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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggatgcatctctcagattctctactgtcctaaatgatttcagctattcgcaaagttcatgtagtttcacattcttccctgaacaactcaatttgcaatgtgcggatgactgcaatgatgtgggctctgcacgtggtattgacgtcttttcaacgatcgcatattgaatatgttgtgcagGTTACTCTAGTCATGGCTTATCTGAACGGGAATGACATACCCGATTTTTTTCGGCATAGAACTCTCTTTACAAAG

Basic information

species Physcomitrella patens
transcript PP1S348_27V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S348_27V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ22729 (Selaginella moellendorffii), 3'ss of exon 3
gtatggatgcatctctcagattctctactgtcctaaatgatttcagctattcgcaaagttcatgtagtttcacattcttccctgaacaactcaatttgcaatgtgcggatgactgcaatgatgtgggctctgcacgtggtattgacgtcttttcaacgatcgcatattgaatatgttgtgcagGTTACTCTAGTCATGGCTTATCTGAACGGGAATGACATACCCGATTTTTTTCGGCATAGAACTCTCTTTACAAAG
                                                                                                                          ||  |||   ||| |       |||||| |         ||  |  |   ||||   |||||| ||||| |||||||||||||| || ||||| || || |||||||||||   || ||| || ||  | ||||| 
--------------------------------------------------------------------------------------------------------------------------gtaagctgctcacat-------acgtctctca-------gctcacgggtgatgtgacgcagGTAACTCTTGTCATGGCTTATCTCAATGGGAACGATATCCCCGATTTTTTCAAGCTTAGCACACTTATCACAAAA

upper sequence: PP1S348_27V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ04879 (Selaginella moellendorffii), 3'ss of exon 4
gtatggatgcatctctcagattctctactgtcctaaatgatttcagctattcgcaaagttcatgtagtttcacattcttccctgaacaactcaatttgcaatgtgcggatgactgcaatgatgtgggctctgcacgtggtattgacgtcttttcaacgatcgcatattgaatatgttgtgcagGTTACTCTAGTCATGGCTTATCTGAACGGGAATGACATACCCGATTTTTTTCGGCATAGAACTCTCTTTACAAAG
                                                                                                                          ||  |||   ||| |       |||||| |      ||| ||    |   ||||   |||||| ||||| |||||||||||||| || ||||| || || |||||||||||   || ||| || ||  | ||||| 
--------------------------------------------------------------------------------------------------------------------------gtaagctgctcacat-------acgtctctc-----atctcacg--ggtgatgtgacgcagGTAACTCTTGTCATGGCTTATCTCAATGGGAACGATATCCCCGATTTTTTCAAGCTTAGCACACTTATCACAAAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgcacgtggtattgacgtcttttcaacgatcgcatattgaatatgttgtgcagGTTACTCTAGTCATGGCTTATCTGAACGGGAATGACATACCCGATTTTTTTCGGCATAGAACTCTCTTTACAAAG
           tattgac  putative branch site (score: 2)
                                   atattgaatatgtt  TA-rich tract