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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgatcttgaattctattgtttatttctttactttaacaagaatctactcgtgtttctcatggtctaattacttcatattacttgaaatcttgaagGTTAAGGACAATCCTTCTGGTGACTTTAAAAGTATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCCGATCAGGATCATGGTTGGCAAGTTTCTG

Basic information

species Vitis vinifera
transcript Vv09s0054g01220.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G24160.2 (Glycine max), 3'ss of exon 3
--------gtttgatcttgaattctattgtttatttctttactttaacaagaatctactcgtgtttctcatggtctaattacttcatattacttgaaatcttgaagGTTAAGGACAATCCTTCTGGTGACTTTAAAAGTATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCCGATCAGGATCATGGTTGGCAAGTTTCTG
          |||||    || | || ||||| ||    || || ||||| |   |  | || ||| ||  |   |||| |  |   |||  |    || ||  |||| || || ||||||  ||| || |||||||||||||| || || ||||| || ||||| ||||||||||| ||||| |||||||| |||||||||||||
atatttataattgattactaaat-tagtgtttgttagacta-ttgaacaatatgtttgttgtttttatctagtaataatgaactggcattctt----attttatagGTAAAAGATAATCCTCTTGGAGATTTTAAAAGTATGTATCGTCATATTTCTAAAGGATCTTGGACATTCTCTGATCAAGATCATGGATGGCAAGTTTCTG

upper sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G00330.1 (Glycine max), 3'ss of exon 9
-----gtttg-atcttgaattctattgtttatttctttactttaacaagaatctactcgtgtttctcatggtctaattacttcatattacttgaaatcttgaagGTTAAGGACAATCCTTCTGGTGACTTTAAAAGTATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCCGATCAGGATCATGGTTGGCAAGTTTCTG
     || |  |||| | | |       |    | || | |||       |   |      |||   |   | | || | ||   |||  |    || ||  |||| ||||| ||||||| ||| || |||||||||||| | || || ||||| || || || ||||||||||| ||||| || ||||| |||||||||||||
ttgttgtctatatctagtagtaatgaactagcattttcattttgtaggcgaaggataacccttttggagatttttatgaattggcattctt----attttatagGTGAAGGATAATCCTTTTGGAGATTTTAAAAGTATGCATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGACCATGGATGGCAAGTTTCTG

upper sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G27660.1 (Glycine max), 3'ss of exon 2
-----gtttgatcttgaattctattgtttatttctttact--ttaacaag-aatctactcgtgtttctcatggtctaattacttcatattacttgaaatcttgaagGTTAAGGACAATCCTTCTGGTGACTTTAAAAGTATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCCGATCAGGATCATGGTTGGCAAGTTTCTG
      || ||    ||||| || |||| |||   ||| |  |||| | | ||| | || |  || |  | |   |||| |  | | | |  |    || |   |||| |||||  | ||||  || || ||||| |||||||| || || ||||| || || || ||||||||||| ||||| ||||| || |||||||||||||
tttaaattggacgacgaatt-tagtgttcattagattattgattaatatgtaatttgctagctttacata-gcagtaatgaactaacactctt----atttcacagGTGAAGGATGACCCTTTAGGAGATTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTG

upper sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G27620.1 (Glycine max), 3'ss of exon 6
--------gtttgatcttgaattctattgtttatttctttactttaacaagaatctactcgt--gtttctcatggtc-taattacttcatattacttgaaatcttgaagGTTAAGGACAATCCTTCTGGTGACTTTAAAAGTATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCCGATCAGGATCATGGTTGGCAAGTTTCTG
          ||||   | || | || |||| |||   ||||||    |||| | |  | ||  | ||  ||| ||  |||| | || | |||  |    || |  ||||| |  ||||| ||||| || || ||||| |||||||| || || ||| | || || || ||||||||||| ||||| || ||||| |||||||||||||
taatttataattgactattaagt-tagtgttcattagattactt----aagagtatgtttgttagctttacatagtagtaatgaattgacattctt----atttcaaagGTGAGAGACAACCCTTCAGGAGATTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctactcgtgtttctcatggtctaattacttcatattacttgaaatcttgaagGTTAAGGACAATCCTTCTGGTGACTTTAAAAGTATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCCGATCAGGATCATGGTTGGCAAGTTTCTG
                     gtctaat  putative branch site (score: 3)
                        taattacttcatatta  TA-rich tract