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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcgagctctcaccacttgctcagagttgcgtgtccacgaataccacaagccgatctgatcctgttgtttctcttggttccaattccctcgtgtctcctccgtattcttaatgggtgataattctgacctggtttggctctattcagCCACTATTTTTGCATATGGCCAAACCAGCAGTGGGAAAACGTATACAATGAGGGGAGTCACTGAAAGCGCCATTGCAGACATTTTTGAGTACATCGAACA

Basic information

species Physcomitrella patens
transcript PP1S255_53V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S255_53V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os02g43130.1 (Oryza sativa), 3'ss of exon 3
gtgagtcgagctctcaccacttgctcagagttgcgtgtccacgaataccacaagccgatctgatcctgttgtttctcttggttccaattccctcgtgtctcctccgtattcttaatgggtgataattctgacctggtttggctctattcagCCACTATTTTTGCATATGGCCAAACCAGCAGTGGGAAAACGTATACAATGAGGGGAGTCACTGAAAGCGCCATTGCAGACATTTTTGAGTACATCGAACA
                                                     |    |   | ||        | | |     ||||| |    | | |       |   || |     | ||| || ||     ||    | ||  |||| | ||||||||||||||| |||||||||||||| || || || || ||||  ||||| || |||    |  | ||||| || | ||| || ||  |  |
-----------------------------------------------------gtgagtgcaaaccacacacgacacata-ccacaatttcaaaatatgtta---agacatttga-----gctaaatcagagtgcattccctttta--cagCAAGTATTTTTGCATATGGACAAACCAGCAGTGGAAAGACATACACTATGACTGGAGTAACAGAATATACAGTAGCAGATATATATGATTATATTAACAA

upper sequence: PP1S255_53V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os01g33040.1 (Oryza sativa), 3'ss of exon 3
gtgagtcgagctctcaccacttgctcagagttgcgtgtccacgaataccacaagccgat-ctgatcctgttgtttctcttggttccaattccctcgtgtctcctccgtattcttaatgggtgataattctgacctggtttggctctattcagCCACTATTTTTGCATATGGCCAAACCAGCAGTGGGAAAACGTATACAATGAGGGGAGTCACTGAAAGCGCCATTGCAGACATTTTTGAGTACATCGAACA
                                                   ||    || || |  | || ||||   |    |  |||   |   | ||| |||  ||||||| |            ||  | | |||| ||       |||||| |||||||| ||||| |||||||||||||| || || |  || ||||| || ||||| || || ||  |    || || |    | |||| ||| |
-------------------------------------------------gtaaattaattctcactcagtagtttgaataaagttgaatgatcctttatctactctttattctttac-----------cttcctttgttttgc-------agCCACCATTTTTGCCTATGGTCAAACCAGCAGTGGTAAGACATTCACCATGAGAGGCGTCACAGAGAGTGCTGTAAATGATATATACAGGCACATAGAAAA

upper sequence: PP1S255_53V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G136838_T02 (Zea mays), 3'ss of exon 3
gtgagtcgagctctcaccacttgctcagagttgcgtgtccacgaataccacaagccgatctgatcctgttgtttctcttggttccaattccctcgtgtctcctccgtattcttaatgggtgataattctgacctggtttggctctattcagCCACTATTTTTGCATATGGCCAAACCAGCAGTGGGAAAACGTATACAATGAGGGGAGTCACTGAAAGCGCCATTGCAGACATTTTTGAGTACATCGAACA
                                                               |  ||||  | |||  | ||  |  | | | ||          |  |||  ||| |      | || |||| || |   | | | ||||||| |||||||||||||| |||||||||||||| ||||| |  || |||||||| || || || || ||  ||   || |||| |    |||| ||   
--------------------------------------------------------------gtattgttaatgctca-gtttgtatattcgtggtagtggagtgatcatctgcatgtgaccccttccttaccttgtgtttgttt-tgcagCCACCATTTTTGCATATGGGCAAACCAGCAGTGGTAAAACATTCACGATGAGGGGCGTTACAGAGAGTGCTGTTAGTGATATTTATAGACACATAGATAG

upper sequence: PP1S255_53V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv17s0000g03290.t01 (Vitis vinifera), 3'ss of exon 2
gtgagtcgagctctcaccacttgctcagagttgcgtgtccacgaataccacaagccgatctgatcctgttgtttctcttggttccaattccctcgtgtctcctc-cgtattcttaatgggtgataattctgacctggtttggctctattcagCCACTATTTTTGCATATGGCCAAACCAGCAGTGGGAAAACGTATACAATGAGGGGAGTCACTGAAAGCGCCATTGCAGACATTTTTGAGTACATCGAACA
                                          ||| | |   |    ||||| ||   |  | ||||||   |  | ||   ||   | |   |   ||| | |  |   |  || || |  ||    ||   | ||  |||| ||||| ||||||||||| ||||||||||||||||| || || |||||||| ||| | || || |  ||  ||   || || | | || | ||   | |
-------------------------------------gtagtgaacatctgtatattatctg-tctgttaatatctctttaat--agtttattcaattataagcatatatccatgctaaatc-tacttttatccc---ttattttta--cagCAACTATATTTGCATATGGGCAAACCAGCAGTGGGAAGACTTACACAATGAGAGGAATAACAGAGAAAGCTGTTAATGATATCTATAAGCATATAATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctcctccgtattcttaatgggtgataattctgacctggtttggctctattcagCCACTATTTTTGCATATGGCCAAACCAGCAGTGGGAAAACGTATACAATGAGGGGAGTCACTGAAAGCGCCATTGCAGACATTTTTGAGTACATCGAACA
                             ttctgac  putative branch site (score: 2)
                                             ctctattc  putative PPT
          tattcttaat  TA-rich tract