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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taggctgctttcatctggttagattttctaggtttttttgctaaacttttgtcattctttttaacatggtgtgcaatgtgtatggatattggaaatgtagGGGATGATTATAAGATCAAGGTATGGAACTACAAGATGCGACGCTGCTTGTTCACTTTGCTGGGTCACCTCGATTACATCCGGACGGTCAAATTCCATCA

Basic information

species Physcomitrella patens
transcript PP1S86_189V6.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S86_189V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA11G12080.1 (Glycine max), 3'ss of exon 1
-taggctgctttcatctggt-tagattttctaggtttttttgctaaacttttgtcattctttttaacatggtgtgcaatgtgtatggatattggaaatgtagGGGATGATTATAAGATCAAGGTATGGAACTACAAGATGCGACGCTGCTTGTTCACTTTGCTGGGTCACCTCGATTACATCCGGACGGTCAAATTCCATCA
 ||   || | | ||  | | |  ||| || | ||      |     ||||  |   |    || |||   | |  | | | ||| | |  | |  |   |||||||||||| ||||| ||||| |||||||| |||||||   | |||||||||||| | || || ||||| ||||| ||||| || ||  |||| |||||
gtacattggtataataagttatttattgtccatgtggaaggggagggctttgctttatacaatttacagcttattgactatatattgtttcttgggac--agGGGATGATTACAAGATTAAGGTTTGGAACTATAAGATGCATAGGTGCTTGTTCACTCTTCTAGGACACCTTGATTATATCCGTACCGTGCAATTTCATCA

upper sequence: PP1S86_189V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA12G04290.2 (Glycine max), 3'ss of exon 1
----taggctgctttcatctggttagattttctaggtttttttgctaaacttttgtcattctttttaacatggtgtgcaatgtgtatggatattggaaatgtagGGGATGATTATAAGATCAAGGTATGGAACTACAAGATGCGACGCTGCTTGTTCACTTTGCTGGGTCACCTCGATTACATCCGGACGGTCAAATTCCATCA
     ||     ||| || ||  ||  |     | ||      |      |||  |   |    || |||   | || | | | | | | |  | |  |   |||||||||||| ||||| ||||| |||||||| |||||||   | || ||||||||| | || || ||||| ||||| ||||| || ||  |||| |||||
ggtggagaagattttgatgtg-ctatgtacatcatgtgaaaggggagggttttgctttatacaatttacagcttttg-actatattttgtttcttgggac--agGGGATGATTACAAGATTAAGGTTTGGAACTATAAGATGCATAGGTGTTTGTTCACTCTTCTAGGACACCTTGATTATATCCGTACTGTGCAATTTCATCA

upper sequence: PP1S86_189V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ32142 (Selaginella moellendorffii), 3'ss of exon 1
--taggctgctttcatctggttag-attttctaggtttttttgctaaacttttgtcattctttttaacatggtgtgcaatgtgtatggatattggaaatgtagGG-GATGATTATAAGATCAAGGTATGGAACTACAAGATGCGACGCTGCTTGTTCACTTTGCTGGGTCACCTCGATTACATCCGGACGGTCAAATTCCATCA
   ||  | | ||  | |  | |    |   | |   ||||     | |    |   |  ||  |  | ||    ||    || | ||||        | || || ||||| || ||||||||||| ||||||||||||| | |  | ||| |||||||  ||||||| ||  | |||||||||||||| ||| | ||||||||
gtaagatttccttgctttcctcaccgatcgatcgacattttgttcgatcgaccgatttctttgctttcctgagtcgctgc-tgaaaggatcccttctttttaagGTGATGACTACAAGATCAAGGTGTGGAACTACAAGACGAGGAGATGCCTGTTCACGCTGCTGGGCCATTTGGATTACATCCGGACAGTCCAGTTCCATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttgtcattctttttaacatggtgtgcaatgtgtatggatattggaaatgtagGGGATGATTATAAGATCAAGGTATGGAACTACAAGATGCGACGCTGCTTGTTCACTTTGCTGGGTCACCTCGATTACATCCGGACGGTCAAATTCCATCA
             ttttaac  putative branch site (score: 2)
        attctttttaacat  TA-rich tract