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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattgacttttttctgtagattaagcagatagatgtgaatggtctcctttcttacctttattttgttatggttattctaatagaattgggttgcttgcagTTATTTTAAAATGCTGGTCAATATGGATATTAGTCTTCATTCAATGGAAGTAGTGAACCGCCTAACAACAACTGTGGATCTTCCCACTGAGTTTGTTCAT

Basic information

species Physcomitrella patens
transcript PP1S166_16V6.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S166_16V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA02G00750.2 (Glycine max), 3'ss of exon 9
-tattgacttttt-tctgt-agattaagcagatagatgtgaatggtctcctttcttacctttattttgttatggttattctaatagaattgggttgcttgcagTTATTTTAAAATGCTGGTCAATATGGATATTAGTCTTCATTCAATGGAAGTAGTGAACCGCCTAACAACAACTGTGGATCTTCCCACTGAGTTTGTTCAT
 |||  | | ||  ||| | | ||||           ||  ||    | |  | |  |  ||||||| ||    |  ||||| | |  |     ||  | ||| || |||| | | || ||||||||||| || ||||| |||||||||||||| |||||| | || |||||| |||| || || ||  || | ||  |||| 
gtatgcattcttcctctattatattatctgtgctctagtacatacattaccctatcgctattattttctt----tatttctatttgcttatttatggatacagATACTTTACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTGACAACAGCTGTTGAACTACCATCTCAATTCATTCAC

upper sequence: PP1S166_16V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA10G00610.3 (Glycine max), 3'ss of exon 9
-tattgacttttt-tctgt-agattaagcagatagatgtgaatggtctcctttcttacctttattttgttatggttattctaatagaattgggttgcttgcagTTATTTTAAAATGCTGGTCAATATGGATATTAGTCTTCATTCAATGGAAGTAGTGAACCGCCTAACAACAACTGTGGATCTTCCCACTGAGTTTGTTCAT
 |||  | ||||  ||| | | ||||           ||  ||    | |  | |  |  ||||||| ||    |  ||||| | |  |     ||  | ||| || || | | | || ||||||||||| || ||||| |||||||||||||| |||||| | || |||||| | || || || ||  || | ||  |||| 
gtatgcatttttcctctattatattatctgtgctttagtacatacattgccctatcgctattattttctt----tatttctatttgcttatttatggatacagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctttcttacctttattttgttatggttattctaatagaattgggttgcttgcagTTATTTTAAAATGCTGGTCAATATGGATATTAGTCTTCATTCAATGGAAGTAGTGAACCGCCTAACAACAACTGTGGATCTTCCCACTGAGTTTGTTCAT
                             ttctaat  putative branch site (score: 2)
                          ttattctaatagaatt  TA-rich tract