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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaagagtatctagactaagaattgaatgaatttattactgctatgtccatatacaagtcaattttatatcaagattaatatctttcttccatatatacagCTACTCAATGGAGGGATGATACAACCGGTCAGCATGTAGAATATGACCAAAGGCCTGATGTGTTCCA

Basic information

species Physcomitrella patens
transcript PP1S210_32V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S210_32V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA08G21570.1 (Glycine max), 3'ss of exon 7
gaagagtatctagactaagaattgaatgaatttattactgctatgtccatatacaagtca-attttatatcaagattaatatctttcttccatatatacagCTACTCAATGGAGGGATGATACAACCGGTCAGCATGTAGAATATGACCAAAGGCCTGATGTGTTCCA
   |  |   |    |   || ||| |   ||||||| |  ||| | | |||    |    | |  || |    | |    |   | ||       |||||||||| | |||||||||  |||||| ||   |||||| ||||||||||||||||||||||| |||  
---gtatgatttagttgtcaactgattt--tttattaattatat-ttcgtattttggcagtactcaatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACAGGCTCGCATGTGGAATATGACCAAAGGCCTGATGTTTTCAG

upper sequence: PP1S210_32V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 7
gaagagtatctagactaagaattgaatgaatttattactgctatgtccatatacaagtcaattttatatcaagattaatatctttcttccatatatacagCTACTCAATGGAGGGATGATACAACCGGTCAGCATGTAGAATATGACCAAAGGCCTGATGTGTTCCA
   |  |   |    |   || | | |   ||||||  |  ||| | | |||    |      | || |    | |    |   | ||       |||||||||| | |||||||||  |||||| ||   |||||| ||||||||||||||||| ||||| |||  
---gtatgatttagttgtcaactaattt--tttatttattatattttcgtattttggaagtactcatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACGGGCTCGCATGTGGAATATGACCAAAGGCCAGATGTTTTCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccatatacaagtcaattttatatcaagattaatatctttcttccatatatacagCTACTCAATGGAGGGATGATACAACCGGTCAGCATGTAGAATATGACCAAAGGCCTGATGTGTTCCA
                           gattaat  putative branch site (score: 3)
                                 tatctttcttccat  CT-rich tract
              aattttatatcaagat  TA-rich tract