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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaggcatgaagtttaattacttgaatatgatattgtttttttttacaattgaagaagaaacttttaatgctcctccagttacaatcaagttcctgaagcatttatatgtttactatgtcagAGGGATGTGCCCGCTCGCTATCTTCTTCGACTGGGCCAAGGAGAACAAGAACTTGCAACTGATCTTGACTTCAGCCGTCAAGGACGTGTTAATGCTATGC

Basic information

species Vitis vinifera
transcript Vv13s0019g00880.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os03g26960.1 (Oryza sativa), 3'ss of exon 12
gtatgaggcatgaagtttaattacttgaatatgatattgtttttttttacaattgaagaagaaacttttaatgctcctccagttacaatcaagttcctgaagcatttatatgtttactatgtcagAGGGATGTGCCCGCTCGCTATCTTCTTCGACTGGGCCAAGGAGAACAAGAACTTGCAACTGATCTTGACTTCAGCCGTCAAGGACGTGTTAATGCTATGC
          | |  || || ||  |    || |  | | |  | | ||||     ||  |      |  ||| || |          | || || ||||    ||||  |||||  |    ||||| |||||||| ||| | || |||||||| || || || || ||||||||  | ||||||||||| || || ||||||||||| ||||| ||||||||||
-------atctcatattgaaatatatcctaatcacctagatgctctctacat----agttggcttgctacatgttctttt--------taaacttgctgat---tttacttgtttctt---ccagAGAGATGTGCCTGCTAGGTACCTTCTTCGTCTTGGTCAGGGTGAACAAGAGTTGGCAACTGATCTCGATTTTAGCCGTCAAGGTCGTGTCAATGCTATGC

upper sequence: Vv13s0019g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA0048S00340.1 (Glycine max), 3'ss of exon 11
gtatgaggcatgaagtttaattacttgaatatgatattgtttttttttacaattgaagaagaaacttttaatgctcctccagttacaatcaagttcctgaagcatttatatgtttactatgtcagAGGGATGTGCCCGCTCGCTATCTTCTTCGACTGGGCCAAGGAGAACAAGAACTTGCAACTGATCTTGACTTCAGCCGTCAAGGACGTGTTAATGCTATGC
                          |  | | |   ||  |||  | ||||||     | ||| | ||  |     | |||    |    |     ||   |||||  ||  ||  | | | |||| ||||| || || || |||||||||||||| || |||||||||||||| || |||||||||||||| || ||||| ||||| ||||||||||| ||||
----------------------tgagggttctaactctgagtttagtaacaatttgttgataaattcttgctttctatacaga---agcttatcatttgtttcattttaatcctttttgttttagAGAGATGTTCCTGCACGTTATCTTCTTCGACTTGGTCAAGGAGAACAAGAGCTAGCAACTGATCTTGATTTTAGCCGGCAAGGTCGTGTTAATGCAATGC

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

upper sequence: Vv13s0019g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT2G38770.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatgaggcatgaagtttaattacttgaatatgatattgtttttttttacaattgaagaagaaacttttaatgctcctccagttacaatcaagttcctgaagc---at-ttatatgtttactatgtcagAGGGATGTGCCCGCTCGCTATCTTCTTCGACTGGGCCAAGGAGAACAAGAACTTGCAACTGATCTTGACTTCAGCCGTCAAGGACGTGTTAATGCTATGC
                   | || | | || |    ||| |||| ||    ||  | | ||  |  ||||||| |     |  |   |   |||||    ||    ||  || |||  |  | | |||||||||||| || || || ||||| |||||  |||| ||||| |||||||| ||||| |||||||||||||| ||| | ||||| ||||| ||||| ||||
-----------------gtactattggcatctt-cgttgcttttgttatttat--atggagtcatatttaatgtttt---atgtttgacggagttctgagagtcaaatgctacatggatcttttttcagAGGGATGTACCAGCGCGGTATCTACTTCGTTTGGGTCAAGGTGAACAAGAGCTTGCCACTGATCTTGACTTTAGCAGACAAGGCCGTGTCAATGCCATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgctcctccagttacaatcaagttcctgaagcatttatatgtttactatgtcagAGGGATGTGCCCGCTCGCTATCTTCTTCGACTGGGCCAAGGAGAACAAGAACTTGCAACTGATCTTGACTTCAGCCGTCAAGGACGTGTTAATGCTATGC
 ttttaat  putative branch site (score: 3)
                                 atttatatgtttacta  TA-rich tract