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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggagatgatatttgttattattagtagtataataaggacttcttttcttaagtgaaatatgctttaaaacttaattgttgaaaaatctttcctattcagAGGAATGACATGGTTGAGTACTTTGGAGAGCAATTATCTGGCTTTGCTTTTACTGCCAACGGGTGGGTGCAATCATATGGATCCCGCTGTGTCAAGCCTC

Basic information

species Glycine max
transcript GLYMA13G15140.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G15140.2 (Glycine max), 3'ss of exon 9
lower sequence: AT5G20980.2 (Arabidopsis thaliana), 3'ss of exon 9
gtgaggagatgatatttgttattattagtagtataataaggacttcttttcttaagtgaaatatgctttaaaacttaattgttgaaaaatctttcctattcagAGGAATGACATGGTTGAGTACTTTGGAGAGCAATTATCTGGCTTTGCTTTTACTGCCAACGGGTGGGTGCAATCATATGGATCCCGCTGTGTCAAGCCTC
                         | | | ||||       ||   ||| |||    || |||  || |    |       ||| |   | |     | ||||| || || ||||| ||||  || || |||||  | |||||||||||||| ||| | || |||||||| || |||||||| ||||||||||||||||| |
------------------------gtgggaatataccttaacctaggtttattattcaaactat--ttcatttttacccccctgatatgacatagtcctgcagAGAAACGATATGGTGGAGTTTTTCGGTGAGCAGCTGTCTGGCTTTGCTTTCACTTCGAATGGGTGGGTCCAGTCATATGGGTCCCGCTGTGTCAAGCCAC

upper sequence: GLYMA13G15140.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0009g01080.t01 (Vitis vinifera), 3'ss of exon 9
gtgaggaga--tgatatttgt-tattattagt--agtataataaggacttcttttcttaagtgaaatatgctttaaa--acttaattgttga-----aaaatctttcctattcagAGGAATGACATGGTTGAGTACTTTGGAGAGCAATTATCTGGCTTTGCTTTTACTGCCAACGGGTGGGTGCAATCATATGGATCCCGCTGTGTCAAGCCTC
||||       |  || || | ||  |||| |  | |     | ||   | |||| ||| | |||| | | ||||||  | || |||||        ||   |||    || ||||| ||||||||||||||||||||||| ||||||||||| || ||||| || |||| ||| |||||||| ||||| ||||| ||||| ||||||||||| |
gtgatttctcttcctaattatctaaaattaattcaatgcttcatggctatattttgttatgggaaagaaggtttaaataatttcattgtaatttgtcaatggcttgatgatgcagAGAAATGACATGGTTGAGTACTTTGGGGAGCAATTATCAGGTTTTGCCTTCACTGTCAATGGGTGGGTCCAATCTTATGGGTCCCGTTGTGTCAAGCCAC
















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|193364784|gb|FK330493.1|FK330493
EST:     AGCTCCAGGAAGAACTTGACATTGATGTCTTGGTGCATGGAGAGCCTGAG                         AGGAATGACATGGTTGAGTACTTTGGAGAGCAATTATCTGGCTTTGCTTTT
genomic: AGCTCCAGGAAGAACTTGACATTGATGTCTTGGTGCATGGAGAGCCTGAGgtgaggagat ... tcctattcagAGGAATGACATGGTTGAGTACTTTGGAGAGCAATTATCTGGCTTTGCTTTT
EST: gi|151393115|gb|EV262990.1|EV262990
EST:     AGCTCCAGGAAGAACTTGACATTGATGTCTTGGTGCATGGAGAGCCTGAG                         AGGAATGACATGGTTGAGTACTTTGGAGAGCAATTATCTGGCTTTACTTTT
genomic: AGCTCCAGGAAGAACTTGACATTGATGTCTTGGTGCATGGAGAGCCTGAGgtgaggagat ... tcctattcagAGGAATGACATGGTTGAGTACTTTGGAGAGCAATTATCTGGCTTTGCTTTT
EST: gi|193563489|gb|FK521378.1|FK521378
EST:     AGCTCCAGGAAGAACTTGACATTGATGTCTTGGTGCATGGAGAGCCTGAG                         AGGAATGACATGGTTGAGTA
genomic: AGCTCCAGGAAGAACTTGACATTGATGTCTTGGTGCATGGAGAGCCTGAGgtgaggagat ... tcctattcagAGGAATGACATGGTTGAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttaagtgaaatatgctttaaaacttaattgttgaaaaatctttcctattcagAGGAATGACATGGTTGAGTACTTTGGAGAGCAATTATCTGGCTTTGCTTTTACTGCCAACGGGTGGGTGCAATCATATGGATCCCGCTGTGTCAAGCCTC
                        acttaat  putative branch site (score: 4)
                                         tctttcctattc  putative PPT
                  tttaaaacttaattgt  TA-rich tract