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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcttatttgaaatttgtttgaagcccgttttaagattgcagactgtatatcatttattggcataacatagattcgaggttttatatgaaatcctttaccaaaatgtagGCTGTCTGGGCTTTGGGAAATGTTGCTGGTGACTCACCCAGATGCCGTGATCTTGTCCTTGGTCATGGGGCCTTGATTCCATTGCTAGCACAGTTGAATG

Basic information

species Vitis vinifera
transcript Vv05s0077g01430.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 4
gtgcttatttgaaatttgtttgaagcccgttttaagattgcagactgtatatcatttattggcataacatagattcgaggttttatatga----aatcctttaccaaaa--tgtagGCTGTCTGGGCTTTGGGAAATGTTGCTGGTGACTCACCCAGATGCCGTGATCTTGTCCTTGGTCATGGGGCCTTGATTCCATTGCTAGCACAGTTGAATG
||      |       ||  |       ||  |     | |   ||  |||| ||||  ||    |    |   | |  ||| |  |||     |   ||| |  ||||  || ||||||| ||||| ||||| |||||||||||||| || || |  |||||||| ||||| ||||   |||| || ||| | ||  ||||||||||||||||||
gtatccgatcatctcctgacttgtctttgtgctttctgtacttccttgatattattt--tgattgagtgcattgttggagttattaatgtttttacctcttgaaaaaaaattgaagGCTGTATGGGCATTGGGCAATGTTGCTGGTGATTCCCCTAAGTGCCGTGACCTTGTTCTTGCCAATGGTGCATTGCTGCCTCTGCTAGCACAGTTGAATG

upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G15480.1 (Glycine max), 3'ss of exon 4
gtgcttatttgaaatttgtttgaagcccgttttaagattgcagactgtatatcatttattggcataacatagattcgaggttttatatgaaatcctttaccaaaatgtagGCTGTCTGGGCTTTGGGAAATGTTGCTGGTGACTCACCCAGATGCCGTGATCTTGTCCTTGGTCATGGGGCCTTGATTCCATTGCTAGCACAGTTGAATG
  |  |||| || |  ||  ||  |   ||  | | ||| |    | |  |   || |  |   |  | |  || | |  | ||   |||||| |             |||| || ||||| ||||||||||||||||||||||| || || || ||||||||||| ||| |||| || ||| |||| |||||| | || ||||||||||
--gtatatt-gatacatgaatgtggta-gtgctgaaatttcttgttttggaattttgaccgagcttgcctgaatactatatctt---tgaaattcc------------agGCAGTATGGGCGTTGGGAAATGTTGCTGGTGACTCCCCAAGGTGTCGTGATCTTGTTCTTAGTCACGGTGCCCTGATCCCATTGTTGGCCCAGTTGAATG

upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 4
gtgcttatttgaaatttgtttgaagcccgttttaagattgcagactgtatatcatttattggcataacatagattcgaggttttatatgaaatcctttaccaaaatgtagGCTGTCTGGGCTTTGGGAAATGTTGCTGGTGACTCACCCAGATGCCGTGATCTTGTCCTTGGTCATGGGGCCTTGATTCCATTGCTAGCACAGTTGAATG
                    |       |||| ||     | |    | ||  | || ||    | || |  | |  |  ||        ||| || |   ||| |  |||| || ||||||||||||||||||||||||||||| || || ||  | ||||| || ||  | || || ||| |  | ||| || | || ||||||||||
-------------------gtatgttatgtttgaatgcatctgtagctgtacaactttttaattttac-tgaactgaaaatt--------aattctctg--aaattccagGCAGTGTGGGCTTTGGGAAATGTTGCTGGTGACTCCCCTAGGTGTAGAGATCTAGTGCTCAGCCAAGGTGCCCTCGTCCCACTGTTGGCCCAGTTGAATG

upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G37180.1 (Glycine max), 3'ss of exon 5
gtgcttatttgaaatttgtttgaagcccgttttaagattgcagactgtatatcatttattggcataacatagattcgaggttttatatgaaatcctttaccaaaatgtagGCTGTCTGGGCTTTGGGAAATGTTGCTGGTGACTCACCCAGATGCCGTGATCTTGTCCTTGGTCATGGGGCCTTGATTCCATTGCTAGCACAGTTGAATG
                    |       |||| ||    || |    | ||  | || ||    | || |  | |  |  ||        ||| || |   ||| |  |||| || ||||||||||||||||||||||||||||| || || ||  | ||||| || ||  | ||||| ||  |  | ||| || | || ||||||||||
-------------------gtatgttatgtttgaatgcagctgcagctgtacaactttttaattttac-tgaactgaaaatt--------aattctctg--aaattccagGCAGTGTGGGCTTTGGGAAATGTTGCTGGTGACTCCCCTAGGTGTAGAGATCTGGTGCTCAGCCATGGTGCTCTCGTCCCACTGTTGGCCCAGTTGAATG

upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S165_54V6.1 (Physcomitrella patens), 3'ss of exon 4
gtgcttatttgaaatttgtttgaagcccgttttaagattgcagactgtatatcatttattggcataacatagattcgaggttttatatgaaatcctttaccaaaatgtagGCTGTCTGGGCTTTGGGAAATGTTGCTGGTGACTCACCCAGATGCCGTGATCTTGTCCTTGGTCATGGGGCCTTGATTCCATTGCTAGCACAGTTGAATG
||      |||  || | || |      ||  |    |||  ||||| || ||||         |      || | ||   || ||     || || |   ||     ||||||| |||||||||||||| ||||||||||| || || | ||||||||| |||||  | ||||||||||||||||| ||  |||| || ||| | |  |
gtttcacattgtgatct-ttagctaggtgtcatgcttttgtcgactggatttcatgctgaccagttgtgccgacttgactgttaat-----attctctttgaa----cagGCTGTATGGGCTTTGGGAAACGTTGCTGGTGATTCGCCGAAATGCCGTGACCTTGTTTTAGGTCATGGGGCCTTGATGCCTCTGCTTGCGCAGCTTACGG

upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S63_171V6.1 (Physcomitrella patens), 3'ss of exon 4
gtgcttatttgaaatttgtttgaagcccgttttaagattgcagac-tgtatatcatttattggcataacatagattcgaggttttatatgaaatcctttaccaaaatgtagGCTGTCTGGGCTTTGGGAAATGTTGCTGGTGACTCACCCAGATGCCGTGATCTTGTCCTTGGTCATGGGGCCTTGATTCCATTGCTAGCACAGTTGAATG
      ||         || | |     | ||   | ||  | || || |  || |   ||  |  | | |          |||   || |   | | | ||    |  ||||||| ||||||||||| || || ||||||||||| || | |||||| |||||||| ||||||||||| || || || || ||||| || ||| | |  |
-----cataacggtccagtgtaacaattgctt---gtttaaaaacgtgaacgtcgtactttatctgagcttctgcatctaatttctaataatgccttgtcccg---tccagGCTGTTTGGGCTTTGGGCAACGTCGCTGGTGACTCTCCTAAATGCCGGGATCTTGTACTTGGTCATGGAGCTTTAATGCCTTTGCTCGCTCAGCTTACCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattggcataacatagattcgaggttttatatgaaatcctttaccaaaatgtagGCTGTCTGGGCTTTGGGAAATGTTGCTGGTGACTCACCCAGATGCCGTGATCTTGTCCTTGGTCATGGGGCCTTGATTCCATTGCTAGCACAGTTGAATG
      gcataac  putative branch site (score: 3)
                                     tcctttacc  putative PPT
                         ttttatatgaaat  TA-rich tract