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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgttggtatttgaattatatctttccctcttaaagttcggccacaacacctttgtagacggcagttgaagtcatgaaatttcgaaaggcaatttcgaacggtttaatgtagaagggctacctctttgagcgattcggaattgtgttggcgtaacgaggaattatgtgttctgaattgcttctgtttttttacagGTGGGTTTACAGTGGATGCTATCATTGTACAATAATAGGCTGAATGGGATACTTGCGGATGAAATGGGACTCGGGAAAACAGTCCAG

Basic information

species Physcomitrella patens
transcript PP1S25_252V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S25_252V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G163849_T01 (Zea mays), 3'ss of exon 5
gtaggtgttggtatttgaattatatctttccctcttaaagttcggccacaacacctttgtagacggcagttgaagtcatgaaatttcgaaaggcaatttcgaacggtttaatgtagaagggctacctctttgagcgattcggaattgtgttggcgtaacgaggaattatgtgttctgaattgcttctgtttttttacagGTGGGTTTACAGTGGATGCTATCATTGTACAATAATAGGCTGAATGGGATACTTGCGGATGAAATGGGACTCGGGAAAACAGTCCAG
                                                                                                  | | |    |   | ||   |   ||     || |    |||    | ||  |||| |  |   | |     | ||   | |   ||   |  || | ||||||||  ||||||||||||| || ||||||||||||| | ||||||| ||  | || ||||| ||||| || || || || || |||
-------------------------------------------------------------------------------------------------gtaggatatctgcttttaactgaagtaatatattcatt--ttcaatgtagtcatggcctgtcataggag---atcttacaattcattttgttggttatgcagGTGGGCCTACAGTGGATGCTTTCTTTGTACAATAATAAGTTGAATGGCATTTTGGCTGATGAGATGGGTCTTGGCAAGACTGTACAG

upper sequence: PP1S25_252V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: EFJ33371 (Selaginella moellendorffii), 3'ss of exon 1
gtaggtgttggtatttgaattatatctttccctcttaaagttcggccacaacacctttgtagacggcagttgaagtcatgaaatttcgaaaggcaatttcgaacggtttaatgtagaagggctacctctttgagcgattcggaattgtgttggcgtaacgaggaattatgtgttctgaattgcttctgtt--tttttacagGTGGGTTTACAGTGGATGCTATCATTGTACAATAATAGGCTGAATGGGATACTTGCGGATGAAATGGGACTCGGGAAAACAGTCCAG
                                                                                                                                                        | | |  |  |    ||||    |    |    ||| |  ||||| ||||| ||| | || |||||||| || ||||||||||| || || ||||| || ||||| |||||||||||| | || || || || |||
--------------------------------------------------------------------------------------------------------------------------------------------------------gtg-agtgctggtccatgtaagtttctctttcgctgatcgtttttgcagGTCGGTCTTCAATGGATGCTTTCTTTGTACAATAACAGACTAAATGGTATCCTTGCCGATGAAATGGGATTGGGAAAGACTGTACAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgttggcgtaacgaggaattatgtgttctgaattgcttctgtttttttacagGTGGGTTTACAGTGGATGCTATCATTGTACAATAATAGGCTGAATGGGATACTTGCGGATGAAATGGGACTCGGGAAAACAGTCCAG
        gcgtaac  putative branch site (score: 3)
                                   ttgcttctgttttttt  putative PPT
                                          tgttttttta  TA-rich tract