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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattctccttgatgtgtgcctgtctgaatccatttaaatatccacatgagtgcgttcggaacgtttggatgtattcttggattctttgtattttaggcatgactagcataccgtcttattaacacctgacatgttaagacgaagttgaattaattaatgtcgtcgtgatttgtcctagGCCTGCGATGGCTGTAAATATATTGGATGCATATGAAGGAACTTTGGAAGAGGATTTTCCTCCTGAAAGTGAGCGGTATGAGCACAGTGAAATGCTCCTT

Basic information

species Physcomitrella patens
transcript PP1S201_47V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S201_47V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA08G22180.1 (Glycine max), 3'ss of exon 5
gtaattctccttgatgtgtgcctgtctgaatccatttaaatatccacatgagtgcgttcggaacgtttggatgtattcttggattctttgtattttaggcatgactagcataccgtcttattaacacctgacatgttaagacgaagttgaattaattaatgtcgtcgtgatttgtcctagGCCTGCGATGGCTGTAAATATATTGGATGCATATGAAGGAACTTTGGAAGAGGATTTTCCTCCTGAAAGTGAGCGGTATGAGCACAGTGAAATGCTCCTT
                                                                      | | |||  |    | ||  |||| ||   ||||     || | ||   | | | |  |  | |  |         ||| | ||  ||    | |    || ||| | ||  |  | |  || ||  | || ||||| ||||||||||| |||||||||||||||  |||||| |||| ||| |||| ||||||  | ||||||||  | 
---------------------------------------------------------------------caagcattactcttgttttgctattataa--atga-----atgctgttgaaatcataattt-cgttcttttgtttgtttgtaataccta---ccttttgaatgtgtaccagTGCATCCAAAGCAGTTGAAATTTTGGAAGCATATGAAGGGACTTTGGAAGAGGATCATCCTCCAGAAAATGAACGGTGTGAGCATGGGGAAATGCTTTTA

upper sequence: PP1S201_47V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA07G03850.1 (Glycine max), 3'ss of exon 5
gtaattctccttgatgtgtgcctgtctgaatccatttaaatatccacatgagtgcgttcggaacgtttggatgtattcttggattctttgtattttaggcatgactagcataccgtcttattaacacctgacatgttaagacgaagttgaattaattaatgtcgtcgtgatttgtcctagGCCTGCGATGGCTGTAAATATATTGGATGCATATGAAGGAACTTTGGAAGAGGATTTTCCTCCTGAAAGTGAGCGGTATGAGCACAGTGAAATGCTCCTT
                                                                     |   || |||||   | ||  |||| ||   |||  |    |   |   ||| |  |  |      ||  |  |   ||| | ||  ||   || |    || ||| | ||  |    |  || ||  | || ||||| ||||||||||| |||||||| ||||||  |||||| |||| ||| |||| ||||||  | ||||||||  | 
--------------------------------------------------------------------agcattactcttg---ttttgctattataa--atggatgc--tgatgaaatatcataatttcgttcttttggttgt--ttgtaataccta---tcttttgaatgtgtaccagTTCATTCAAAGCAGTTGAAATTTTGGAAGCATATGAAGGGACTTTGGATGAGGATCATCCTCCAGAAAATGAACGGTGTGAGCATGGGGAAATGCTTTTA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctgacatgttaagacgaagttgaattaattaatgtcgtcgtgatttgtcctagGCCTGCGATGGCTGTAAATATATTGGATGCATATGAAGGAACTTTGGAAGAGGATTTTCCTCCTGAAAGTGAGCGGTATGAGCACAGTGAAATGCTCCTT
                            aattaat  putative branch site (score: 3)
                                             tttgtcct  putative PPT
                  aagttgaattaattaa  TA-rich tract