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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgaggattctaatctgagcttagtaacaatttattgataaattcttgctttctacactgaagtttatcatttgtttcattttaatcctttttgttttagAGAGATGTTCCTGCACGTTATCTTCTTCGACTTGGTCAAGGAGAACAAGAGCTAGCAACTGATCTTGATTTTAGCCGGCAAGGTCGTGTTAATGCAATGC

Basic information

species Glycine max
transcript GLYMA20G00260.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G00260.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os03g26960.1 (Oryza sativa), 3'ss of exon 12
-ttgaggattctaatctgagcttagtaacaatttattga-taaattcttg-ctttctacactgaagtttatcatttgtttcattttaatcctttttgttttagAGAGATGTTCCTGCACGTTATCTTCTTCGACTTGGTCAAGGAGAACAAGAGCTAGCAACTGATCTTGATTTTAGCCGGCAAGGTCGTGTTAATGCAATGC
 |     |||  ||| |   || |  | | |  |  |   || ||  ||| ||| ||||| ||   ||| | |  |   | ||||||  | | ||| ||  |||||||||| |||||  | || |||||||| |||||||| || ||||||||| | ||||||||||| ||||||||||| ||||||||||| ||||| ||||
atctcatattgaaatatatcctaatcacctagatgctctctacatagttggcttgctaca-tgttctttttaaacttgctgatttta--cttgtttcttccagAGAGATGTGCCTGCTAGGTACCTTCTTCGTCTTGGTCAGGGTGAACAAGAGTTGGCAACTGATCTCGATTTTAGCCGTCAAGGTCGTGTCAATGCTATGC

upper sequence: GLYMA20G00260.1 (Glycine max), 3'ss of exon 11
lower sequence: AT2G38770.1 (Arabidopsis thaliana), 3'ss of exon 11
----ttgaggattctaatctgagcttagtaacaatttattgataaattct-tgctttctacactgaagtttatcatttgtttcatttta-atcctttttgttttagAGAGATGTTCCTGCACGTTATCTTCTTCGACTTGGTCAAGGAGAACAAGAGCTAGCAACTGATCTTGATTTTAGCCGGCAAGGTCGTGTTAATGCAATGC
    |   ||  |||    ||   ||  ||   || |   |  | |||   || ||| |        |  |       ||   ||  || ||   | || ||| |||| ||||| || || || ||||| |||||  | |||||||| ||||||||||| || ||||||||||| |||||| | ||||| ||||| ||||| ||||
gtactattggcatcttcgttgcttttgttatttatatggagtcatatttaatgttttatgtttgacggagttctgagagtcaaatgctacatggatcttttttcagAGGGATGTACCAGCGCGGTATCTACTTCGTTTGGGTCAAGGTGAACAAGAGCTTGCCACTGATCTTGACTTTAGCAGACAAGGCCGTGTCAATGCCATGC

upper sequence: GLYMA20G00260.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv08s0056g01110.t01 (Vitis vinifera), 3'ss of exon 11
------------------------------ttgaggattctaatctgagcttagta---acaatttattgataaattctt---gctttctacactgaagtttatcatttgtttcattttaatcctttttgttttagAGAGATGTTCCTGCACGTTATCTTCTTCGACTTGGTCAAGGAGAACAAGAGCTAGCAACTGATCTTGATTTTAGCCGGCAAGGTCGTGTTAATGCAATGC
                               |||   |  || | | |  ||  |    |||||| |   | ||| | ||   ||||       |  | |  |     |    |||||  ||  ||  | | | |||| ||||| ||||| || |||||||||||||| ||||||||||||||||| || || ||||||||||| |||||||| ||||| || |||||||| ||||
gtatgaggcattaagtttaattacttgaagatgatattgttattattatttttatttttacaattgaagaagaaacttttaatgcttctccagttagaatcaagttcctaaagcatttatatgtttactatgtcagAGGGATGTGCCTGCTCGCTATCTTCTTCGACTGGGTCAAGGAGAACAAGAACTTGCGACTGATCTTGACTTTAGCCGTCAAGGACGCGTTAATGCTATGC

upper sequence: GLYMA20G00260.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0019g00880.t01 (Vitis vinifera), 3'ss of exon 11
----------------ttgaggattctaatctgagcttagta------acaatttattgataaattctt---gctttctacactgaagtttatcatttgtttcattttaatcctttttgttttagAGAGATGTTCCTGCACGTTATCTTCTTCGACTTGGTCAAGGAGAACAAGAGCTAGCAACTGATCTTGATTTTAGCCGGCAAGGTCGTGTTAATGCAATGC
                || |  | |  ||| |||  ||  |       |||||| |   | ||| | ||   |||        |  | |  |     ||   |||||  ||  ||  | | | |||| ||||| || || || |||||||||||||| || |||||||||||||| || |||||||||||||| || ||||| ||||| ||||||||||| ||||
gtatgaggcatgaagtttaattacttgaatatgatattgtttttttttacaattgaagaagaaacttttaatgctcctccagttacaatcaagttcctgaagcatttatatgtttactatgtcagAGGGATGTGCCCGCTCGCTATCTTCTTCGACTGGGCCAAGGAGAACAAGAACTTGCAACTGATCTTGACTTCAGCCGTCAAGGACGTGTTAATGCTATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctttctacactgaagtttatcatttgtttcattttaatcctttttgttttagAGAGATGTTCCTGCACGTTATCTTCTTCGACTTGGTCAAGGAGAACAAGAGCTAGCAACTGATCTTGATTTTAGCCGGCAAGGTCGTGTTAATGCAATGC
                                  ttttaat  putative branch site (score: 3)
                                        tcctttttgtttt  CT-rich tract
                  tttatcatttgtttca  TA-rich tract