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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttattatgtttttattgtttattttgttctatccccgcattataaatccctctgtatggtgatacctgccaatttttttagtacgttgaccatccatttttgcaaaatcttgtggaaattacatatggtacgaacaactaattcatctcaattcctttttcataatttttcttagGTTCGCACATTTAGAGGGCATTCAAATGAGAAGAATTTTGTGGGTCTCACAGTAAACAGCGAATACATTGCCTGTGGCAGTGAAACAAACGAAGTGTTCG

Basic information

species Vitis vinifera
transcript Vv10s0523g00030.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S86_153V6.1 (Physcomitrella patens), 3'ss of exon 11
gtaagttattatgtttttattgtttattttgttctatccccgcattataaatccctctgtatggtgatacctgccaatttttttagtacgttgaccatccatttttgcaaaatcttgtggaaattacatatggtacgaacaactaattcatctcaattcctttttcataatttttcttagGTTCGCACATTTAGAGGGCATTCAAATGAGAAGAATTTTGTGGGTCTCACAGTAAACAGCGAATACATTGCCTGTGGCAGTGAAACAAACGAAGTGTTCG
                                                                       | |||  |     || |  ||||   ||| |||||      |    ||   || |    | || |  | || | ||||| || |  ||   | |  | |     |  || |  | ||| | | ||| ||  | ||||| ||||||||||| || || || || ||||| || || || ||||||||||||||||||||||| ||||| |
----------------------------------------------------------------------gtaccagct-----agcagtttgagtttccgttttttgggtcttgactgtttatgatgacttgtgcata-aagttattcaactgacatcaggtgttctgaa----cgcagATAAGGACACTAAAAGGTCACACCAATGAAAAGAATTTTGTTGGACTTACTGTCAACAGTGAGTATATCGCCTGTGGCAGTGAAACAAACGAGGTGTTTG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S135_17V6.1 (Physcomitrella patens), 3'ss of exon 11
gtaagttattatgtttttattgtttattttgttctatccccgcattataaatccctctgtatggtgatacctgccaatttttttagtac--gttgaccatccatttttgcaaaatcttgtggaaattacatatggtacgaacaactaattcatctcaattcctttttcataatttttcttagGTTCGCACATTTAGAGGGCATTCAAATGAGAAGAATTTTGTGGGTCTCACAGTAAACAGCGAATACATTGCCTGTGGCAGTGAAACAAACGAAGTGTTCG
                                                                               | | ||| ||  || |  | ||  ||| |  |  ||    |    |  | |  |  | || | |    ||||| || |  |      |  |   |      ||    | ||| | | ||| ||  | ||||| ||||| ||||| ||  | || || |||||||||||||| ||||||||||||||||| ||||| ||||| |
------------------------------------------------------------------------------ctatgtagcacaggtcgggcttctctttgttgagtattggttatgtacgataattcttgcgtaaaggctattcaactgagattaggcattctgggtac----agACAAGGACACTGAAAGGACACACCAATGAAAAGAACTTTGTTGGATTGACTGTCAACAGCGAATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S37_28V6.1 (Physcomitrella patens), 3'ss of exon 11
gtaagttattatgtttttattgtttattttgttctatccccgcattataaatccctctgtatggtgatacctgccaatttttttagtacgttgaccatccatttttgcaaaatcttgtggaaattacatatggtacgaacaactaattcatctcaattcctttttcataatttttct-tagGTTCGCACATTTAGAGGGCATTCAAATGAGAAGAATTTTGTGGGTCTCACAGTAAACAGCGAATACATTGCCTGTGGCAGTGAAACAAACGAAGTGTTCG
                                                                   |   |  | |||| | |||   | | |    |    || ||||||   |  | |||       | |  ||     |||     ||  |||| ||      ||  | | ||  |||| |  ||  || |||| ||  | ||||| |||||||||||||| || || ||||| || || ||||| || |||||||||||||| | ||| || || |
------------------------------------------------------------------ctttttcgcgatttgtgtagcgtgctaagtgac----ttcgcaaaacacttagaaaa------gtcgctcg-----ctaccctgtcgtaatttctgaggtttacctctcctgcagGTACAAACGCTTGGAGGACACACCAATGAAAAGAATTTTGTGGGGCTTACTGTAAATAGTGACTACATCGCTTGTGGCAGTGAAACGAGCGAGGTTTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatatggtacgaacaactaattcatctcaattcctttttcataatttttcttagGTTCGCACATTTAGAGGGCATTCAAATGAGAAGAATTTTGTGGGTCTCACAGTAAACAGCGAATACATTGCCTGTGGCAGTGAAACAAACGAAGTGTTCG
               aactaat  putative branch site (score: 2)
                               ttcctttttcataatt  putative PPT
                             aattcctttttcataa  TA-rich tract