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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactaatttctcctggtttcctgagttggcttgtcccgggagtctggattttttcttacaggtttatgatgtcatgtgcattttggtcactgtagACACTGAATCGCATGTTTATCATCAATGCGGGTTCTGGATTTAGGCTATTGTGGAACACTGTTAAATCTTTTCTTGATCCCAAAACCACATCAAAGATCC

Basic information

species Vitis vinifera
transcript Vv04s0023g02400.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G37640.1 (Glycine max), 3'ss of exon 4
gtactaatttctcctggt-ttcctgagttggcttgtcccgggagtctggattttttcttacaggtttatgatgtcatgtgcat--tttggtcactgtagACACTGAATCGCATGTTTATCATCAATGCGGGTTCTGGATTTAGGCTATTGTGGAACACTGTTAAATCTTTTCTTGATCCCAAAACCACATCAAAGATCC
||  |  |||    |  | | | | |||||  || |   | || |  | ||| |   |||   ||   | || | |||| | |  ||   ||| || ||||  ||||||||||||| ||||||||||| ||||||||||||||| || |||||||||| || ||||| || |||||||| || |||||  |||| ||| 
gtgttttttttagtttttgtacttaagttgaattttattgtgaat--gaattatggatta---gtgagtaatattatgttcttgattgcttcattgcagACCTTGAATCGCATGTTCATCATCAATGCAGGTTCTGGATTTAGGATACTGTGGAACACCGTAAAATCATTCCTTGATCCTAAGACCACCGCAAAAATCA

upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G07660.1 (Glycine max), 3'ss of exon 4
gtactaatttc-tcctggtttcctgagttggcttgtcccgggagtctggattttttcttacaggtttatgatgtcatgtgcattttggtcactgtagACACTGAATCGCATGTTTATCATCAATGCGGGTTCTGGATTTAGGCTATTGTGGAACACTGTTAAATCTTTTCTTGATCCCAAAACCACATCAAAGATCC
||| |  |||  |  | ||    ||  |    || |     || |  | ||  |   |||| |  | ||  | |  | |  |||    ||| || ||||  ||||||||||||| ||||||||||| ||||||||||||||| || |||||||||| || ||||| || |||||||| || |||||  |||| ||| 
gtatttttttagtttttgtactatggttgaatttttattttgaat--gaatcatggattactgagtaatattatgttcttgattgct-tcattgcagACCTTGAATCGCATGTTCATCATCAATGCAGGTTCTGGATTTAGGATACTGTGGAACACCGTAAAATCATTCCTTGATCCTAAGACCACGGCAAAAATCA

upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G24670.1 (Glycine max), 3'ss of exon 4
gtactaatttctcctggtttcctgagttggcttgtcccgggagtctgg------------attttttcttacaggtttatgatgtcatgtgcattttgg--tcactgtagACACTGAATCGCATGTTTATCATCAATGCGGGTTCTGGATTTAGGCTATTGTGGAACACTGTTAAATCTTTTCTTGATCCCAAAACCACATCAAAGATCC
|||    ||| | || || |  ||  |  | ||  |     ||| | |            ||| |   || | |  || | || ||||     |  |||  |||||| ||||  |||| |||||||| ||||||||||| ||||||||||| ||  | ||||||||||| |||||||| || ||||| || || ||||||||||| ||||
gtat--gttttttcttgtattttgcttaaggtttacataaaagtttagttgcaaataaatattgtggattgctgagttgtaatatcataaaattggtggcttcactgcagACCTTGAACCGCATGTTCATCATCAATGCAGGTTCTGGATTCAGAATGTTGTGGAACACCGTTAAATCCTTCCTTGACCCAAAGACCACATCAAAAATCC

upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G05980.1 (Glycine max), 3'ss of exon 4
gtactaatttctcctggtttcct---gagttg------gcttgtcccgggagtctggattttttcttacaggtttatgatgtcatgtgcattttgg--tcactgtagACACTGAATCGCATGTTTATCATCAATGCGGGTTCTGGATTTAGGCTATTGTGGAACACTGTTAAATCTTTTCTTGATCCCAAAACCACATCAAAGATCC
|||    ||||| ||  ||| ||   || |||        ||     |  | |    | | |   |||| |  || | || ||||     |  |||  |||||| ||||  |||| |||||||| ||||||||||| ||||||||||| ||  | |||||||| || ||||| || || ||||| || || ||||||||||| ||||
gtatgtttttcttctattttgcttgagacttgcataaaagtttaattgcaaataaatactgtggattactgagttgtaatatcataaaattggtggcttcactgcagACCTTGAACCGCATGTTCATCATCAATGCAGGTTCTGGATTCAGAATGTTGTGGAATACCGTTAAGTCATTCCTTGACCCAAAGACCACATCAAAAATCC

upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G18180.1 (Arabidopsis thaliana), 3'ss of exon 5
gtactaatttctcctggtttcctgagttggcttgtcccgggagtctggatttt-ttcttacaggtttatgatgtcatgtgcattttggtcactgtagACACTGAATCGCATGTTTATCATCAATGCGGGTTCTGGATTTAGGCTATTGTGGAACACTGTTAAATCTTTTCTTGATCCCAAAACCACATCAAAGATCC
|| | | ||| |  |  | || | | |||| || ||      |  ||  | ||  |||  ||  ||| |  | |||| |   | |   |  ||  ||||  ||||  | ||||||||||||||||| || || ||||| ||| | ||||||||||| ||||| ||||| ||||| || || || ||| |||||||||
gtgc-actttatattattatcatca-ttggtttatcttttatgaatgattcttgctctctcaacttttttttttcatttatctgtcattggct-cagACCTTGAACAGGATGTTTATCATCAATGCTGGCTCAGGATTCAGGATGTTGTGGAACACGGTTAAGTCTTTCCTTGACCCAAAGACTACAGCAAAGATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtctggattttttcttacaggtttatgatgtcatgtgcattttggtcactgtagACACTGAATCGCATGTTTATCATCAATGCGGGTTCTGGATTTAGGCTATTGTGGAACACTGTTAAATCTTTTCTTGATCCCAAAACCACATCAAAGATCC
            ttcttac  putative branch site (score: 2)
       attttttctta  TA-rich tract