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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatatatatatatatagatatgagtcaagagagagtatcattttaaggaagattgacatagcttgatgatgtgatttctttacataaaatgtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAAGAGGGACTCGAGAAAACAGGGCGATTTTCAATTGTGTCCAAAGACAATG

Basic information

species Glycine max
transcript GLYMA18G04940.1
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|192297594|gb|FG989916.1|FG989916
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|120528867|gb|EH257001.1|EH257001
EST:     CATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|7284076|gb|AW596675.1|AW596675
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTNTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|26060187|gb|CA803101.1|CA803101
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|23733745|gb|BU765081.1|BU765081
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCT
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCT
EST: gi|23064070|gb|BU578843.1|BU578843
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|14205440|gb|BG839118.1|BG839118
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGRAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|26060092|gb|CA803006.1|CA803006
EST:     CTAACCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|209703625|gb|BW656581.1|BW656581
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|10232097|gb|BE800985.1|BE800985
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|6913258|gb|AW394788.1|AW394788
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|151400178|gb|EV269992.1|EV269992
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
EST: gi|10237871|gb|BE806759.1|BE806759
EST:     CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAG                         GGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA
genomic: CTAGCCAAGTCATTGCTCAATACTACCAACTGATTCGCCTTGGTTTTGAGgtaataagat ... gtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggaagattgacatagcttgatgatgtgatttctttacataaaatgtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAAGAGGGACTCGAGAAAACAGGGCGATTTTCAATTGTGTCCAAAGACAATG
                            atttctttacataaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatatatatatatatagatatgagtcaagagagagtatcattttaaggaagattgacatagcttgatgatgtgatttctttacataaaatgtgattgcagGGATATAGAAACGTGATGGAAAACTGCAGGGACAACATGCTGGTGCTGAAAGAGGGACTCGAGAAAACAGGGCGATTTTCAATTGTGTCCAAAGACAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgatg