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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatggaagctttattttccatattttgtttggttgctttatgatgtttcctccagctcacctttcattgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAATTTCCCAGGAAAAGAAGGTGCTGGAAGTGCATGTTGAGAAGGGTATGCA

Basic information

species Glycine max
transcript GLYMA07G14540.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G14540.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0021g02090.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------gtaatggaagctttattttccatattttgttt----ggttgctttatgatgtttcct--ccagctcacctttcattgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAATTTCCCAGGAAAAGAAGGTGCTGGAAGTGCATGTTGAGAAGGGTATGCA
                       ||         ||| |||| || ||||| |||      ||  || |  || |||  |  |    ||   |||  ||||| |||||||||| ||||  ||||||||||  || || |||||||||||||||||  ||     |||||||||||| ||||| ||||||||||||||||| |||||
gtaattaactgaaacctatttttgtttcatgttttttgtttttcaaattttttttccttaattttttcaaaattttttatgcctgtatcttatttggttgattcagGTGAGGTTATTAGTGAGAGAGATAGGTGCCCCCAGTGCAAAGGAAACAAGGTTAGTACGGAAAAGAAGGTACTGGAGGTGCATGTTGAGAAGGGAATGCA
















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|22521806|gb|BU080617.1|BU080617
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|208303944|gb|GE105677.1|GE105677
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|298173661|gb|HO016997.1|HO016997
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|254327987|gb|GR834952.1|GR834952
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|33388612|gb|CA851819.1|CA851819
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|193645503|gb|FK590443.1|FK590443
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|254341868|gb|GR853005.1|GR853005
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GGTGAGGTCATTAACGAGAGAAGATAAATGTCCTCAGTGCAAAGGAAACAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagG-TGAGGTCATTAACGAGAGA-GATAAATGTCCTCAGTGCAAAGGAAACAA
EST: gi|7925973|gb|AW831999.1|AW831999
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|192328757|gb|FK022543.1|FK022543
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|120491272|gb|EH219439.1|EH219439
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|13479325|gb|BG508668.1|BG508668
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|5770887|gb|AI974061.1|AI974061
EST:     TGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: TGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|298195828|gb|HO044219.1|HO044219
EST:     GCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: GCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|254327121|gb|GR836730.1|GR836730
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|11687347|gb|BF594987.1|BF594987
EST:     ATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: ATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|207678496|gb|GD661034.1|GD661034
EST:     TGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: TGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|209702366|gb|BW656341.1|BW656341
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|18040211|gb|BM308505.1|BM308505
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|298179173|gb|HO027644.1|HO027644
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|298195498|gb|HO043889.1|HO043889
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|298186346|gb|HO036979.1|HO036979
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|193657744|gb|FK601127.1|FK601127
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GCGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|208324992|gb|GE124876.1|GE124876
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|298172387|gb|HO019427.1|HO019427
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|192322850|gb|FK014781.1|FK014781
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|163923429|gb|EH038356.1|EH038356
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGT
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGT
EST: gi|18732460|gb|BM527057.1|BM527057
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|26058372|gb|CA801286.1|CA801286
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
EST: gi|208159029|gb|GD951754.1|GD951754
EST:     AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTG                         GTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA
genomic: AGGCATGATTCAACAAATGCAACATGTCTGTCCTGACTGCAGAGGATCTGgtaatggaag ... attgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttgtttggttgctttatgatgtttcctccagctcacctttcattgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAATTTCCCAGGAAAAGAAGGTGCTGGAAGTGCATGTTGAGAAGGGTATGCA
                                       cctttcatt  CT-rich tract
                tttatgat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatggaagctttattttccatattttgtttggttgctttatgatgtttcctccagctcacctttcattgatgcagGTGAGGTCATTAACGAGAGAGATAAATGTCCTCAGTGCAAAGGAAACAAAATTTCCCAGGAAAAGAAGGTGCTGGAAGTGCATGTTGAGAAGGGTATGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG