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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatgtatttatatttcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

Basic information

species Vitis vinifera
transcript Vv09s0054g00030.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
--------gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatgtatttatatttcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
         | | |     |   | ||   |  || ||  ||     || | ||| | |||  || |  || | | || |  |||  |  |||  || |||||||||||| |||||||||||||| || |||||||| ||||||||||| || |||||| | |||||||| ||||   |  | ||  |||||    |  | || 
attttaatttgaattgtctagggtctgaaatagttcaagcccct---aatgactagagttgattattgatcttct-tactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG

upper sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os08g13690.1 (Oryza sativa), 3'ss of exon 5
gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattc-atttg---taatgtatttatatttcaaatatt-ttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
     | ||  | |   | | |  |||   | | | | | |    |     | | || | ||| |  ||    |||  | |    | ||   | |  | |||||||| ||  ||||||||||  | |||||||| ||||||||||| ||||||||| | ||||||||||| | | |  |     |||||    |  | || 
-gggttctcatagtgactttatagcttttgagcttgttagatacttggttatttttaatgttctacctggctgaatcaagtaccttctctggtgtgatcagGTACCCAAACCTGAAGAGTGTCAGGGAATTGATCTACAAGAGGGGTTACGGAAAGCTCAACAAGCAGAGGATTCCTCTTCAGAACAACAAAGTCATTGAG

upper sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G094051_T03 (Zea mays), 3'ss of exon 5
gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatg----tatttatatttcaaatatt--ttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
  ||  | |  |          | | |  | |  |      |   ||   | ||     ||    || | |||    || | |  |  ||||| ||  |||||||||| || |||||||||||  | || ||||| ||||||||||| || |||||| ||||||||||||| |   |  || || |||||    |  | || 
--aaaaaacataaagcagacagtgcctggagtagttcctgcatcttagcttggtgactcatctgcttctgatgaccttactaaagtggcaaatcttgtttagGTACCCAAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAAGCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G868433_T02 (Zea mays), 3'ss of exon 5
gtaagtatc-tcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatgtatttat--atttcaaatat----tttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
  ||  ||    ||  |  |    |||  |  |  | ||     |||   ||||  |         || | |||   ||    |  | | ||||    ||||||||||| || |||||||||||  | || ||||| ||||||||||| ||||||||  ||||||||||||| |   |  || |  |||||    |  | || 
-aaaacattgctacaataggagagtctggaggtagt-tactgcatctttgcttg-gtgactccagcttctcatgaccttgctaaactgatatatcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGGAAAACTGAACAAGCAGAGGATCCCTCTGTCTAACAACCAAGTCATCGAG

upper sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G344279_T01 (Zea mays), 3'ss of exon 5
gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatg----tatttatatttcaaatatt--ttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
   |  |   ||       |  |   |  | |  |      |   ||   | ||     ||    ||   |||    || | |  |  ||||| ||  |||||||||| || ||||| |||||  | || ||||| ||||||||||| || |||||  ||||||||||||| |   |  || || |||||    |  | || 
--gaaaaaagcataaagcatactgtctggagtagttcctgcatcttagcttggtgactcatctgcttccgatgaccttactaacgtggcaaatcttgtttagGTACCCAAACTTGAACAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAATCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatgtatttatatttcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
    |||  | |   ||    |   || |     | | |    ||   || || |   |     ||  |||| | |  | ||       | || |||||||| ||||||||||||||  |||||||||| ||||||||||| || |||||  | ||||||||||||| ||| ||||| |||||||| ||| | |||
----gtaagtgaaagttcaactacattga----ttctcatggttcattacctgcaccatg---gttcttaatatttgcaaatcc-----acttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA

upper sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatgtatttatatttcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
    |||  | |   ||        || |     | | | | |  | |     |  |  |    ||  |||| | |  | ||       | || |||||||| ||||||||||||||   ||||||||| ||||||||||| || |||||  | ||||||||||||| |||||| |  |||||||| ||||| |||
----gtaagtgaaagttcaacgacattga----ttgtcatatggttcattacctgcaccacgggttcttaatatttgcaaatcc-----acttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA

upper sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G23750.2 (Glycine max), 3'ss of exon 5
gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatgt-atttatatttcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
     | | |   ||  ||   | ||||   |   || |  | | ||   || ||||      | |  |||||  | || |  ||    | |||||| ||||| ||| | ||||||||| ||||| | ||||||||||| ||||| |||||| | ||||||||||| |||||  | || |||||||||||  | || 
--gtatgtttacttccctgccatactta---tttaattatgattataggtttttata------actgctaatgagacttctgcttt---tgttttagATACCCAAATCTTAAGAGTGTGAGAGAACTTATTTACAAGAGAGGGTATGGAAAGCTAAACAAGCAGAGGACTGCTCTAACTGACAACTCCATCATTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtctaaacttgtatagtattcatttgtaatgtatttatatttcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
 gtctaaa  putative branch site (score: 3)
            tatagtattcatttgt  TA-rich tract