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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatttaatacgtcgtcgtaatttgtttacaccaagtttttgaatccaatgatttcaacaccaatattgattatattatgtctggtgttatttacgtgtagATACTCAAGGAGGAAATTCACGATCTTCTGGATCCAAATCCTCCATCAACAGAGTACATATTTGGGGGAGGGTTAAAAGCATTAGCTGTAGGCAAACCAC

Basic information

species Physcomitrella patens
transcript PP1S237_18V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S237_18V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ26093 (Selaginella moellendorffii), 3'ss of exon 3
aatttaatacgtcgtcgtaatttgtttacaccaagtttttgaatccaatgatttcaacaccaatattgattatattatgtctggtgttatttacg-----tgtagATACTCAAGGAGGAAATTCACGATCTTCTGGATCCAAATCCTCCATCAACAGAGTACATATTTGGGGGAGG-GTTAAAAGCATTAGCTGTAGGCAAACCAC--
                                                       |||       ||  || |  | ||   | |||||  | ||     |||||||||||||||||||||||||||| || || ||  | || ||| |    || |    || |   | |  |   |||     | || ||   | ||    | |  
-----------------------------------------------------gtaacttgctgttttttttttctttgcgcgttgttaactgcgcagtttgtagATACTCAAGGAGGAAATTCACGACCTCCTTGACACGAACCCTTCCCAGACTGT---CAAACAAGAGCCATTTGTTGGTGTCTTTGGCGTCAAGCCTTGCTCAC

upper sequence: PP1S237_18V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ10856 (Selaginella moellendorffii), 3'ss of exon 3
aatttaatacgtcgtcgtaatttgtttacaccaagtttttgaatccaatgatttcaacaccaatattgattatattatgtctggtgttatttacgtgtagATACTCAAGGAGGAAATTCACGATCTTCTGGATCCAAATCCTCCATCAACAGAGTACATATTTGGGGGAGG-GTTAAAAGCATTAGCTGTAGGCAAACCAC--
                                         ||     || |||     |     |||    | |||  |  |  ||| |      ||||||||||||||||||||||||||| || || ||  | || ||| |     | |    ||     | |  |   |||     | || ||   | ||    | |  
---------------------------------------gtaacttgctgtttttttttct----ttgcgcgttttaacttcgcagtttt------gtagATACTCAAGGAGGAAATTCACGACCTCCTTGACACGAACCCTTCCCAGGCTGT---CAAGCAAGAGCCATTTGTTGGTGTCTTTGGCGTCAAGCCTTGCTCAC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatgatttcaacaccaatattgattatattatgtctggtgttatttacgtgtagATACTCAAGGAGGAAATTCACGATCTTCTGGATCCAAATCCTCCATCAACAGAGTACATATTTGGGGGAGGGTTAAAAGCATTAGCTGTAGGCAAACCAC
                  tattgat  putative branch site (score: 3)
                aatattgattatatta  TA-rich tract