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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatcttactcttttgtttttcttaaaatcctataaaaagttctgaacttgtgtattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

Basic information

species Vitis vinifera
transcript Vv09s0054g00210.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
gtaagtatcttactct--tttgttttt--cttaaaatcctataaaaagttctgaacttgtgt--attattca--tttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
      || ||| | |   |||| |      | ||||  |  ||     |    ||| | ||  |||||| |  ||  || |  |||  |  | |  || |||||||||||| |||||||||||||| || ||| |||| ||||||||||||||||||||| | |||||||| ||||   |  | ||  |||||    |  | || 
------attttaatttgaattgtctagggtctgaaatagttcaagcccctaatgactagagttgattattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG

upper sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G094051_T03 (Zea mays), 3'ss of exon 5
gtaagtatcttactcttttgtttttcttaaaatcctataaaaagttctgaacttgtgtattattcatttctaatg----tatttatattgcaaatatt--ttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
  ||  |  | |  |      |      |  |     |  |   |  |    | |||  | ||    |||| |||    || | |  | |||||| ||  |||||||||| || |||||||||||  | ||  |||| ||||||||||||||||||||| ||||||||||||| |   |  || || |||||    |  | || 
-aaaaaacataaagcagacagtgcctggagtagttcctgca---tcttagcttggtgactcatctgcttctgatgaccttactaaagtggcaaatcttgtttagGTACCCAAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAAGCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G344279_T01 (Zea mays), 3'ss of exon 5
gtaagtatcttactcttttgtttttcttaaaatcctataaaaagttctgaacttgtgtattattcatttctaatg----tatttatattgcaaatatt--ttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
| ||  | | ||     |  | | |     | | |    |    |  |    | |||  | ||    |||  |||    || | |  | |||||| ||  |||||||||| || ||||| |||||  | ||  |||| ||||||||||||||||||||  ||||||||||||| |   |  || || |||||    |  | || 
gaaaaaagcataaagcatactgtctggagtagttcctgca----tcttagcttggtgactcatctgcttccgatgaccttactaacgtggcaaatcttgtttagGTACCCAAACTTGAACAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAATCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM5G868433_T02 (Zea mays), 3'ss of exon 5
gtaagtatcttactcttttgtttttcttaaaatcctataaaaagttctgaacttgtgtattattcatttctaatgtatttatattgcaaatat------tttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
   |  |  || ||    |       |    |     | |     |||   |||| ||         |||| |||   ||      |  ||||      ||||||||||| || |||||||||||  | ||  |||| |||||||||||||| |||||  ||||||||||||| |   |  || |  |||||    |  | || 
---aaaacattgctacaataggagagtctggaggtagttactgcatctttgcttg-gtgactccagcttctcatgaccttgctaaactgatatatcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGGAAAACTGAACAAGCAGAGGATCCCTCTGTCTAACAACCAAGTCATCGAG

upper sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
gtaagtatcttactcttttgtttttcttaaaatcctataaaaagttctgaacttgtgtattattcatttctaatgtatttatatt-gcaaat--attttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
                      |   | ||| | | |  | |     |    | ||  ||||       |     | || ||||| ||||||  | || |||||||| ||||||||||||||  ||||| |||| ||||||||||||||||||||  | ||||||||||||| ||| ||||| |||||||| ||| | |||
---------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA

upper sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
gtaagtatcttactcttttgtttttcttaaaatcctataaaa--agttctgaacttgtgtattattcatttctaatgtattta-tatt-gcaaat--attttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
                      |   | ||| | | |  | |    || | |  | ||  ||||       |    ||  ||| |||| ||||||  | || |||||||| ||||||||||||||   |||| |||| ||||||||||||||||||||  | ||||||||||||| |||||| |  |||||||| ||||| |||
---------------------gtaagtgaaagttcaacgacattgattgtcatatggttcattacctgcaccacgggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA

upper sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G23750.2 (Glycine max), 3'ss of exon 5
gtaagtatcttactcttttgtttttcttaaaatcctataaaaagttctgaacttgtgtattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
                |||  ||  ||   |  | |||  ||  || |||   |  || ||  | | | ||||||    |    |||   | |||||| ||||| ||| | ||||||||| ||||||| ||||||||||| || ||||||||| | ||||||||||| |||||  | || |||||||||||  | || 
-----------gtatgtttacttccctgccatacttatttaa--ttatgattataggtttttataactgctaatgagacttc--tgcttttgttttagATACCCAAATCTTAAGAGTGTGAGAGAACTTATTTACAAGAGAGGGTATGGAAAGCTAAACAAGCAGAGGACTGCTCTAACTGACAACTCCATCATTGAG

upper sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G02270.1 (Glycine max), 3'ss of exon 5
gtaagtatcttactcttttgtttttcttaaaatcctataaaaagttctgaacttgtgtattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
    |||| | |  |||||  || |||||    | |||  |||    |    |  | |||| || | |  |||||    |    |||   | || ||| ||||| ||| | ||||||||| ||||||| ||||||||||| || ||||||||| | |  |||||||| |||||  | || |||||||| ||  | || 
----gtatgtcaa-cttttccttgtctta----cttatttaaa----tacgatgatttatt-tttactgttaatgagacttc--tgcttttgttctagATACCCAAATCTCAAGAGTGTGAGAGAACTTATTTACAAGAGAGGGTATGGAAAGCTAATGAAGCAGAGGACTGCTCTAACTGACAACTCTATCATTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctgaacttgtgtattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA
                        ttctaat  putative branch site (score: 2)
              tattattcatttctaa  TA-rich tract