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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTGCACATGGACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttcatattttctttcttatctttcatttctgcaaaagaaataaaataaaataaatatttgtctgcgaaatgatgatttctctgtcctcttcttcag

Basic information

species Glycine max
transcript GLYMA08G13300.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G13300.3 (Glycine max), 5'ss of exon 2
lower sequence: Vv05s0094g01550.t01 (Vitis vinifera), 5'ss of exon 2
GTTCTGCACATGGACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttcatattttctttcttatctttcatttctgcaaaagaaataaaataaaataaatatttgtctgcgaaatgatgatttctctgtcctcttcttcag
|||||||||||||| || ||||||||||| |||||||| || | ||| |||||||||||||||||| |       |   | ||  | |  |    |||  | |  |     ||| |   ||   ||||  |||   |  |  ||||||  |  |  |  | | |||
GTTCTGCACATGGATAGAAATGACTATTATGGAGGAGAGTCAAGTTCACTCAATCTTATTCAGgtcctcaaatgcacagttttgttaaagt---gttttgggactatttgcaaattcctat---tattcttcta-aatgtattgatttaacactttttatttacag

upper sequence: GLYMA08G13300.3 (Glycine max), 5'ss of exon 2
lower sequence: EFJ11673 (Selaginella moellendorffii), 5'ss of exon 2
GTTCTGCACATGGACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttt-tcatattttctttcttatctttcatttctgcaaaagaaataaaataaaataaatatttgtctgcgaaatgatgatttctctgtcctcttcttcag
|| || |||||||||||||| ||||| ||||| ||||||||  | || ||||||||| | ||||||| |   ||| |||        | ||| || | |||   |  |   |  |          |  |    |||                               
GTGCTACACATGGACAGGAACGACTACTACGGGGGAGAATCGGCGTCTCTCAATCTTGTCCAGgtctgtgcgtcacattagggcgtctgtctctc-tctctctgatcg---ttgatcg-------tgctctcttgcag-----------------------------
















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|17023050|gb|BM094084.1|BM094084
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|7590904|gb|AW706647.1|AW706647
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|18848745|gb|BM567857.1|BM567857
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|209700942|gb|BW683135.1|BW683135
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|213598655|gb|DB958183.1|DB958183
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|163927330|gb|EH040145.1|EH040145
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|151394091|gb|EV263962.1|EV263962
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|192328654|gb|FK023154.1|FK023154
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|208188144|gb|GD982254.1|GD982254
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|10842948|gb|BF066306.1|BF066306
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|151407978|gb|EV277793.1|EV277793
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|151411945|gb|EV281756.1|EV281756
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|192327650|gb|FK020669.1|FK020669
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|17021888|gb|BM092922.1|BM092922
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|120532856|gb|EH260989.1|EH260989
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|8826330|gb|BE210060.1|BE210060
EST:     CACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: CACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
EST: gi|213589680|gb|DB965840.1|DB965840
EST:     ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAG                         CTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT
genomic: ACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttc ... tcttcttcagCTTTGGAAGAGATTCAGGGGAGATGACAAGCCTCCTCCACATTTGGGAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCTGCACATGGACAGGAATGACTATTACGGAGGAGAATCCACTTCGCTCAATCTTATTCAGgtcttttttcatattttctttcttatctttcatttctgcaaaagaaataaaataaaataaatatttgtctgcgaaatgatgatttctctgtcctcttcttcag

- - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - -  GGAGAA