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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTTGTGAACCAGCTTCTCAAATGGGAGGCCCAAGTGGAGCAAGACCTCGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttttcttttcaatccaaactatgtaacgaaagacgctgcatagtcttctgctttatgttttaagtgattaggatgatgaataatttggtttta...

Basic information

species Glycine max
transcript GLYMA08G09520.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G09520.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv01s0010g03830.t01 (Vitis vinifera), 5'ss of exon 3
GTATTTGTGAACCAGCTTCTCAAATGGGAGGCCCAAGTGGAGCAAGACCTCGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttttcttttcaat----ccaaactatgtaacgaaagacgctgcatagtcttctgctttatgttttaagtgattaggatgatgaataatttggtttta
|| |||| ||| ||| |  |||||||||||||  | || ||  |||| ||||| ||| ||||||||||||||||||||||||| ||  | ||||| || ||| | | || | | ||| ||    | || || | |              ||    |||| ||||||  |    | |||||| |        ||   | | |   
GTTTTTGGGAATCAGTTGGTCAAATGGGAGGCTAAGGTTGAAGAAGATCTCGATAAGTTGCTCGAAAAGGCCAAAGCCGCCAATGAGCGCCGTTATATTGgtactctttctatcttctatgctgctaatctctattcttcttattttctcact-ccttcggctttagctaaagattgattaagccatatcctatgctagat---
















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|120495758|gb|EH223925.1|EH223925
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|10255752|gb|BE823462.1|BE823462
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|37995219|gb|CF806808.1|CF806808
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|41146472|gb|CK606683.1|CK606683
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|7146603|gb|AW508525.1|AW508525
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGAT
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGAT
EST: gi|192296051|gb|FG989431.1|FG989431
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|120529734|gb|EH257868.1|EH257868
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|5606658|gb|AI900756.1|AI900756
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|298183781|gb|HO028994.1|HO028994
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|254334221|gb|GR849139.1|GR849139
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|31307402|gb|CD392605.1|CD392605
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|151412273|gb|EV282085.1|EV282085
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|11412404|gb|BF424415.1|BF424415
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|6915363|gb|AW396893.1|AW396893
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|193457126|gb|FK425314.1|FK425314
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA
EST: gi|298192607|gb|HO033041.1|HO033041
EST:     CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAG                         ATGGAGATGATGATTAATGCTTGTCTTCAAGGATTGTAGCATTTGGTGAAA
genomic: CGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttt ... tgcattgcagATGGAGATGATGATTAATGCCTGTCTTCAAGGATTGTAGCATTTGGTGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTTGTGAACCAGCTTCTCAAATGGGAGGCCCAAGTGGAGCAAGACCTCGACAAGATGCTCGAAAAGGCCAAAGCCGCCAACGAAAGACGTTACATAGgttccccttttcttttcaatccaaactatgtaacgaaagacgctgcatagtcttctgctttatgttttaagtgattaggatgatgaataatttggtttta

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