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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggctatattactatttggctgaaatgatcaaattttgacgaagaccaaagtgtgcatttttttttgttaaagtctgtcaagaagtatatgcctgtgtattaaatctgtcatggaatttgaatctcaactacctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTGAAAGAGTTCTACGACGAATGGAATGGTTTAAGCTAATAAACCATTCCAC

Basic information

species Glycine max
transcript GLYMA12G02920.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G02920.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os10g34470.1 (Oryza sativa), 3'ss of exon 6
gtaggctatattactatttggctgaaatgatcaaattttgacgaagaccaaagtgtgcatttttttttgttaaagtctgtcaagaagtatatgcctgtgtattaaatctgtcatggaatttgaatctcaactacctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTGAAAGAGTTCTACGACGAATGGAATGG------TTTAAGCTAATAAACCATTCCAC
                                  || || |     ||||     | || |||   | ||  ||   |  |  | || ||     | | | ||   |  |   ||  |     || ||| ||   |   | |||| ||||||| ||| ||||||| |||||| |||||||||||||| ||||||   || ||||| || || |||| |||      || ||| | |  |||||      
----------------------------------atcttaat----accatgtactccaatttacctagtacaaacattccttgtagaatcccattatctcttcctttggcgttgacacc---atttca-ctttgtgcat-agGCCGGGAAAAAGAGAGCAGAGAAAAGGCACAAGTTCATGGAGGACTTTGTGGCTGAATTCTATGAAGAGTGGAGTGGCAGAGCTTGAAGTTGACCAACCA------

upper sequence: GLYMA12G02920.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G459291_T03 (Zea mays), 3'ss of exon 5
gtaggctatattactatttggctgaaatgatcaaattttgacgaagaccaaagtgtgcatttttttttgttaaagtctgtcaagaagtatatgcctgtgtattaaatctgtcatggaatttgaatctcaactacctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTGAAAGAGTTCTACGACGAATGGAATGG------TTTAAGCTAATAAACCATTCCAC
                                         |  |  |  |  | |  || ||  ||| |    |  ||  |   | |  |  |||   |  |  || | |  ||  |  |   | ||     |  |    |||| ||||||||||| || |||| |||||||| |||||||||||| ||||||   || |||||||| || |||| |||      || | | | |  |||||      
------------------------------------cccagcctaccctcacttttttatattcctttatct--gcttgatatatactg-agacctagttgcttgatatatactgagacctagttttct----ctgagcatagGCCGGGAAAAGGAGAGCTGAGAAAAGGCATAGGTTCATGGAGGAATTTGTGGCTGAATTCTACGAAGAGTGGAGTGGCAGGGCTTGAGGTTGAACAACCA------

upper sequence: GLYMA12G02920.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G17330.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaggctatattactatttggctgaaatgatcaaattttgacgaagaccaaagtgtgcatttttttttg-ttaaagtctgtcaagaagtatatgcctgtgtattaaatctgtcatggaatttgaatctcaactacctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTGAAAGAGTTCTACGACGAATGGAATGGTTTAAGCTAATAAACCATTCCAC
                                                      ||   |||         |  | | || |  |||  || ||  |   | | | || |    ||||  |||||    |||     || |||||| || |||||||||||||||| |||||| ||||||||||| |||| | | || |||||||| || || ||| |||| | ||  | | ||   |      
------------------------------------------------------gtaagtttaaccgcaactctattttgacgcgaaaaatttgtttcgatttgagatttaatgtgga--ttgaa----aac-----atatcagGCGGGTAAAAGGAGGGCAGAGAAAAGGCACAAGTTCATGGAAGAGTATCTTAAGGAGTTCTATGAAGAGTGGGATGGGTCAACTTGAAAAGTTAAAAATG

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|207687930|gb|GD669483.1|GD669483
EST:     ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAG                         GCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG
genomic: ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAGgtaggctata ... cctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG
EST: gi|209698483|gb|BW667280.1|BW667280
EST:     ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAG                         GCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG
genomic: ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAGgtaggctata ... cctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG
EST: gi|193512443|gb|FK469039.1|FK469039
EST:     ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAG                         GCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG
genomic: ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAGgtaggctata ... cctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG
EST: gi|58022079|gb|CX708820.1|CX708820
EST:     ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAG                         GCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG
genomic: ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAGgtaggctata ... cctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG
EST: gi|193429136|gb|FK396352.1|FK396352
EST:     ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAG                         GCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG
genomic: ATCATTTTCATGAGAAGCTTCTCAAGCTCAAAGATATGATGAAAACCAAGgtaggctata ... cctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatgcctgtgtattaaatctgtcatggaatttgaatctcaactacctatttcagGCTGGGAAAAGGAGGGCAGAGAGAAGGCATAAGTTCATGGAGGAGTTTGTGAAAGAGTTCTACGACGAATGGAATGGTTTAAGCTAATAAACCATTCCAC
                                             cctatttc  CT-rich tract
         tgtattaaat  TA-rich tract