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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttctcttaccactgaggtttcctagaaatgctgattaaactctgtgccactttgttttggttccatcagtttatttatttatgcattccttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAAAAAAG

Basic information

species Glycine max
transcript GLYMA08G39880.1
intron # 8
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|37995842|gb|CF807431.1|CF807431
EST:     AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTG                         GTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
genomic: AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTGgtaggtaatc ... ttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
EST: gi|209724732|gb|BW651475.1|BW651475
EST:     AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTG                         GTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
genomic: AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTGgtaggtaatc ... ttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
EST: gi|192306146|gb|FG996578.1|FG996578
EST:     AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTG                         GTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
genomic: AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTGgtaggtaatc ... ttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
EST: gi|51341249|gb|CO982566.1|CO982566
EST:     AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTG                         GTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
genomic: AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTGgtaggtaatc ... ttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
EST: gi|209716788|gb|BW665466.1|BW665466
EST:     AGGCTTTGATTGAATTG                         GTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
genomic: AGGCTTTGATTGAATTGgtaggtaatc ... ttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
EST: gi|12690127|gb|BG156463.1|BG156463
EST:     AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTG                         GTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
genomic: AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTGgtaggtaatc ... ttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
EST: gi|192297924|gb|FG993203.1|FG993203
EST:     AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTG                         GTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
genomic: AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTGgtaggtaatc ... ttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
EST: gi|9903086|gb|BE612054.1|BE612054
EST:     AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTG                         GTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
genomic: AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTGgtaggtaatc ... ttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
EST: gi|193415423|gb|FK381027.1|FK381027
EST:     AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTG                         GTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA
genomic: AACGGATGGGTCCTCAGTATGCAAAGCTGAATAAGGCTTTGATTGAATTGgtaggtaatc ... ttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccactttgttttggttccatcagtttatttatttatgcattccttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAAAAAAG
                                       cattcctttt  CT-rich tract
                    atcagtttatttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttctcttaccactgaggtttcctagaaatgctgattaaactctgtgccactttgttttggttccatcagtttatttatttatgcattccttttgaacagGTAAATAACTATAGCATGGTGAGTTTTATACCATTAGACTTAAGGAAGGAAAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA