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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagattcatcttttaccattgactatggatgtgctgacttcagtttgttgcatgcttgattagatgtctctgtttaatatttcatttattatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT

Basic information

species Vitis vinifera
transcript Vv18s0001g08980.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g08980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g36890.1 (Oryza sativa), 3'ss of exon 4
gtgagattcatcttttaccattgactatggatgtgctgacttcagtttgttgcatgcttgattagatgtctctgtttaatatttcattt-attatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT
       | || | |||  |||    |      | |     | |   ||| | |   |||     |||   ||| ||  | ||| |||| || || ||||  |   |||| ||      ||||||||||| ||||||||||| ||||  ||||| |||  ||| ||| |||| |||  | |    | |||||| |||||||||||||||||||||||  |  
-------ttatttgtta--attagaaaacctcatacgtgactgatcgtgtcgtacaattgg---aatggaactgatt--tcttttatttgatcatctcatctt---ctgtctga-----cagAATCCACCCTCTGTTCCAACATTGGCTGCTGTAAAACTGGCTAGCGGGCTAAGAGGTGCTAAGTCTATTGTGGATTGGCATAACTTTGGATATACACTGC

upper sequence: Vv18s0001g08980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G045979_T01 (Zea mays), 3'ss of exon 4
gtgagattcatcttttaccattgactatggatgtgctgacttcagtttgttgcatgcttgattagatgtctctgtttaatatttcatttattatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT
        |  || ||  ||| | ||    || | |      ||   || |   || |  |  ||  | |    ||| || |||  |||||  ||||                | |   |||||||||| ||||||||||| ||||  ||||| |||  ||||||||||||||||  | |   ||||||||||||||||||||| ||||||||||| ||  
-aagcccccccctcttgacatagcctcaaaattttcaa----caacatgctttgtgatgcaacaggaggcctaatttcattttttgtttatcttttc----------------tccaatagAATCCACCCTCTGTTCCAACATTGGCTGCTGTAAAACTGGCAAGCTGGCTGAGAGGTGCTAAATTTATTGTTGATTGGCATAAGTTTGGATATACATTGC

upper sequence: Vv18s0001g08980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G049484_T01 (Zea mays), 3'ss of exon 5
gtgagattcatcttttaccattgactatggatgtgctgacttcagtttgttgcatgcttgattagatgtctctgtttaatatttcatttattatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT
 |    ||  | ||||  ||| | ||    || | |  ||  || | | |   ||||   |  ||| | ||         ||||| ||| || |||          | ||| || |   |||||||||| |||||||||||  |||  ||||| |||  ||||||||||||||||  | |   ||||||||||||||||||||||||||||||||| ||  
-ttttgttttttttttgacatagcctcaaaattttc-aacaacattctttatgatgc--aacaagaggccta--------atttcgttttttgttta---------tattttctccaatagAATCCACCCTCTGTTCCAACACTGGCTGCTGTAAAACTGGCAAGCTGGCTGAGAGGTGCTAAATTTATTGTTGATTGGCATAACTTTGGATATACATTGC

upper sequence: Vv18s0001g08980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G381483_T01 (Zea mays), 3'ss of exon 1
gtgagattcatcttttaccattgactatggatgtgctgacttcagtttgttgcatgcttgattagatgtctctgtttaatatttcatttattatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT
  ||    |  || ||  ||| | ||    || | |  ||  || | | |   ||||   |  ||  | |    ||| || |||  |||||  ||||                | |   |||||||||| |||||||||||  |||  ||||| |||  ||||||||||||||||  | |   ||||||||||||||||||||| ||||||||||| ||  
-agaagcccccctcttgacatagcctcaaaattttc-aacaacattctttgtgatgc---aacaggaggcctaatttcatttttggtttatcttttc----------------tccaatagAATCCACCCTCTGTTCCAACACTGGCTGCTGTAAAACTGGCAAGCTGGCTGAGAGGTGCTAAATTTATTGTTGATTGGCATAAGTTTGGATATACATTGC

upper sequence: Vv18s0001g08980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G421470_T01 (Zea mays), 3'ss of exon 8
gtgagattcatcttttaccattgactatggatgtgctgacttcagtttgttgcatgcttgattagatgtctctgtttaatatttcatttattatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT
  ||    |  |  ||  ||| | ||    || | |  ||  || | | |   ||||   ||  || | ||         ||||||||| || |||          | ||| || |   |||||||||| |||||||||||  |||  ||||| |||  ||||||||||||||||  | |   ||| ||||||||||||||||| ||||||||||| || |
cagaagccccccacttgacatagcctcaaaattttc-aacaacattctttgtgatgc--aataggaagccta--------atttcattt-ttgttta---------tcttttctccaatagAATCCACCCTCTGTTCCAACACTGGCTGCTGTAAAACTGGCAAGCTGGCTGAGAGGTGCTAAATTAATTGTTGATTGGCATAAGTTTGGATATACATTGT

upper sequence: Vv18s0001g08980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G301877_T01 (Zea mays), 3'ss of exon 1
gtgagattcatcttttaccattgactatggatgtgctgacttcagtttgttgcatgcttgattagatgtctctgtttaatatttcatttattatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT
   ||   |  || ||  ||| | ||    || | |  ||  || | | |   ||||   |  ||  | |    ||| || |||  |||||  ||||                | |   |||||||||| |||||||||||  |||  | ||| |||  ||||||||||||||||  | |   ||||||||||||||| ||||| ||||||||||| ||  
-gaagccccccctcttgacatagcctcaaaattttc-aacaacattctttgtgatgc---aacaggaggcctaatttcatttttggtttatcttttc----------------tccaatagAATCCACCCTCTGTTCCAACACTGGCTGTTGTAAAACTGGCAAGCTGGCTGAGAGGTGCTAAATTTATTGTTGATTGACATAAGTTTGGATATACATTGC

upper sequence: Vv18s0001g08980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G40830.1 (Glycine max), 3'ss of exon 5
gtgagattcatcttttaccattgactatggatgtgctgacttcagtttgttgcatgcttgattagatgtctctgtttaatatttcatttattatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT
       ||||   | | ||  |   |  |||    ||||   ||    |  || | || |||  ||           || || |||   |||| ||||         ||||  | | |||||||| ||||| ||||||||| |||||||||| |||||||| |||||| ||||||||||| | ||| || | ||||||||||| ||||| |||||| || 
------atcattgataaacaaagcaaaatgat-cattgaccagagacgatgacaagtttaatttcatagt--------attttgcatcatttatctcat------tcctttgtctgtacagAATCCTCCTTCAGTTCCAACCCTGGTGGCTGTAAAATGGGCTAGCTGGTTGAGAAATTCATCTTTTGTTATAGATTGGCATAATTTTGGGTATACTCTAC

upper sequence: Vv18s0001g08980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G18130.1 (Glycine max), 3'ss of exon 4
gtgagattcatcttttaccattgactatggatgtgctgacttcagtttgttgcatgcttgattagatgtctctgtttaatatttcatttattatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT
                   ||    || |  |||  ||| |||| |      |   |  || |   |      | || || |   ||  || ||||     | |    |||| || | |||||||| ||||| ||||||||| ||||||| || |||||||| |||||| ||||||||||| | ||| || | ||||||||||| ||||| |||||| || 
----------------gttat--gttaagtgtgtaatga-ttcattgataaacgaaccagaatgactagagacggttgatttcatatgcataatttatc--tcattcctttgtttgtgcagAATCCTCCTTCAGTTCCAACCCTGGTGGCCGTAAAATGGGCCAGCTGGTTGAGAAATTCATCTTTTGTTATAGATTGGCATAATTTTGGGTATACTCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctctgtttaatatttcatttattatttcatgattaactgtttgcttcttcagAATCCACCTTCTGTTCCAACCTTGGTGGCTGTTAAATGGGCAAGCTGGCTGAGAAATTCAGCATTTATTGTTGATTGGCATAACTTTGGATATACTTTAT
                                 gattaac  putative branch site (score: 2)
                                       ctgtttgcttcttc  CT-rich tract
        tttaatatttcattta  TA-rich tract