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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgacaatgtgtgccatgatccttcaagctgcgtcttgcaccagttacctataatgtccaagtgttccttgaaacaggagtgtttaattacatcacaacttcaaatttcttcccaatcagttgctgtgagtactgcagGAAGACGTAGCGGACATGAAGAAGAAGGAGGCCGCAAATGAGAAATTAATGTATGAGATTGCGCAAGGGAACAAAAAGCTTACCGAGCCTCTGACGAAAG

Basic information

species Physcomitrella patens
transcript PP1S229_47V6.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S229_47V6.2 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ08639 (Selaginella moellendorffii), 3'ss of exon 6
gtatgacaatgtgtgccatgatccttcaagctgcgtcttgcaccagttacctataatgtccaagtgttccttgaaacaggagtgtttaattacatcacaacttcaaatttcttcccaatcagttgctgtgagtactgcagGAAGACGTAGCGGACATGAAGAAGAAGGAGGCCGCAAATGAGAAATTAATGTATGAGATTGCGCAAGGGAACAAAAAGCTTACCGAGCCTCTGACGAAAG
                                                                                 |||   ||   |    |||  |    | |   |   |   |  |||  |    ||| |||||||| |  | |||||||| |||||||||   ||||| |||||||| ||||| ||||||||||| |  |||||  |    |  ||||| |||||||| |
---------------------------------------------------------------------------------gtgccaaacatctcgtcaagctgtcgtattcgctataattgccgcttcgttgcctgtagGAAGACATTACAGACATGAAAAAGAAGGAGCAAGCAAACGAGAAATTCATGTACGAGATTGCGCAGGAAAACAAGCATTCAATGGAGCCCCTGACGAAGG

upper sequence: PP1S229_47V6.2 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ08890 (Selaginella moellendorffii), 3'ss of exon 6
gtatgacaatgtgtgccatgatccttcaagctgcgtcttgcaccagttacctataatgtccaagtgttccttgaaacaggagtgtttaattacatcacaacttcaaatttcttcccaatcagttgctgtgagtactgcagGAAGACGTAGCGGACATGAAGAAGAAGGAGGCCGCAAATGAGAAATTAATGTATGAGATTGCGCAAGGGAACAAAAAGCTTACCGAGCCTCTGACGAAAG
                                                                       ||| |||     | |  |||| |      |  || | |    |     | |    ||| |    | ||||| |||||  | |||||||| |||| |||||| ||||| |||||  | ||||| ||||||||||| | ||||| || ||| |||||||| |||||    |
----------------------------------------------------------------------gtgacacaaataagctccattagagtggggcagcagactgacactg---ccgccagtgtaaccttttcagGAGGACGTGACTGACATGAAAAAGAGGGAGGCTGCAAACGAGAAGCTCATGTACGAGATTGCGCAGGAGAACAGAAGGCTGACCGAGCCACTGACACGGG

upper sequence: PP1S229_47V6.2 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ12010 (Selaginella moellendorffii), 3'ss of exon 6
gtatgacaatgtgtgccatgatccttcaagctgcgtcttgcaccagttacctataatgtccaagtgttccttgaaacaggagtgtttaattacatcacaacttcaaatttcttcccaatcagttgctgtgagtactgcagGAAGACGTAGCGGACATGAAGAAGAAGGAGGCCGCAAATGAGAAATTAATGTATGAGATTGCGCAAGGGAACAAAAAGCTTACCGAGCCTCTGACGAAAG
                                                                       ||| |||     |||  |||  |  |   |  || | |    |     | |    ||| |    |  |||| |||||  | |||||||| |||| |||||| ||||| |||||  | ||||| ||||||||||| | ||||| || ||| |||||||| |||||    |
----------------------------------------------------------------------gtgacacaaacaagttccattggagtagggcagcagactgacactg---ccgccagtgtaacctttttagGAGGACGTGACTGACATGAAAAAGAGGGAGGCTGCAAACGAGAAGCTCATGTACGAGATTGCGCAGGAGAACAGAAGGCTGACCGAGCCACTGACACGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaattacatcacaacttcaaatttcttcccaatcagttgctgtgagtactgcagGAAGACGTAGCGGACATGAAGAAGAAGGAGGCCGCAAATGAGAAATTAATGTATGAGATTGCGCAAGGGAACAAAAAGCTTACCGAGCCTCTGACGAAAG
 gtttaat  putative branch site (score: 4)
                ttcaaattt  TA-rich tract