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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAAGTACAATGTGGAGAAAGATGTTGCGGAGCAGATAAAGAAGGAGTTCGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctctcttttttttttaattacttgtcaatcattttggtacttgggttcactaggatttggggtttatgtgattgttctttagtagaaattgagt...

Basic information

species Glycine max
transcript GLYMA15G16050.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G16050.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G472231_T01 (Zea mays), 5'ss of exon 2
GAGAAGTACAATGTGGAGAAAGATGTTGCGGAGCAGATAAAGAAGGAGTTCGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctctcttttttttttaattacttgtcaatcattttggtacttgggttcactaggatttggggtttatgtgattgttctttagtagaaattgagt-------
|||||| ||| | ||||||| ||  | |||||| | ||||||||||||||||| ||||  || |||||||| ||||| |||||||| || || || || |||||  ||||     | |   ||   ||| |        |   || || | | |   | ||||  |    | |||| ||| | | ||||   |  ||  |       
GAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCAACTTCGgtaatgctct-----tctcccaaccccttatgggaaccctccttaattag-tactgaatgattgcgcaagt-tgtggttggtgtctagtctgatatgcttgcgttgt

upper sequence: GLYMA15G16050.1 (Glycine max), 5'ss of exon 2
lower sequence: AT4G15930.1 (Arabidopsis thaliana), 5'ss of exon 2
GAGAAGTACAATGTGGAGAAAGATGTTGCGGAGCAGATAAAGAAGGAGTTCGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctctcttttttttttaattacttgtcaatcattttggtacttgggttcactaggatttggggtttatgtgattgttctttagtagaaattgagt--
|||||||||| ||||||||| ||| | || ||| | |||||||||||||| || ||||  |||||  | |||||||||||||| |||||||| || |||||| |||  |    | |  ||   ||| ||     | |   ||| | ||   |  |  |  | ||     ||| |  || ||  |||  ||| || |   |  
GAGAAGTACAGTGTGGAGAAGGATATAGCTGAGAATATAAAGAAGGAGTTTGACAAGAAACATGGTGCTACTTGGCATTGCATTGTTGGTCGCAACTTTGgttagttccctcctctccttcgcttaatttctccttaaggtggcattt--ttcgatgaaaagttctcagttagggaatagtgatttcttagtaagtatatct

upper sequence: GLYMA15G16050.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv05s0077g02110.t01 (Vitis vinifera), 5'ss of exon 2
GAGAAGTACAATGTGGAGAAAGATGTTGCGGAGCAGATAAAGAAGGAGTTCGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctc------tcttttttttttaattacttgtca-atcattttggtacttgggttcactaggatttggggtttatgtgattgttctttagtagaaattgagt
|||||  ||| |||||||||| |  |||||||| | || ||||||||||||||||||| |||||| || || ||||||||||| || ||||| ||||| ||||| || |      || ||||| ||  | ||  ||| | |||| |||  |||| || |  | ||     ||        ||| |  |   ||  || | ||     
GAGAATCACAGTGTGGAGAAAAACATTGCGGAGTATATCAAGAAGGAGTTCGATAAGAAGCATGGACCTACCTGGCATTGCATTGTCGGTCGCAATTTCGgtaattcccgtttaatcatttttcttataatatatgtaatatcaatttc-tact-ggatagattaattgatgaatcagcggtggtgttctgttgttacatat-----

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|207745416|gb|GD716344.1|GD716344
EST:     CGATAAGAGGCATGGACCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|207702951|gb|GD686185.1|GD686185
EST:     CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|193538987|gb|FK498167.1|FK498167
EST:     CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAACCCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|14126477|gb|BG790915.1|BG790915
EST:     CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|208322836|gb|GE118243.1|GE118243
EST:     CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|193695451|gb|FK632075.1|FK632075
EST:     CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|193673479|gb|FK617704.1|FK617704
EST:     CGATAAGAGGCATGGACCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|254348898|gb|GR852577.1|GR852577
EST:     CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|208243692|gb|GE036991.1|GE036991
EST:     CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCNCATATGTGACTCATGAAACAAAACCACTTTGTTTATTT
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAA-CCACTTTGTTTATTT
EST: gi|207770306|gb|GD742340.1|GD742340
EST:     CGATAAGAGGCATGGACCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|207704819|gb|GD685522.1|GD685522
EST:     CGATAGGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
EST: gi|193514540|gb|FK471094.1|FK471094
EST:     CGATAAGAGGCATGGACCCACTTGGCATTGCATCGTTGGTCGTAATTTTG                         GCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctct ... ctttttgcagGCTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTATTTGGATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGAAGTACAATGTGGAGAAAGATGTTGCGGAGCAGATAAAGAAGGAGTTCGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaagtctctcttttttttttaattacttgtcaatcattttggtacttgggttcactaggatttggggtttatgtgattgttctttagtagaaattgagt

- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttggggt