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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCTGCTTCTTTACCTAGTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatacttaaaagtagtagctgaagttgcattttcttgccgattgagaatttataagctgttccaattttttgagggggtgggggagggtgaaaagggggaaggtgtgtcgtatcgatcttttaattttcattgacacactgcatgattgtttttctgaag

Basic information

species Glycine max
transcript GLYMA02G08010.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G08010.3 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0007g07290.t01 (Vitis vinifera), 5'ss of exon 3
AGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCTGCTTCTTTACCTAGTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatacttaaaagtagtagctgaagttgcattttct-tgccgattgagaatttataagc----tgttccaattttttgagggggtgggggagggtgaaaagggggaaggtgtgtcgtatcgatcttttaattttcattgacacactgcatgattgtttttctgaag---
||| |||||| | ||||| |||||| | || |||||  || |||| ||||| ||||| |||||||| |||||||| || ||||| || || |||||||||||| | | || ||  |    |   |  ||   | || | |    | ||| | ||| ||  |    | || || ||  ||                 |  | | |   ||  ||| |   ||  | |  |  ||| |  || ||   ||| ||||   || || ||      
AGGTTTTTGGATTTGCTATTGCCATTTGGCCCGTCCATCTGCTTTGCCTAGCCCAACTGATTTGCATCTTTTCAAAGAGGGAATTCGCCCCCTATGGGAGgtaaacatttgaatctttctgtgcattttctttcttgtctaattaatgatattttttattccttatttttcacttcctttttattacataattatcttcagaagctaaaa-tgtatgaaattcaaccctagattgtggttaac---ctgaatgaaatttcttatgtgtcag
















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|254324094|gb|GR840519.1|GR840519
EST:     GTCCAACAGATTTGCA-CTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|254326145|gb|GR840737.1|GR840737
EST:     GTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|193385011|gb|FK351493.1|FK351493
EST:     CCAACAGATTTGCACC-TTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTTGGTAAATGGATTATACGATTCAAAAAGGT
genomic: CCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGG-TGGTAAATGGATTATACGATTCAAAAAGGT
EST: gi|8284610|gb|BE022169.1|BE022169
EST:     AGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: AGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|193687517|gb|FK627440.1|FK627440
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|14991130|gb|BI316803.1|BI316803
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|254324773|gb|GR834198.1|GR834198
EST:     AAGGAAATCCGTCCTCTAT-GGAG                         GACTCTGCTAACTGCAATGGTTGGTAAATGGATTATACGATTCAAAAAGGT
genomic: AAGG-AATCCGTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGG-TGGTAAATGGATTATACGATTCAAAAAGGT
EST: gi|120496098|gb|EH224265.1|EH224265
EST:     GTCCAACAGATTTGCACCGTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|298163689|gb|HO012422.1|HO012422
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|19452727|gb|BM954137.1|BM954137
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... ttttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGATTTTGGGTCTGCTACTGCCATCTTGCTCGTCCTGCTTCTTTACCTAGTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatacttaaaagtagtagctgaagttgcattttcttgccgattgagaatttataagctgttccaattttttgagggggtgggggagggtgaaaagggggaaggtgtgtcgtatcgatcttttaattttcattgacacactgcatgattgtttttctgaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA