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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgcagcaattgatacaactctgtggtcgattgagtagGGGATTGCGGAGCTTGTGAACAATCCGGAGCTAGACGGAATCCGAGAGGAGCTAGACGCCGTTCTTGGAAAGGGCAATATGGTGATCGAGCCCGACACAT

Basic information

species Physcomitrella patens
transcript PP1S56_125V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S56_125V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA02G40290.2 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------------------------------------gttgcagcaattgatacaactctgtggtcgattgagtagGGGATTGCGGAGCTTGTGAACAATCCGGAG--CTAGACGGAATCC-GAGAGGAGCTAGACGCCGTTCTTGGAAAGGGCAATATGGTGATCGAGCCCGACACAT
                                                                                             |   |||||||||| |||||||| ||||||||||||| ||| ||||| |||||||||||| | || |||  | ||    | |   | || ||| | |||   |||||                                   
taaatgattatataaaacatcatggataaattgtttattgtatattactatcatatatgatagttttttctgatgtggcaattatgtattattggaacagCAATTGAAACAACTCTATGGTCGATTGAGTGGGGCATTGCTGAGCTTGTGAACCACCCAGAGATCCAGCAAAAGTTAAGGGATGAGATTGACAGAGTTCT-----------------------------------

upper sequence: PP1S56_125V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA14G38580.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------------------------------------gttgcagcaattgatacaactctgtggtcgattgagtagGGGATTGCGGAGCTTGTGAACAATCCGGAGCTA-GACGGAATCCGAGAG--GAGCTAGACGCCGTTCTTGGAAAGGGCAATATGGTGATCGAGCCCGACACAT
                                                                                              || |||||||||| |||||||| ||||||||||| | ||| ||||| |||||||||||| | || ||| |    | |||   ||| |  ||  | ||    |||||                                   
gaattactattaaagtctacatacactatatagtctatgttacatcaaatcatatgatgattttttctaagtagcaattatatatgtgttattatttcagCAATTGAGACAACTCTATGGTCGATTGAATGGGGCATTGCTGAGCTTGTGAACCACCCAGAGATCCAGCAGAAGGTGAGGGATGAAATTGATAGAGTTCT-----------------------------------


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgcagcaattgatacaactctgtggtcgattgagtagGGGATTGCGGAGCTTGTGAACAATCCGGAGCTAGACGGAATCCGAGAGGAGCTAGACGCCGTTCTTGGAAAGGGCAATATGGTGATCGAGCCCGACACAT
                        aattgat  putative branch site (score: 4)
                                        aattgata  TA-rich tract