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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatggtatttcttgttgtctctatgttagttgagagttcccttagttgatatttactgagatgggaacattttcccctttgagaggtattcttt...

Basic information

species Glycine max
transcript GLYMA13G25460.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G25460.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv00s0301g00030.t01 (Vitis vinifera), 5'ss of exon 4
GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatggtatttcttgttgtctctatgttagttgagagttcccttagttgatatttactgagatgggaacattttcccct-ttgagaggtattcttt-----
||||| |||||||| |||| |||||| ||||| |||||  ||||| ||||||| ||||||||||||| || || |     |  |   || |   ||   | | ||| | | |  || |||     ||   |    | | ||     | ||||     | ||||      
GATTTAAAAAAGAAAGAGAGGGAACTCCAAGCTAAGGAGGCTGAACTGAGAAAGAGGGAACAGgtatctggtgatgaaatt--tcaacttt---ttgagtaaaagtacacatt-ttcataaaacttggactacctatacttagtattgttgattatcaatcttcccaaa
















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|193592476|gb|FK546982.1|FK546982
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAAAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|209704875|gb|BW661692.1|BW661692
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAAATGAGNAAAAGGGAACAG                         GAAGTGAGACG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACG
EST: gi|19452590|gb|BM954000.1|BM954000
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|298166217|gb|HO009188.1|HO009188
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|26049086|gb|CA785539.1|CA785539
EST:     AGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|192321114|gb|FK013560.1|FK013560
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|18725114|gb|BM523597.1|BM523597
EST:     GGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: GGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|213602689|gb|DB968915.1|DB968915
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|209707209|gb|BW656827.1|BW656827
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|14126115|gb|BG790553.1|BG790553
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|209729488|gb|BW651841.1|BW651841
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|192299791|gb|FG990057.1|FG990057
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|19937699|gb|BQ081388.1|BQ081388
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|7591513|gb|AW707244.1|AW707244
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGATAAAGGGAACAT                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
EST: gi|209705878|gb|BW675983.1|BW675983
EST:     AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG                         GAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG
genomic: AGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatg ... tcaaatccagGAAGTGAGACGGAGAGAAGAAGCTGCTTCACGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAGgtatatgatggtatttcttgttgtctctatgttagttgagagttcccttagttgatatttactgagatgggaacattttcccctttgagaggtattcttt

- - - - - -  AGGAGA
- - - - - - - GGAGAA
- - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttcccc