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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctatcagctgaactccttgagctctattatgtgttctgctttttattgttgctgcttgaaattaaccattttatgttttgtcatatagATCAAGACTGGCGCACCTTGCCGAAGTGAGCGGTTGGCCAAATATAATCAG

Basic information

species Vitis vinifera
transcript Vv17s0000g04540.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g04540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G22780.1 (Glycine max), 3'ss of exon 6
-----------------gttctatcagctgaactccttgagctctattat-gtgttctgctttttattgttgctgcttgaaattaaccattttatgttttgtcatatagATCAAGACTGGCGCACCTTGCCGAAGTGAGCGGTTGGCCAAATATAATCAG
                  || | |  | |||| |   |    |    ||  ||    |    | |  ||||    |||  |  |      |  |  || |||| |  |||| |||||||| || ||||||||||||||||| ||||| || |||||||||
gttctatatccttaatttttttttttggtgaatttaatctttttagctaccgtacattatactgtggtgttatcactttcatattgatgatccaaattctgtcctccagATAAAGACTGGTGCTCCTTGCCGAAGTGAGCGATTGGCAAAGTATAATCAG

upper sequence: Vv17s0000g04540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G23080.1 (Glycine max), 3'ss of exon 5
gttctatcagctgaactccttgagctctattatgtgttctgct-ttttattgttgctgcttgaaattaaccattttatgttttgtcatatagATCAAGACTGGCGCACCTTGCCGAAGTGAGCGGTTGGCCAAATATAATCAG
|||||||   || ||    || ||||  |  ||   || | || |  | || |  ||  || | ||| |  ||   |  || |||| |  |||| |||||||| || ||||||||||||||||| ||||| || |||||||||
gttctatatccttaatctttttagct--accatacattgtactgtggtgttatcact--ttcatattgattatccaa-attctgtcctccagATAAAGACTGGTGCTCCTTGCCGAAGTGAGCGATTGGCAAAGTATAATCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgctttttattgttgctgcttgaaattaaccattttatgttttgtcatatagATCAAGACTGGCGCACCTTGCCGAAGTGAGCGGTTGGCCAAATATAATCAG
                          aattaac  putative branch site (score: 2)
                                          ttttgtc  putative PPT
                         aaattaaccattttat  TA-rich tract