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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGAAGCGATTGTATCTGGTTTTTGAGTATCTGGACTTGGATCTAAAGAAACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacctgtggttttcttttcctcggattatacatatttgtaacttgagttatagttatgggagtgaataagaaacttaatctgccaagcaaatat...

Basic information

species Glycine max
transcript GLYMA15G14390.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G14390.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G48750.1 (Arabidopsis thaliana), 5'ss of exon 4
TGAGAAGCGATTGTATCTGGTTTTTGAGTATCTGGACTTGGATCTAAAGAAACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacctgtggttttcttttcctcggattatacatatttgtaacttgagttatagttatgggagtgaataagaaacttaatctgccaagcaaatat
 ||||| || ||||||||||||||||||||||| ||||||||||| || || || ||||||||  |||| || ||    || |||| ||      | || |||||||  ||  |    | |   | | |  ||||| || |   |||  | | |  |   |||  |  |||  |      || |||  | |     |   
CGAGAAACGTTTGTATCTGGTTTTTGAGTATCTTGACTTGGATCTCAAAAAGCACATGGATTCTACTCCTGATTTCTCCAAGGATCTACATATGATCAAAgtgagtg--ctaagaaactttaggcattgttttatatatgtgcttaaactcaatactcaatataagc-tgatcagagctgttcatccactattttcag--

upper sequence: GLYMA15G14390.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 4
TGAGAAGCGATTGTATCTGGTTTTTGAGTATCTGGACTTGGATCTAAAGAAACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtga----gtgacctgtggttttcttt---tcctcggattatacatatttgta--acttgagttatagttatgggagtgaataagaaacttaatctgccaagcaaatat
||||||||| || ||||| |||||||||||||||||||||||||| ||||| || |||||||||||||| || ||||  ||||||  ||| |   |||||||||    |  | ||   |  || |     | |  | |||||| || || | |  | ||   || |  | ||  || ||| |||||   |||||   ||          
TGAGAAGCGGTTATATCTAGTTTTTGAGTATCTGGACTTGGATCTGAAGAAGCACATGGATTCATCTCCGGATTTTGCCAAAGATTTACGTCTGATAAAGgtgactctgcaatcttctgacttttgaaggttcctgcattatatattttgggactatttttcttgttttaatatgaatgattaagac-tttaattatcctc--------

upper sequence: GLYMA15G14390.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ37669 (Selaginella moellendorffii), 5'ss of exon 3
TGAGAAGCGATTGTATCTGGTTTTTGAGTATCTGGACTTGGATCTAAAGAAACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtg-agtgacctgtggttttcttttcctcgga-ttataca-tatttgtaacttgagttatagttatgggagtgaataagaaacttaatctgccaagcaaatat
 ||||||    | || ||||| |||||||| |||||||||||||||||||| ||||||||       ||||| || |  ||   ||||||     | || ||   |||| |        ||| | |  |    || |    |  ||||  ||| | | | | || |     |   |       |   |   |  ||       
CGAGAAGAAGCTCTACCTGGTCTTTGAGTACCTGGACTTGGATCTAAAGAAGCATATGGACAACAGCCCAGACTTCGCCAAGAGTCCACGAATGATTAAAgtatggtgagcccccaaaatctctccagcattcttgtgtggtgcttgtc-cttcactcacactttttttctttttttttggtttcctttctcgcag-------

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|298167421|gb|HO012684.1|HO012684
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|207834854|gb|GD809051.1|GD809051
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|192301718|gb|FG994412.1|FG994412
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|298177896|gb|HO021921.1|HO021921
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|193634954|gb|FK585289.1|FK585289
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATT
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATT
EST: gi|9985866|gb|BE660093.1|BE660093
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|213592499|gb|DB971641.1|DB971641
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|209726535|gb|BW658089.1|BW658089
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|207843775|gb|GD814268.1|GD814268
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|298179279|gb|HO027750.1|HO027750
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|298193236|gb|HO033670.1|HO033670
EST:     AACATATGGATTCATCTCCGGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGCTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|192312082|gb|FK003859.1|FK003859
EST:     ATGGATTCATCTCCAGAGTTTGTGAAAGATCCGCGGTAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: ATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|151411049|gb|EV280860.1|EV280860
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|41145798|gb|CK606009.1|CK606009
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|193592171|gb|FK548693.1|FK548693
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|207770796|gb|GD745910.1|GD745910
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|209726536|gb|BW658090.1|BW658090
EST:     GGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: GGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|192302862|gb|FG998544.1|FG998544
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA
EST: gi|192304397|gb|FG996719.1|FG996719
EST:     AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAG                         ATGTTCCTTTATCAAATTCTCTGTGGCATTACTTACTGTCATTCACATAGA
genomic: AACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacc ... ctttctgcagATGTTCCTTTATCAAATTCTCTGTGGCATTGCTTACTGTCATTCACATAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAGAAGCGATTGTATCTGGTTTTTGAGTATCTGGACTTGGATCTAAAGAAACATATGGATTCATCTCCAGAGTTTGTGAAAGATCCACGGCAAGTAAAGgtgagtgacctgtggttttcttttcctcggattatacatatttgtaacttgagttatagttatgggagtgaataagaaacttaatctgccaagcaaatat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaataaga