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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctattttcctttaccgtgactcaaattgtgtctatttttggattcttggcactaatttgaatgattaatttatttttcttacatggatgtttccttttgcag

Basic information

species Glycine max
transcript GLYMA11G07530.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G07530.1 (Glycine max), 5'ss of exon 8
lower sequence: AT2G18230.1 (Arabidopsis thaliana), 5'ss of exon 8
ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctattttcctttaccgtgactcaaattgtgtctatttttggattcttggcactaatttgaatgattaatttatttttcttacatggatgtttccttttgcag
|||||||||| |||||||| | ||| || |||||||  || || || ||| |||||||||| || || |||||| |||||||||||| |  |||  | | ||      |||||| | |  |  ||     | |||    ||||   |||||  ||| || | || | | | | |               
ACAAGAAGAACGAGAACAAGAAAGTCGACGTTGAAGCTTTCCTTCCCGCTCAAGCTGCCATAGACGCTATCAAGGACTCCATgtaagtttgttt--tatcccaaacaccaaattatttacacgtt----gttttg---ttaat---aatgagcaatgtactgttttgaaacgcag--------------

upper sequence: GLYMA11G07530.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv04s0023g02050.t01 (Vitis vinifera), 5'ss of exon 7
ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctattttcctttaccgtgactcaaattgtgtctatttttggattcttggcactaatttgaatgattaatttatttttcttacatggatgtttccttttgcag
|||||||||| || ||||||  |||| | ||  | |||||||| ||||||||  |||||||||| |||||||||||||| |||| ||                    |  || ||| ||  ||| || |  ||        |||  |   ||||| ||     ||||||||||||| || || ||||||
ACAAGAAGAACGAAAACAAAGAAGTTAACGTGAACGACTTTCTTCCAGCTGATTCTGCCATTGAAGCCATCAAGTACTCAATgtgag--------------------tagaagtgtttcc-tttctgcagcct--------attctagccattaactt-----tcttacatggatggttgctattgcag
















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|22928719|gb|BU545858.1|BU545858
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|58018488|gb|CX705230.1|CX705230
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|151395789|gb|EV265666.1|EV265666
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTA
EST: gi|254328447|gb|GR835412.1|GR835412
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|10238705|gb|BE807593.1|BE807593
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|58014268|gb|CX701010.1|CX701010
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|192310085|gb|FK000649.1|FK000649
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTAC
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTAC
EST: gi|192331258|gb|FK023769.1|FK023769
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAG-CACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|192310086|gb|FK000650.1|FK000650
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|192321263|gb|FK014353.1|FK014353
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAG-CACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|58022382|gb|CX709123.1|CX709123
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|58017496|gb|CX704238.1|CX704238
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|151397849|gb|EV267722.1|EV267722
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|10254828|gb|BE822594.1|BE822594
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|31469770|gb|CD411798.1|CD411798
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|151402592|gb|EV272405.1|EV272405
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGACGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAG-CACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|192333274|gb|FK026155.1|FK026155
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|209729103|gb|BW655080.1|BW655080
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCT
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCT
EST: gi|37996150|gb|CF807739.1|CF807739
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|22930561|gb|BU547700.1|BU547700
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|192323914|gb|FK015665.1|FK015665
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|26057763|gb|CA800677.1|CA800677
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGG
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGG
EST: gi|58017619|gb|CX704361.1|CX704361
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|192325458|gb|FK018399.1|FK018399
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTA-GGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|151406239|gb|EV276054.1|EV276054
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|254336463|gb|GR842642.1|GR842642
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|192321262|gb|FK014352.1|FK014352
EST:     GAAGACTTTTTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|151401645|gb|EV271458.1|EV271458
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|19934354|gb|BQ079393.1|BQ079393
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|193553113|gb|FK507748.1|FK507748
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTCTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|192316544|gb|FK009313.1|FK009313
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|9986810|gb|BE660918.1|BE660918
EST:     GAAGACTTTCTACCGGCTGAAGCTGCCATTGATGCCATCAATTACTCCAT                         GGACTTGNATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
EST: gi|192294924|gb|FG986647.1|FG986647
EST:     GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCAT                         GGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA
genomic: GAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctatt ... ccttttgcagGGACTTGTATGCTGCTTACATAGTTGAGAGCTTAAGGCACTAACTTCTTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCAGCTGAAGCTGCCATTGATGCCATCAAGTACTCCATgtaagctattttcctttaccgtgactcaaattgtgtctatttttggattcttggcactaatttgaatgattaatttatttttcttacatggatgtttccttttgcag

- - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC