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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcagcttatgttgctcctcgtcatggcgccccttcgtgttaattttacgtaagaaatattctgacgtatacaattttgtccgtaaatgcagGGCGGTGACGTCCGCAGGATCGTCGGAGCTGATCGCATTTTCCTCGCTCTGCACGTATGATATCTACCGCACCTACGTCAACCCCAAGGCCACCGGCAAG

Basic information

species Physcomitrella patens
transcript PP1S257_108V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S257_108V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ26403 (Selaginella moellendorffii), 3'ss of exon 7
gtaagtgcagcttatgttgctcctcgtcatggcgccccttcgtgttaattttacgtaagaaatattctgacgtatacaattttgtccgtaaatgcagGGCGGTGACGTCCGCAGGATCGTCGGAGCTGATCGCATTTTCCTCGCTCTGCACGTATGATATCTACCGCACCTACGTCAACCCCAAGGCCACCGGCAAG
                            | |  ||  ||     ||   ||||  |   | | |||||  | | |||  || ||| | ||    |||||| || || ||||| ||||| ||||||||  | ||| | || ||||| ||||||||||| |||||||| || ||| ||||||||||||| ||||| |||
--------------------------gtacgtagcttctcttcctt--ctttatatctcacacattct--cttttacgtttgtgttc-tac---cagGGCCGTCACCTCCGCGGGATCCTCGGAGCTCGTAGCAGTGTCGTCGCTGTGCACGTATGACATCTACCGGACATACATCAACCCCAAGGCGACCGGGAAG

upper sequence: PP1S257_108V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ06356 (Selaginella moellendorffii), 3'ss of exon 7
gtaagtgcagcttatgttgctcctcgtcatggcgccccttcgtgttaattttacgtaagaaatattctgacgtatacaattttgtccgtaaatgcagGGCGGTGACGTCCGCAGGATCGTCGGAGCTGATCGCATTTTCCTCGCTCTGCACGTATGATATCTACCGCACCTACGTCAACCCCAAGGCCACCGGCAAG
                            | |  ||  ||     ||  || ||  |   | | |||||  | | |||  || ||| | ||    |||||| || || ||||| ||||| ||||||||  | ||| | || ||||| ||||||||||| |||||||| || ||| ||||||||||||| ||||| |||
--------------------------gtacgtagcttctcttccttctttatatatctcacacattct--cttttacgtttgtgttc-tac---cagGGCCGTCACCTCCGCGGGATCCTCGGAGCTCGTAGCAGTGTCGTCGCTGTGCACGTATGACATCTACCGGACATACATCAACCCCAAGGCGACCGGGAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttaattttacgtaagaaatattctgacgtatacaattttgtccgtaaatgcagGGCGGTGACGTCCGCAGGATCGTCGGAGCTGATCGCATTTTCCTCGCTCTGCACGTATGATATCTACCGCACCTACGTCAACCCCAAGGCCACCGGCAAG
                      ttctgac  putative branch site (score: 2)
             taagaaatatt  TA-rich tract