACAAATCACATAG                         GTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTNNNNNNNCTTCAC
genomic: CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAGgtatgtttaa ... aattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTAAAAAAACTTCAC
EST: gi|209715120|gb|BW677163.1|BW677163
EST:     CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAG                         GTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTNNNNNNNCTTCAC
genomic: CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAGgtatgtttaa ... aattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTAAAAAAACTTCAC
EST: gi|14205703|gb|BG839381.1|BG839381
EST:     CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAG                         GTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTNNNNNNNCTTCAC
genomic: CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAGgtatgtttaa ... aattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTAAAAAAACTTCAC
EST: gi|26269039|gb|CA820102.1|CA820102
EST:     CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAG                         GTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTNNNNNNNCTTCAC
genomic: CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAGgtatgtttaa ... aattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTAAAAAAACTTCAC
EST: gi|17964274|gb|BM271012.1|BM271012
EST:     CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAG                         GTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATT
genomic: CAGTCTCTCTAAAGACAAAATTGAACTACAGTTTGCCACAAATCACATAGgtatgtttaa ... aattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaagatgtggtagtgatcttaatcctgatgtttttatttaatataattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTAAAAAAACTTCACGTGAATCAAAGAAAGAAGGAAGAATTGTTAATGTTTCCTCTGAGGCTCA
                atcttaatcctgatgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtttaatgtgtgtatgtgtaatactacactgacgattgtcgcaaccaatataattgggtcatattgattctttaactgcacagactgagaagatgtggtagtgatcttaatcctgatgtttttatttaatataattttgcagGTCATTTTCTCTTGACAAATCTTTTGTTGGACACTATTAAAAAAACTTCACGTGAATCAAAGAAAGAAGGAAGAATTGTTAATGTTTCCTCTGAGGCTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
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