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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacgcgaatggcgttgttaacttggatgacttttaagcgtagaactacggtgtatccgtttacaaaaacaaataacctgtttatttgtctgtgatgtagATGGCTGAGTACAGGATATCAATTTACGGAAGGAAGAAGAGCGAGTGGGATCAGTTGGCAAGTTGGATAGTTGACAATCGGCTGTACAGTGAAAACGTCA

Basic information

species Physcomitrella patens
transcript PP1S168_82V6.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S168_82V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 11
-----------------------------atacgcgaatggcgttgttaacttggatgacttttaagcgtagaactacggtgtatccgt-ttacaaaaacaaataa--cctgtttatttgtctgtgatgtagATGGCTGAGTACAGGATATCAATTTACGGAAGGAAGAAGAGCGAGTGGGATCAGTTGGCAAGTTGGATAGTTGACAATCGGCTGTACAGTGAAAACGTCA
                             ||  | || |      | |    | | |  || ||   | |  ||| ||  ||| | | | || |     | ||| |  |||  |    |     | |   ||||||||||||| || ||||| || || || || ||||| || |||||||||||| ||||||| ||||||||  | |||    ||||||| || || ||  
gtacttctttctttctttaccaatctcatatttgtgattctttaaggtggtgttgttcgctatttgtcatgtaac-acattgtttacatattgctctgtctaattattcctactctcataatcttcac-cagATGGCTGAGTATAGAATATCTATCTATGGGAGAAAGAAAAGTGAGTGGGATCAGATGGCAAGCTGGATAGTGAATAATGAATTGTACAGCGAGAATGTTG

upper sequence: PP1S168_82V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 10
-------------------------------atacgcgaatggcgttgttaacttggatgacttttaagcgta---------gaact---acggtgtatccgtttacaaa------aacaaataacctgtttatttgtctgtgatgtagATGGCTGAGTACAGGATATCAATTTACGGAAGGAAGAAGAGCGAGTGGGATCAGTTGGCAAGTTGGATAGTTGACAATCGGCTGTACAGTGAAAACGTCA
                                | |  |||     |  |    ||   |  ||||  ||  |          | | |    |  |  ||   | || |||      ||| ||| |    |  | ||| || |     |||||||||||||  ||||||| ||||| || |||||||| ||||| ||||| ||  ||||||||||||||||  |||||    | || || || || ||  
gtgtgttattctttcataacttgttttctacgtgctggaactagttcttctgatttcttatctttctagtatgctatcttatggattctagctattcatttttctagaaaggacccaactaatgattcttgcaattgcctttatc--agATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGACCAAATGGCAAGTTGGATAGTGAACAATGAATTATATAGCGAGAATGTTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacggtgtatccgtttacaaaaacaaataacctgtttatttgtctgtgatgtagATGGCTGAGTACAGGATATCAATTTACGGAAGGAAGAAGAGCGAGTGGGATCAGTTGGCAAGTTGGATAGTTGACAATCGGCTGTACAGTGAAAACGTCA
                         aaataac  putative branch site (score: 2)
                                       tttgtct  putative PPT
              tttacaaaaacaaata  TA-rich tract