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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcgtgtttctttcttgccctcattttttgtggtaataggtctagaaatgactggaacctgttgctcatggggatcttttaactaaaataatcaatcgatgcatctagGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT

Basic information

species Vitis vinifera
transcript Vv08s0032g00600.t01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 3'ss of exon 14
gtaagtcgtgtttctttcttgccctcattttttgtggtaataggtctagaaatgactggaacctgttgctcatggggatcttttaactaaaataatcaatcgatgcatctagGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT
               ||     | | ||||  |  | ||     |||  |||||        || |   ||  |  | || |   ||| |     ||| |       |||||||||| || |||   ||  |||||||||||||||||||  ||||||||||||||||||||||| |||||||  |||  ||  ||||    |  ||||| |
--------------gtttacctctttatttgatacgttacattatctgaaaatg--------ctatcattctagttgctcctc--acttagtgcttcattt------tctagGTTGCCCGAGATTCTGATTTTGCAGAGCAAATTGGAAAACATATATATTTTGATCTTGTGGATTATGACAACATCCAAAGCCTTCGGGCACCTAAACATT

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 3'ss of exon 10
gtaagtcgtgtttctttcttgccctcattttttgtggtaataggtctagaaa-tgactg-gaacctgttgctcatggggatcttttaactaaaataatcaatcgatgcatctagGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT
|| ||           | ||    ||||   ||    | |   |||| |||  |  ||| ||| ||||| ||||| | | ||| ||           |  |   ||  |||||||| || || |||||  |  |    ||||||||||| ||||||||||||||||| || ||||| ||||| ||||| || || || || |||||||| ||||
gtcagcatctgactactattatgttcatcacttcatctca---gtctggaacctctctgtgaatctgtttctcatagtgctctgtt-----------tggacaaatatatctagGTGGCTCGAGATGAGAATTTGAAGGAGCAAATTGGCAAGGATATATATTTTGACCTGGTGGACCATGAAAAAGTTCGTAGCTTCCGAATTCAGAAGCAGT

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 14
gtaagtcgtgtttctttcttgccctcattttttgtggtaataggtctagaaatgactggaacctgttgctcatggggatcttttaactaaaataatcaat--cgatgcatctagGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT
                            | |   |   ||   || |     | | |||    |    ||||| | || |||||   || |||    |    | |||   ||||||||| || ||||| ||  |    || || ||||| ||| |||||||||||||||| ||||| ||||| || || ||||| || ||||| ||||| ||  
---------------------------gtctggataagaacctgttttagttttaatgg--tttaaatctcattgtgaacttttttttataatggctatgtgcaatgtccctagGTTGCCCGAGATGAGGATTTGAAGGAACAGATTGGTAAGAATATATATTTTGATCTGGTGGACCATGAAAAGGTTCGCAGCTTCCGCATACAGAAGCAAC

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G303655_T01 (Zea mays), 3'ss of exon 4
-gtaagtcgtgtttctttcttgccctcattttttgtggtaataggtctagaaatgactggaacctgttgctcatggggatcttttaactaaaataatcaatcgatgcatctagGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT
      || ||||||  || | ||  ||  |       |||    |||     |||||    ||| ||| |     | |  ||||   |||||          ||| |  ||| | || || || || ||| |    |||||||| || ||| |||||||||||||||| ||||| ||||| ||||| | |||||| ||||||||||| ||||
gtctgatcttgtttcagtcataccagcagctaagtgcctaagttctctcttggtgact----cctcttgat----agaactttttgtgtaaaa----------atgaaaatagATCGCTCGAGACGAGGACTTAAAGGAGCAAATCGGTAAGAATATATATTTTGATCTGGTGGACCATGAAAAAGTTCACAGTTTCCGCATTCAGAAGCAGT

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 14
gtaagtcgtgtttctttcttgccctcattttttgtggtaataggtctagaaatgactggaacctgttgctcatggggatcttttaactaaaataatcaatcgatgcatctagGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT
                ||| | | |   |||  ||  ||  ||      |      |||   ||  |  | || |   | | ||    ||||          ||| |  ||| |||| || ||  | ||  |    ||||||||||| ||  ||||||||||||| || ||||| ||||| |||||  |||| || ||||||||||| ||||
---------------gtctggtcttg--tttcagtcataccagcagctaactctcttggtgactcctcttgatagaactttatttgtaaaaa----------atgaaaatagATTGCTCGAGACAAGGATTTAAAGGAGCAAATTGGTAAAAATATATATTTTGACCTGGTGGACCATGAAAAAGTTTGCAGCTTCCGCATTCAGAAGCAGT

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT5G06600.3 (Arabidopsis thaliana), 3'ss of exon 14
gtaagtcgtgtttctttcttgccctcattttttgtggtaataggtctagaaatgactggaacctgttgctcatggggatcttttaactaaaataatcaatcgatgcatcta-gGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT
       || | | | || |    | |||     || |||||  | | ||| ||      |  ||||  |  ||    | |  | ||||| ||||||  |     |||  | ||||||| | ||||||||||||   || |||||||| |||||||||||||||||||||||||||||||||||||| |||||||| || || ||||||||| 
-------gtttgtttatcctatt-taattgggcctgataatatcttttgaactgttccagag-tgttattt-tgatactgtcgttactaacataatctttgttaacatgaaagGTTGCAAGAGATGAAGACCTTAAGGAACAAATTGGGAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTTCGCAGTTTCCGTATCCAGAAACAGA

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 14
gtaagtcgtgtttctttcttgccctcattttttgtggtaataggtctagaaatgactggaacctgttgctcatggggatcttttaactaaaataatcaat-cgatgcatctagGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT
         ||||  | |||    | | |||  |||  ||   || | |   |       || || | || |||         | |||||   |||  || | ||  ||  |||| ||| | ||||| ||| |  | ||||||||||||||| ||||||||||||||||||| |||||||| |||||  | |||||||| || ||||||||| 
---------gttttctacttctgttaaatttgggtgtgaaattgtgttggtgtag-----acttgatactgatg---------ttactaatgcaattcatactatttataaagGTCGCAAGAGATGATGACATCACTGAGCAAATTGGAAAGAATATATATTTTGATCTTGTTGATCATGAAAAAGTGAGGAGTTTTCGAATCCAGAAACAGA

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 3'ss of exon 14
gtaagtcgtgtttctttcttgccctcattttttgtggtaataggtctagaaatgactggaacctgttgctcatggggatcttttaactaaaataatcaatcgatgcatctagGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT
                    |    || ||       |  |   | |     |    |||| | || |||   | | |  |  | | |    ||      || |   | |||||||  || |||||||| ||     | || ||||||||||| ||  |||||||| | ||||||||||| ||||| |||||||||||||| ||||| ||  
--------------------gtaaacaattaactgtatggtttattttttggttgtaggaagccgtagcttcagagtaattaattattcgttta------cgttatgtatagGTTGGGCGCGATGAAGATCTCCAGAACCAGATTGGAAAGGACATTCATTTTGATTTGGTGGATCATGAGAAAGTTCGCAGTTTTCGCATCCAGAAGCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaacctgttgctcatggggatcttttaactaaaataatcaatcgatgcatctagGTTGCACGGGATGAAGACCTTGCAGAGCAAATTGGAAAGGATATATATTTTGATCTTGTGGATCATGACAAAGTCCGCAGTTTTCGCATTCAGAAACAGT
                           aactaaa  putative branch site (score: 2)
                    atcttttaactaaaat  TA-rich tract