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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctggttgtcatgaagacaacttgtactgtgtttctcaggctgatactgttgcttttgcttcttattcacccaatgcgttggtgggtattgttgttcacagCGTTTTGCAGCTGTTATCATGCGAATCAGGGAGCCTAAAACAACTGCTCTTATTTTTGCATCCGGTAAAATG

Basic information

species Physcomitrella patens
transcript PP1S13_321V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S13_321V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 3'ss of exon 3
--ctggttgtcatgaagacaacttgtactgtgtttctcaggctgatactgttgcttttgcttcttattcacccaatgcgttggtgggtattgttgttcacagCGTTTTGCAGCTGTTATCATGCGAATCAGGGAGCCTAAAACAACTGCTCTTATTTTTGCATCCGGTAAAATG
    | |||   |  |        ||   |   |    |   | |||||  |  |  ||    ||||      | |  | |  |   |  | |  |  |||||||||||| || ||||||||| |||| || || || ||||| || ||||| || |||||||| |||||||||
cttagattgatttacactatgtcagtggcgcactatataatttcatactcat-ttgctgtaatttatgt-tttagtttgctaattcctcctttcataaacagCGTTTTGCTGCGGTTATCATGAGAATAAGAGAACCAAAAACTACAGCTCTGATATTTGCATCGGGTAAAATG

upper sequence: PP1S13_321V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os12g39070.1 (Oryza sativa), 3'ss of exon 2
--ctggttgtcatgaagacaacttgtactgtgtttctcaggctgatactgttgcttttgcttcttattcacccaatgcgttggtgggtattgttgttcacagCGTTTTGCAGCTGTTATCATGCGAATCAGGGAGCCTAAAACAACTGCTCTTATTTTTGCATCCGGTAAAATG
  |    ||   | |   || ||    ||   |   || |    | | | |      ||     |||      | |  | |      | || |     |||||||||||| || ||||||||| |||| || || || ||||| || ||||| || |||||||| |||||||||
tgcacactgaggttatagcatctctatctac-tccatccgttccaaaatataagcactgtaatatatgt-tttagtttgctaactcctcttttcacaaacagCGTTTTGCTGCAGTTATCATGAGAATAAGAGAACCGAAAACTACAGCTCTGATATTTGCATCGGGTAAAATG

upper sequence: PP1S13_321V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA09G41330.2 (Glycine max), 3'ss of exon 3
ctggttgtcatgaagacaacttgtactgtgtttctcaggctgatactgttgcttttgcttcttattcacccaatgcgttggtgggtattgt-----tgttcacagCGTTTTGCAGCTGTTATCATGCGAATCAGGGAGCCTAAAACAACTGCTCTTATTTTTGCATCCGGTAAAATG
    || || |||   |||    || | ||  |   || |  ||    ||    |   |  | ||| | |    | | |  ||  |||  |     | ||  ||||||||||| |||||||| ||| | |||||||| || ||||| ||||| || ||||||||||| || || |||
--ttttatc-tgagatcaataattaatttgcatgctagac--atgtctttatgctgattggtcatttatctgcagtgcttatgtctatcttttgaatctttgcagCGTTTTGCTGCTGTTATTATGAGGATCAGGGAACCAAAAACTACTGCACTCATTTTTGCATCTGGCAAGATG

upper sequence: PP1S13_321V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA19G28780.1 (Glycine max), 3'ss of exon 3
ctggttgtcatgaagacaacttgtactgtgtttctcaggctgatactgttgcttttgcttcttattcacccaatgcgttggtgggtattgt-----tgttcacagCGTTTTGCAGCTGTTATCATGCGAATCAGGGAGCCTAAAACAACTGCTCTTATTTTTGCATCCGGTAAAATG
    || || |||   |||    || | ||  |   || |  ||    ||    |   |  | ||| | |      | |  ||  |||  |     | ||  ||||||||||| |||||||| ||| | |||||||| || ||||| ||||| || ||||||||||| || || |||
--ttttatc-tgagatcaataattaatttgcatgctagac--atgtctttatgctgattggtcatttatctgcactgctaatgtctatcatttgaatctttgcagCGTTTTGCTGCTGTTATTATGAGGATCAGGGAACCAAAAACTACTGCACTCATTTTTGCATCTGGCAAGATG

upper sequence: PP1S13_321V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA18G44460.1 (Glycine max), 3'ss of exon 2
ctggttgtcatgaagacaacttgtactgtgtttctcaggctgatactgttgcttttgcttcttattcacccaatgcgttggt---gggtattgttgttcacagCGTTTTGCAGCTGTTATCATGCGAATCAGGGAGCCTAAAACAACTGCTCTTATTTTTGCATCCGGTAAAATG
 | | | || ||||  |||    || | ||  |   ||     |  |  ||||  |   || | |     ||||||    ||    ||| |   | ||   |||||||||| |||||||| ||| | |||||||| || ||||| ||||| || ||||||||||| || || || 
-ttgctatc-tgaaatcaataattaatttgcatgctagatatgtctttatgctgattggtcatttgtctgcaatgctaaagtctatggtttgaatctttgtaGCGTTTTGCTGCTGTTATTATGAGGATCAGGGAACCAAAAACTACTGCACTCATTTTTGCATCTGGCAAGAT-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttgcttttgcttcttattcacccaatgcgttggtgggtattgttgttcacagCGTTTTGCAGCTGTTATCATGCGAATCAGGGAGCCTAAAACAACTGCTCTTATTTTTGCATCCGGTAAAATG
             ttcttatt  TA-rich tract