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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggcgcgggtgtgggagcgggaggtggggtaaggtgtctgagtggtagggaagcgcactgggttgcgtgggggcacacgtcggcgaagcgatgctgtggggcacaacgggtcttcacgcccccccccttgtaatccctaattgccgacctgacccggcccgcgccagGCGCTGTCGAAGCGGATACACTACGGCAAGTTCGTGGCGGAGGCCAAATTCCT

Basic information

species Chlamydomonas reinhardtii
transcript EDP00124
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDP00124 (Chlamydomonas reinhardtii), 3'ss of exon 5
lower sequence: PP1S142_106V6.1 (Physcomitrella patens), 3'ss of exon 8
gtgggcgcgggtgtgggagcgggaggtggggtaaggtgtctgagtggtagggaagcgcactgggttgcgtgggggcacacgtcggcgaagcgatgctgtggggcacaacgggtcttcacgcccccccccttgtaatccctaattgccgacctgacc-cggcccgcgccagGCGCTGTCGAAGCGGATACACTACGGCAAGTTCGTGGCGGAGGCCAAATTCCT----------------------------------------
                                                               | |   |    |    | |    ||| | ||  ||      |||   |  | ||| |  |           ||   | |     |   | ||  ||   | |  ||||| ||||| ||||||||||| ||||||||||||||||| || || ||||||                                          
---------------------------------------------------------------gctatatcatagtctgctttcttgaa-caattttga-----acagttga-catcaggaacttgttgagaagattttttaggagagtattaacgacgattctctgcagGCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTCACTGAGAATCCTGCGAAATTCGAGTGCCACATTAGGGCGCAG

upper sequence: EDP00124 (Chlamydomonas reinhardtii), 3'ss of exon 5
lower sequence: PP1S47_23V6.1 (Physcomitrella patens), 3'ss of exon 4
gtgggcgcgggtgtgggagcgggaggtggggtaaggtgtct-gagtggtagggaagcgcactgggttgcgtgggggcacacgtcggcgaagcgatgctgtggggcacaacgggtcttcacgcccccccccttgtaatccctaattgccgacctgacccggcccgcgccagGCGCTGTCGAAGCGGATACACTACGGCAAGTTCGTGGCGGAGGCCAAATTCCT-
           |   | |  | |||             ||| || |||  |  |    ||     |      |  |      | || |||       | |     | || |  ||| || || | | |       || |   || ||      |    |||    || | |     ||  || |||| |  | ||  | ||| | ||   |   |||    |  
----------atacagtattgagagtgaaatcctcccttcttgaatggctgatat---catcatatcattcagaagtgtttctaggggaa-------ttttaacaaaaaagtttctgcagGCTCTCTCTAAACGTATACACTATGGCAAGTTCG---TGGCGGAGGCGAAGT----TCATAGAGGATCC--TGCG--AGGTTTGAGGGCCATATCAAGGCGCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcacgcccccccccttgtaatccctaattgccgacctgacccggcccgcgccagGCGCTGTCGAAGCGGATACACTACGGCAAGTTCGTGGCGGAGGCCAAATTCCT
                                  acctgac  putative branch site (score: 3)
               ttgtaat  TA-rich tract