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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgccaaagaagcaataattgttttcttaattttaggcaaaatatttacatggataacccaaatctgaagtatgtaattaagtttgttgataatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG

Basic information

species Glycine max
transcript GLYMA08G42300.1
intron # 6
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|208256562|gb|GE054829.1|GE054829
EST:     CATGAAACATTGTTTGCTGATGTCGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAATAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|6665849|gb|AW277299.1|AW277299
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAGATTGAGCTGCAAAACCACAACAATTATCTGCGAACTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|193733101|gb|FK668318.1|FK668318
EST:     AAAGCATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
genomic: AAAGCATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|193681479|gb|FK623285.1|FK623285
EST:     CTAGAAAGCATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
genomic: CTAGAAAGCATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|17020848|gb|BM091882.1|BM091882
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|8285076|gb|BE022635.1|BE022635
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|208288479|gb|GE086144.1|GE086144
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|6666384|gb|AW277843.1|AW277843
EST:     CATGANACATTGTTTGCTGATGTGGAGTTCATGCANAAGCGG                         GAAATTGAGCTGCANAACCACAACAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|193716892|gb|FK654660.1|FK654660
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAGA
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAGA
EST: gi|9985912|gb|BE659918.1|BE659918
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACCAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAAC-AATTATCTGCGAGCTAAG
EST: gi|298186356|gb|HO036989.1|HO036989
EST:     CATGAAACATTGTTTGCTGATGTCGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAATAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|193443430|gb|FK409190.1|FK409190
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAGATAGCTGA
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAGATAGCTGA
EST: gi|193362589|gb|FK324909.1|FK324909
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|298198572|gb|HO040111.1|HO040111
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCT
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCT
EST: gi|208274341|gb|GE071123.1|GE071123
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|298181551|gb|HO025726.1|HO025726
EST:     CATGAAACATTGTTTGCTGATGTCGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAATAATTATCTGCG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCG
EST: gi|207720734|gb|GD701777.1|GD701777
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCNCAACAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
EST: gi|6454914|gb|AW185524.1|AW185524
EST:     CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGG                         GAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
genomic: CATGAAACATTGTTTGCTGATGTGGAGTTCATGCAAAAGCGGgtactcatca ... taatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacatggataacccaaatctgaagtatgtaattaagtttgttgataatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG
                         tatgtaattaagttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgccaaagaagcaataattgttttcttaattttaggcaaaatatttacatggataacccaaatctgaagtatgtaattaagtttgttgataatgtgcagGAAATTGAGCTGCAAAACCACAACAATTATCTGCGAGCTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC