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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAGGCTGAGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaacttttgttagttaaatccatgagatgtccaaggttaacactaaacagtattgcataatttccagggagcttgtaaattcgtttctttctttctgtttttgcaataacag

Basic information

species Glycine max
transcript GLYMA04G39670.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39670.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv07s0031g01640.t01 (Vitis vinifera), 5'ss of exon 8
TTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAGGCTGAGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaacttttgttagttaaatccatgagatgtccaaggttaacactaaacagtattgcataatttccagggagcttgtaaattcgtttctttctttctgtttttgcaataacag
| | ||||||||  | ||||| || | |||||| |||||||||||||| |||||||||   || || |||||||| ||||||||||| |||||||| |||||||   ||  |   |||   |||       ||||  |   | |  | |   ||||    ||     |  |||     |||||| |||  |||  |   |    |         
TCTGGAGAAGAACCTCGATGCAAGAGCAAGAGAGCTTGAACGCGAGGCAGAGCTTGATGAGAAGGCCCCTAAAGTAAAAGCCAAATCCAAGATGTCAAAGgtaagaattattctcttag--ccac------tccactgcataaatgatatgatattcggaaaggcatactgagaaaaaaaattccttttcttccatgactaacag---------
















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|209707109|gb|BW653221.1|BW653221
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|192312580|gb|FK003274.1|FK003274
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCA-G                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGAT
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGAT
EST: gi|209707398|gb|BW670650.1|BW670650
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|213601535|gb|DB978834.1|DB978834
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|209724087|gb|BW679984.1|BW679984
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|214008253|gb|DB989795.1|DB989795
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|214009024|gb|DB987103.1|DB987103
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|209701953|gb|BW683182.1|BW683182
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|16342504|gb|BI968099.1|BI968099
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|213599543|gb|DB981699.1|DB981699
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|209702699|gb|BW675674.1|BW675674
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|214007852|gb|DB987796.1|DB987796
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|213591107|gb|DB979354.1|DB979354
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|254327297|gb|GR836906.1|GR836906
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|209725966|gb|BW669740.1|BW669740
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|22524815|gb|BU083626.1|BU083626
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|5760777|gb|AI966140.1|AI966140
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|209704982|gb|BW653272.1|BW653272
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|209699162|gb|BW656175.1|BW656175
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|209716770|gb|BW654328.1|BW654328
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
EST: gi|214009791|gb|DB990328.1|DB990328
EST:     AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAG                         GCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA
genomic: AGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaactttt ... gcaataacagGCTGAGAAAGAGGCACGGAAGAAACAAAAGATGCAGGCCTTTCAGGCAGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTAGAGAAGAATTTTGATGCTAGGGAAAGAGAACTTGAACGCGAGGCTGAGCTTGATAGCAAAGCTCCTAAAGTGAAAGCCAAATCTAAGATGTCCAAGgtaaacttttgttagttaaatccatgagatgtccaaggttaacactaaacagtattgcataatttccagggagcttgtaaattcgtttctttctttctgtttttgcaataacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG