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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacgttttcgtcaaaatatgaattgacgtccttaaagatttctttactatagtatgccctgcaagctttaatacaaaaatttgttctcttgccatttcagCTTTGTGACTTTGGTTTTGCGAGGGCGATGTCTTGCAACACAATGGTTTTGCGGTCTATAAAAG

Basic information

species Physcomitrella patens
transcript PP1S53_93V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ33693 (Selaginella moellendorffii), 3'ss of exon 5
cacgttttcgtcaaaatatgaattgacgtccttaaagatttctttactatagtatgccctgcaagctttaatacaaaaatttgttctcttgccatttcagCTTTGTGACTTTGGTTTTGCGAGGGCGATGTCTTGCAACACAATGGTTTTGCGGTCTATAAAAG
                                            |||  |  | ||   ||  | |||   | |  ||  |  || | |    |  |||||| || || ||||| ||||||||||| ||||||||||||||||||||| | || || || ||||
-------------------------------------------gtacatt--tctggtttgtgaactt---ttctgaatgtcattttttgctgaaatcagCTCTGCGATTTTGGATTTGCGAGGGCAATGTCTTGCAACACAATGGTTCTTCGCTCGATCAAAG

upper sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ37043 (Selaginella moellendorffii), 3'ss of exon 5
cacgttttcgtcaaaatatgaattgacgtccttaaagatttctttactatagtatgccctgcaagctttaatacaaaaatttgttctcttgccatttcagCTTTGTGACTTTGGTTTTGCGAGGGCGATGTCTTGCAACACAATGGTTTTGCGGTCTATAAAAG--
                                                ||  | ||   ||  | |||   | |  ||  |  || | |    |  |||||| || || ||||| ||||||||||| ||||||||||||||||||||| | || || || ||||  
-----------------------------------------------catt-tctggtttgtgaactt---ttctgaatgtcattttttgctgaaatCAGCTCTGCGATTTTGGATTTGCGAGGGCAATGTCTTGCAACACAATGGTTCTTCGCTCGATCAAAGGT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actatagtatgccctgcaagctttaatacaaaaatttgttctcttgccatttcagCTTTGTGACTTTGGTTTTGCGAGGGCGATGTCTTGCAACACAATGGTTTTGCGGTCTATAAAAG
                    ctttaat  putative branch site (score: 4)
                                      ttctcttgccatttc  putative PPT
                     tttaatacaaaaattt  TA-rich tract