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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatgctcatctgccattattttcttttgttaaatttcattatagattttgaaatttgggagggagattgacaaatttcacttcaatctttcttatgtgttttagATGTGCGTCTTCCTCATTAAATGGTGAAGAACTTGTAAGGGATGGTGGGATCCAACTTCTTGCAACTCTTCTTTCCCGTTGCATGTGTGTAGTTCAACCA

Basic information

species Vitis vinifera
transcript Vv11s0016g04420.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G001895_T01 (Zea mays), 3'ss of exon 6
gtaaatgctcatctgccattattttcttttgttaa---atttcattatagattttga----aatttgggagggagattgacaaattt-cacttcaatctttcttatgtg------ttttagATGTGCGTCTTCCTCATTAAATGGTGAAGAACTTGTAAGGGATGGTGGGATCCAACTTCTTGCAACTCTTCTTTCCCGTTGCATGTGTGTAGTTCAACCA
||||  ||  |  ||   ||| ||| || |||| |   ||||  | | |  |  | |     ||||   | |    | | |   |||    |   || || ||  |||       |||||||||||| || || ||||||||||| ||||||||| ||||||||||||| ||||   |  | ||||| |||||||| || || |||||  | ||||| || 
gtaa--gccaacatggacttactttattgtgtttatacattttttaaaaactgctcactttgattttttaagatcttcgccttctttgttatctgatgttcctgttgtaatgttcttttagATGTGCATCATCTTCATTAAATGGAGAAGAACTTATAAGGGATGGTGGTATCCCCTTGTTGGCAACACTTCTTTCTCGCTGTATGTGCATTGTTCAGCCC

upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G049288_T01 (Zea mays), 3'ss of exon 12
gtaaatgctcatctgccattattttcttttgttaaa--tttcattatagattttgaaatttgggag----ggagattgacaaatttcact--tcaatctttcttatgtgtt------ttagATGTGCGTCTTCCTCATTAAATGGTGAAGAACTTGTAAGGGATGGTGGGATCCAACTTCTTGCAACTCTTCTTTCCCGTTGCATGTGTGTAGTTCAACCA
||||  ||| |       ||| ||| ||  ||| |    ||  ||| | | |    | ||||         ||  ||  |    ||   |     || || ||  |||  |      |||||||||| || || ||||||||||| ||||||||| ||||||||||||| ||||   |  | ||||| |||||||| || || |||||||| ||||| |||
gtaa--gctaacacagacttactttattgggtttatacattttttaaaaactgctcactttgattattttagatgttccccttctttgttatctgatgttcctgttgtaatgttatgttagATGTGCATCATCTTCATTAAATGGAGAAGAACTTATAAGGGATGGTGGTATCCCCTTGTTGGCAACACTTCTTTCTCGCTGTATGTGTGTTGTTCAGCCA

upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA17G12950.1 (Glycine max), 3'ss of exon 12
---------gtaaatgctcatctgccattattttcttttgttaaatttcattatagatt----ttgaaatttgggagggagattgacaaatttcacttcaatctttcttatgtgttttagATGTGCGTCTTCCTCATTAAATGGTGAAGAACTTGTAAGGGATGGTGGGATCCAACTTCTTGCAACTCTTCTTTCCCGTTGCATGTGTGTAGTTCAACCA
           || | ||    |   |||||     |  |||  || |  ||  |  |     ||| ||  |     ||  | |    |   | | || ||| |||| ||||    |||||||||| ||||| ||||| ||||||||||| || ||||||||||| ||  | || |||||||||||||||||||||||||||||| |||| ||||| |||
gtaagagtttcaagttctttcttaggattatgcaaataagtttcatgttctttcatgtccttgttgcaacattttgtggtaacttttgatccttaattgaat-tttcatatgg---ttagATGTGCATCTTCTTCATTGAATGGTGAAGAGCTGGTAAGGGATGGAGGAGTACATCTTCTTGCAACTCTTCTTTCCCGTTGCATGGGTGTTGTTCAGCCA

upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G08040.1 (Glycine max), 3'ss of exon 12
gtaaatgctcatctgccattattttcttttgttaaatttcattatagattttgaaatttgggagggagatt--gacaaatttcact-tcaatct---ttcttatgtgttttagATGTGCGTCTTCCTCATTAAATGGTGAAGAACTTGTAAGGGATGGTGGGATCCAACTTCTTGCAACTCTTCTTTCCCGTTGCATGTGTGTAGTTCAACCA
||||  |||       |||  || | | || |||   ||||| ||     |   |  ||   |   |  ||  |  || |||  || | ||| |   || | || || || |||||||||||||| ||||| ||||| ||||| |||||||| ||||| ||  | || |||||||||||||||||||||||||||||| |||| ||||| || 
gtaagagctt------cat-gttctttcttcttaggcttcatcattatgctaatatgtttaaaaacattttgtggtaacttttgctcttaatttgaattttcatatggtt-agATGTGCGTCTTCTTCATTGAATGGGGAAGAGCTTGTAAGAGATGGAGGAGTACATCTTCTTGCAACTCTTCTTTCCCGTTGCATGGGTGTTGTTCAGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaatttgggagggagattgacaaatttcacttcaatctttcttatgtgttttagATGTGCGTCTTCCTCATTAAATGGTGAAGAACTTGTAAGGGATGGTGGGATCCAACTTCTTGCAACTCTTCTTTCCCGTTGCATGTGTGTAGTTCAACCA
               gattgac  putative branch site (score: 3)
                                    tctttcttat  putative PPT
                    acaaattt  TA-rich tract