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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgttgctgatagattgttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT

Basic information

species Vitis vinifera
transcript Vv05s0020g04190.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 14
gtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgttgctgatagattgttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
||||   |      |    |   ||| || |  |  | |  |||||  |  |     | ||     ||  | |  || |||   ||          || |||| || || ||||| |||||||| ||||| ||||| ||||| |||||||| ||||||||||||||  | || || || || |||||| | ||||||||||
gtaaggct-----gagcatttctatggttacatggccatcattttttttttaac--ctctt-----accctct--ctaataagctgca--------tgcagGTTGTTGCATCTCAAGACTGGCCAGAAGTTACAAAGTATGCTGGATTGGTGTGTGCTCAGGCTCATCGGCAAGAGCTCATTCAAGATCTTTACAAGACAT

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 13
gtaaaatttctt--taactgatatca-tgcttcctagaaccttgtttttcctaaagtggttattgagg----aactttgttgctgatagattgttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
||||   |  ||  ||  |   ||   ||| ||       | | ||  ||   |  ||   ||    |       ||||    |     | |  | |  |  |   |||| || |||||||| || ||||| ||||| ||||| ||||| |||||||||||||||||||| ||| | || || || || || ||  | ||||| ||||
gtaaggctcattactactttccatttctgcatcaacatgtcatattcatcaagatatgcacatctttgtcttggttttggacttatctcactcatatgctgctgacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAGGACCTTTACAAAACAT

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 14
gtaaaatttctttaactgatatcatgcttcc--tagaaccttgtttttcctaaagtggttat-tgaggaactttgttgctgatagattgttgtat-------taattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
||||   |  ||       |  |||   | |   |  |  |    ||    |   |    |  |    |  |||||| |  |   ||   | |         |  |   |||| || |||||||| || ||||| ||||| ||||| ||||| |||||||||||||||||||| ||| | || || || || |||||  | ||||| ||||
gtaaggctcgttactactttgccatttcttcatcaatatgtcacattcatcaggatatgcacatccttatttttgttccgaacttatctgtctgcctctttctgctcacagGTTGTTGCTTCTCAAGATTGGCCAGAAGTTACAAAGTATGCTGGATTGGTTTGTGCTCAGGCACACCGGCAAGAGCTCATTCAAGACCTTTACAAAACAT

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 6
gtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgttgctgatagattgttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
      |    |||  ||||  |||   || |      ||  |||| |   ||||||| |||||           ||||||   | | |    |   |||||||||||| ||||| |||||||||||| | ||||||||||| || || || |||||||| ||||| ||||||||||| ||||||||||| ||||| |  |
-----gtacgctta--tgat-ccatttgtcttgattttttaattttgc---agtggttcttgag-----------ctgatat-ctatcgctcaatacgtagGTAGTAGCATCTCAAGACTGGCCTGAACTGACAAAATATGCTGGTTTAGTGTGTGCTCAAGCTCATAGACAGGAACTCATACAAGATTTGTACAAAATGT

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 14
gtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgttgctgata--gattgttgtatt---aattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
           |  ||| ||       ||      |  || ||  |  |  | |||||   ||||   || || |||||||   |||||   |||   |  | ||||| ||||| ||||| |||||||||||||| || |||||||| || || || |||||||| ||||| ||||||||||| ||||||||||| ||||| |  |
----------gtacacttatgatccatttgtcttgatttt-ttaatattgcaatggttcacgagggttttggtagctgatatctattgtgcaattgcaatctatagGTTGTAGCATCTCAAGACTGGCCTGAAGTGACGAAATATGCCGGTTTAGTGTGTGCTCAAGCTCATAGACAGGAACTCATACAAGATTTGTACAAAATGT

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 15
gtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgttgctgatagattgttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
     |||| | ||| | || | ||  ||  | |     |    || | |   | || |||||||   || |   |||||| ||  ||     |  | |||||||| || || ||||||||||| ||||| ||||||||||| || || || |||||||| ||||| || |||||||| ||||||||||| ||||| || |
---gtatttttctaatttat-ttatctttatttgttttatagcattgcga---tagtcattgagggttttggaaactgata-atgtttacccaatctatagGTAGTCGCATCCCAGGACTGGCCCGAAGTGACAAAATATGCCGGTTTAGTATGTGCTCAAGCTCATAGGCAGGAACTTATACAAGATTTGTACAAAACTT

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 15
gtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgttgctgatagattgttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
     | || | ||| | || | ||  ||  | |     |    || |   | | || || ||||   || |   || ||| ||  ||     |  |  |||||||||| || ||||||||||| ||||| ||||||||||| || ||||| || || || ||||| || |||||||| ||||||||||| ||||| || |
---gtacttatctaatttat-ttatctttatttgttttatagcattgc---aatagtcatcgagggttttggaaactcata-atgtttacccaatctacagGTAGTAGCATCCCAGGACTGGCCCGAAGTGACAAAATATGCCGGTTTGGTATGCGCCCAAGCTCATAGGCAGGAACTTATACAAGATTTGTACAAAACTT

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 14
gtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgttgctgatagattgttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
||||   || |  | ||  ||||| |  |  | || | | |        ||| |  ||||      |||  |||  |      || || | ||   | ||||| || |||||||| |||||||||||||| ||||||||||| || || ||||||||||| |||||||| || ||||| ||||||||||| || || ||||
gtaaggattataca-cttttatcaag--tagtggagcatcg--------aaattcattat------actcagttttt------ttcttttgttttctttagGTTGTTGCTTCTCAAGACTGGCCTGAAGTGACAAAATATGCGGGTTTAGTTTGTGCTCAAGCTCACAGGCAAGAACTTATACAAGATTTGTATAAAACAT

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: EFJ14095 (Selaginella moellendorffii), 3'ss of exon 14
gtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgt-tgctgatagatt-gttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
                                                  |||||     |       || || ||    || ||  | |||     ||  |||| || ||||||||||| ||||| |||||||| ||||| |||||  | || || ||||| ||||||||||| ||  |||| |||||| | || || ||||
------------------------------------------------gtaagtgtacgatttttcttttcgtgtgtctctaaataagctgtgcctgttacagGTTGTCGCTTCTCAGGATTGGCCAGAAGTCACGAAATACGCAGGTCTAGTGTGCGCTCAAGCTCACAGACAAGAGTTGATCCAAGATCTGTATAAAACAT

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: EFJ19863 (Selaginella moellendorffii), 3'ss of exon 14
gtaaaatttctttaactgatatcatgcttcctagaaccttgtttttcctaaagtggttattgaggaactttgttgctgatagattgttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT---------------
                                                      | || ||       | |||  || |   |  | ||  |   ||   ||| || ||||||||||| ||||| |||||||| ||||| |||||  | || || ||||| ||||||||||| ||  |||| |||||||| || || ||||               
--------------------------------------------------gtacgatttttcttttcgtgtgtctctaaataa--gctgcct--gttaccggttgtcgcttctcagGATTGGCCAGAAGTCACGAAATACGCAGGTCTAGTGTGCGCTCAAGCTCACAGACAAGAGTTGATCCAAGATTTGTATAAAACATGGGTTGATCCTCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctaaagtggttattgaggaactttgttgctgatagattgttgtattaattgtagGTAGTAGCTTCTCAGGACTGGCCTGAAGTCACAAAATATGCAGGATTGGTTTGTGCTCAGGCTCACAGACAGGAACTGATACAAGATTTATACAAGACAT
                                           tattaat  putative branch site (score: 2)
                                    attgttgtattaatt  TA-rich tract