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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cattttatccaatgtaaatggtctgtgggcttttgttactgcaatataatccgccgaatgggaattttaatctttgaatgtacgtggatgtgtttggcagATCCAACGTATATGATTCGAGCTGTGCCTAGCATTGCATCGGATAACGTCTACTGCACTTTGTTGGCACATAGTGCCATCCACGGTGCTATGGCTGGTTT

Basic information

species Physcomitrella patens
transcript PP1S327_30V6.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S327_30V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: GLYMA05G36050.1 (Glycine max), 3'ss of exon 11
----------------cattttatccaatgtaaatg-gtctgtgggcttttgttactgca-atataatccgccgaatgg-gaattttaatctttgaatgtacgtggatgtgtttggcagATCCAACGTATATGATTCGAGCTGTGCCTAGCATTGCATCGGATAACGTCTACTGCACTTTGTTGGCACATAGTGCCATCCACGGTGCTATGGCTGGTTT
                 ||   ||   | |||  || |  |||  | || | ||  || |   ||      | ||| || | |  | || | ||| || |   |   | |  ||| ||||||||||||||||||| |||||||| || |||| ||| || || ||||| ||||||||  |  | || || |||||  | || || || ||||| |||| 
gttcgttaagacaaactatacaattatacgtatgtgtgcatgtttgattatatttatgtatgcattgcatactgaaaggaggaaatcaagcattgcattttttttactat--ttgacagATCCAACGTATATGATCCGAGCTGTTCCAAGCAATGCTTCTGACAACGTGTACTGCACACTTCTTGCTCAAAGTGCTGTTCATGGAGCGATGGCAGGTTA

upper sequence: PP1S327_30V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: GLYMA08G03570.1 (Glycine max), 3'ss of exon 11
-----------------------cattt-tatcca-atgtaaatg---gtctgtgggcttttgttactgca-atataatccgccgaatgg-gaattttaatctttgaatgtacgtggatgtgtttggcagATCCAACGTATATGATTCGAGCTGTGCCTAGCATTGCATCGGATAACGTCTACTGCACTTTGTTGGCACATAGTGCCATCCACGGTGCTATGGCTGGTTT
                        |||| ||   |  |||| |||   |  |||  | ||   ||  ||     ||      | ||| || | |  | || | ||| || |   |  |  | |||| ||||||||||||||||||| ||||| || || |||| ||| || || ||||| ||||||||  |  | || || |||||  | || || || ||||| |||| 
gttcgtaaagacaaaaaactatatatttatacgtatgtgtacatgtgtgcatgttcgattacatttatgtgtgcattgcatactgaaaggaggaaatcaagcattgcatttttttttac-tatttgacagATCCAACGTATATGATCCGAGCAGTTCCAAGCAATGCTTCTGACAACGTGTACTGCACACTTCTTGCTCAAAGTGCTGTTCATGGAGCCATGGCAGGTTA

upper sequence: PP1S327_30V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 11
cattttatccaatgtaaatggtctgtgggcttttgttactgca-atataatccgccgaatgggaattttaatctttgaatgtacg-tggatgtgtttggcagATCCAACGTATATGATTCGAGCTGTGCCTAGCATTGCATCGGATAACGTCTACTGCACTTTGTTGGCACATAGTGCCATCCACGGTGCTATGGCTGGTTT
   ||| |  |   ||||   |   |||  || |     |||| | | |  | |   |  |  |    | |      ||||     |   | |||||  |||||||||| ||||||||||||||| | || |||| ||| || || ||||| ||||||||  |  | || || |||||  | || || || ||||| |||| 
--gtttgtaaagattaaac--ttcatggaattataagtgtgcacacacacactgaaaagagcaatggctgaaagagtaatgccttctctttatgttttacagATCCAACTTATATGATTCGAGCTATTCCAAGCAATGCTTCTGACAACGTGTACTGCACACTTCTTGCTCAAAGTGCAGTTCATGGAGCAATGGCAGGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatccgccgaatgggaattttaatctttgaatgtacgtggatgtgtttggcagATCCAACGTATATGATTCGAGCTGTGCCTAGCATTGCATCGGATAACGTCTACTGCACTTTGTTGGCACATAGTGCCATCCACGGTGCTATGGCTGGTTT
                   ttttaat  putative branch site (score: 3)
                 aattttaatctttgaa  TA-rich tract