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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcaatttcttataatttgttttgctctaaactttggtcgtagcggcatgtttgggaaatgctctgcacattacatcgaggtcttgtaggtattaatataataaatttttgtactcacgttgaactcgtttgtgcagGTTGCGGGTTGAAGTTCGAACAAGTTCGAGCATCGGAGTGGTAACGGCTGTAATCATGGTCCTCCTTACGAGTGGCAAGTTTACAA

Basic information

species Physcomitrella patens
transcript PP1S208_44V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S208_44V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 2
gtattcaatttcttataatttgttttgctctaaactttggtcgtagcggcatgtttgggaaatgctctgcacattacatcgaggtcttgtaggtattaatataataaatttttgtactcacgttgaactcgtttgtgcagGTTGCGGGTTGAAGTTCGAACAAGTTCGAGCATCGGAGTGGTAACGGCTGTAATCATGGTCCTCCTTACGAGTGGCAAGTTTACAA-
                                           ||   || | |   |  ||  | |||    ||  | | |  |  | | | | | | |  | | ||| |||   || |        || ||||||    || | ||| | | |      || || |||||| |||   | || ||||||||| |||| |||||||||||||||||||| ||||| 
-------------------------------------------taaaagcttctcctgttaactcactg----tttgaacaattttctatggatttaagttgattgaatgttt---ctta--------tcttttgtg----tttcaggTGGCATTG-----AAATTTGAGCATAGGAACAGCAAAGGCTGTAATTATGGCCCTCCTTACGAGTGGCAAGTATACAAG

upper sequence: PP1S208_44V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA10G44050.1 (Glycine max), 3'ss of exon 2
gtattcaatttcttataatttgttttgctctaaactttggtcgtagcggcatgtttgggaaatgc--tctgcacattacatcgaggtcttgtaggtattaatataataaatttttgtactcacgttgaactcgtttgtgcagGTTGCGGGTTGAAGTTCGAACAAGTTCGAGCATCGGAGTGGTAACGGCTGTAATCATGGTCCTCCTTACGAGTGGCAAGTTTACAA
                                                | | ||||    |||    ||||  | ||   |       |  |   || |  | | ||  ||||  |   | | ||| |  ||  |   |||  |  | |||    | ||  |  | || || ||| | |   |||| ||||||||  |||| |||||||||||||||||||| |||||
------------------------------------------------gtaggtttctctaatttcatctgggctttgtgtgttaaattgtttaatacttttgtcattgattt--ggctttaagtttatttctatctcgcatttctcagGT---GGCTCTGA--AATTTGAACATAGAAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAA

upper sequence: PP1S208_44V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA20G38770.1 (Glycine max), 3'ss of exon 2
gtattcaatttcttataatttgttttgctctaaactttggtcgtagcggcatgtttgggaaatgctctgcacattacatcgaggtcttgtaggtattaatataataaatttttgtactcacgttgaactcgtttgtgcagGTTGCGGGTTGAAGTTCGAACAAGTTCGAGCATCGGAGTGGTAACGGCTGTAATCATGGTCCTCCTTACGAGTGGCAAGTTTACAA
                                       || |   |  |   |||     | ||| ||     || || |     |||    | || | ||  | |   ||||   | | |||||  ||  |   |||  |  | |||    | ||  |  | || || ||| |||   |||| ||||||||  |||| |||||||||||||||||||| |||||
---------------------------------------gtaggttcctctaatttcatccaggctttgtgtgctaaattg----tttgatacttttgacat--tga---tttggctttaagttgatttctatctggcatttctcagGT---GGCTCTGA--AATTTGAACATAGGAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtaggtattaatataataaatttttgtactcacgttgaactcgtttgtgcagGTTGCGGGTTGAAGTTCGAACAAGTTCGAGCATCGGAGTGGTAACGGCTGTAATCATGGTCCTCCTTACGAGTGGCAAGTTTACAA
                             tactcac  putative branch site (score: 1)
                                          ctcgttt  putative PPT
        tattaatataataaat  TA-rich tract