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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

Basic information

species Vitis vinifera
transcript Vv09s0054g00140.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
--------gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
         | | |     |   | |    |   | ||   ||||    | | ||| | |||  ||||  || ||  || |  |||  |  | |  || |||||||||||| |||||||||||||| || |||||||| ||||||||||| ||||||||| | |||||||| ||||   |  | ||  |||||    |  | || 
attttaatttgaattgtctagggtctgaaatagttcaagccccta----atgactagagttgattattgatc-ttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os08g13690.1 (Oryza sativa), 3'ss of exon 5
gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtc--taaacttgtatattattcatttctaatgtatttatattg-caaatatt-ttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
     | ||  | |   ||  |    ||  |      || | | |   | |  ||  || || | | |  || |   |  ||  ||  |   | |  | |||||||| ||  ||||||||||  | |||||||| ||||||||||| || |||||| | ||||||||||| | | |  |     |||||    |  | || 
-gggttctcatagtgactttatagcttttgagcttgttagatacttggttatttttaatgttctacctggctgaatcaagtaccttctctggtgtgatcagGTACCCAAACCTGAAGAGTGTCAGGGAATTGATCTACAAGAGGGGTTACGGAAAGCTCAACAAGCAGAGGATTCCTCTTCAGAACAACAAAGTCATTGAG

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G094051_T03 (Zea mays), 3'ss of exon 5
gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatg----tatttatattgcaaatatt--ttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
  ||  |  | |  |      |   | |  | |  |      |   ||   | ||   | ||    |||| |||    || | |  | |||||| ||  |||||||||| || |||||||||||  | || ||||| ||||||||||| ||||||||| ||||||||||||| |   |  || || |||||    |  | || 
-aaaaaacataaagcagacagtg--cctggagtagttcctgcatcttagcttggtgactcatctgcttctgatgaccttactaaagtggcaaatcttgtttagGTACCCAAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAAGCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G344279_T01 (Zea mays), 3'ss of exon 5
gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatg----tatttatattgcaaatatt--ttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
| ||  | |  |        |  |   |  | |  |      |   ||   | ||   | ||    |||  |||    || | |  | |||||| ||  |||||||||| || ||||| |||||  | || ||||| ||||||||||| ||||||||  ||||||||||||| |   |  || || |||||    |  | || 
gaaaaaagcataaagc---atactgtctggagtagttcctgcatcttagcttggtgactcatctgcttccgatgaccttactaacgtggcaaatcttgtttagGTACCCAAACTTGAACAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAATCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G868433_T02 (Zea mays), 3'ss of exon 5
gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatgtatttatattgcaaatat------tttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
  ||  ||  |     |  |    |||  |  |  | ||     |||   ||||   | |      |||| |||   ||      |  ||||      ||||||||||| || |||||||||||  | || ||||| ||||||||||| || |||||  ||||||||||||| |   |  || |  |||||    |  | || 
-aaaacattgctacaataggagagtctggaggtagt-tactgcatctttgcttggtgact-ccagcttctcatgaccttgctaaactgatatatcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGGAAAACTGAACAAGCAGAGGATCCCTCTGTCTAACAACCAAGTCATCGAG

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
gtaagtatctcactcttttgtttttcttaaaatccta-taaaaagtctaaacttgtatattattcatttctaatgtatttatatt-gcaaat--attttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
                      |   | ||| | | | || |  |  |    | ||  ||||       |     | || ||||| ||||||  | || |||||||| ||||||||||||||  |||||||||| ||||||||||| ||||||||  | ||||||||||||| ||| ||||| |||||||| ||| | |||
---------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
    |||  | |   ||         | |   || |||        | |     |  |  |    ||  |||| | |  | ||       | || |||||||| ||||||||||||||   ||||||||| ||||||||||| ||||||||  | ||||||||||||| |||||| |  |||||||| ||||| |||
----gtaagtgaaagttcaacgacattgattgtcatatgg-----ttcattacctgcaccacgggttcttaatatttgcaaatc-----cacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G23750.2 (Glycine max), 3'ss of exon 5
gtaagtat-ctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
    ||||  | |||    ||   | ||||   |   || |  | | ||   || ||||      | | ||||||    |    |||   | |||||| ||||| ||| | ||||||||| ||||| | ||||||||||| |||||||||||| | ||||||||||| |||||  | || |||||||||||  | || 
----gtatgtttacttccctgccatactta---tttaattatgattataggtttttata------actgctaatgagacttc--tgcttttgttttagATACCCAAATCTTAAGAGTGTGAGAGAACTTATTTACAAGAGAGGGTATGGAAAGCTAAACAAGCAGAGGACTGCTCTAACTGACAACTCCATCATTGAG

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G02270.1 (Glycine max), 3'ss of exon 5
gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
    |||| |||  |||||  || |||||    | |||  |||   ||   |  | |||| || | |  |||||    |    |||   | || ||| ||||| ||| | ||||||||| ||||| | ||||||||||| |||||||||||| | |  |||||||| |||||  | || |||||||| ||  | || 
----gtatgtcaa-cttttccttgtctta----cttatttaaa---tacgatgatttatt-tttactgttaatgagacttc--tgcttttgttctagATACCCAAATCTCAAGAGTGTGAGAGAACTTATTTACAAGAGAGGGTATGGAAAGCTAATGAAGCAGAGGACTGCTCTAACTGACAACTCTATCATTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtctaaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
                        ttctaat  putative branch site (score: 2)
            tatattattcatttct  TA-rich tract