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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcccgatgtgttccggagaggctctcccccccccccttgtcctgatctgtagttgccattcctgttttggcggttgggagcgactgttttgcttttgagctatattttgattctgtgtaattttcgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGGGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCCTTATG

Basic information

species Physcomitrella patens
transcript PP1S471_4V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S471_4V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os05g11140.1 (Oryza sativa), 3'ss of exon 8
gcccgatgtgttccggagaggctctcccccccccccttgtcctgatctgtagttgccattcctgttttggcggttgggagcgactgttttgcttttgagctatattttgattctgtgtaattttcgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGGGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCCTTATG
                                    |      |||   |  |||  |     ||  |   |        ||| | | |||  ||  |   |||   ||| |     || |  |         || ||||||||||||||||| ||||||||||| ||  | ||||| ||||| || || |  || ||  | | ||| || || |||||  | || || ||| | 
-------------------------------gtttgtgagggagatactttattgaaaactaagtcctaaagccct----cgattttcttgtgtt--actaataaactgacttgtcatactgattacctgaaaagGGGAACTGTTCGCTATGCTAGTGTGCATGCTCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTA

upper sequence: PP1S471_4V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G158177_T01 (Zea mays), 3'ss of exon 1
gcccgatgtgttccggagaggctctcccccccccccttgtcctgatctgtagttgccattcctgttttggcggttgggagcgactgttttgcttttgagctatattttgattctgtgtaattttcgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGGGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCCTTATG
                                             |  ||  |||  | |  |  ||||  |      |         ||  ||    |  ||| |||     | |||| ||     | |  ||| ||||||||||||||||| ||||||||||| ||  ||||||| |||||||||||||  || ||  | | ||| || || || ||  |  | || ||| | 
--------------------------------------------gttcgt--ttgggaatattagtttgatgtgctttactactcacattatttcattggaatacttttgacatttgtatttgcttcataaacagGGGAACTGTTCGCTATGCTAGTGTGCATGCTCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTTGCATACACGCTTATTTTTCTTCTA

upper sequence: PP1S471_4V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G045259_T02 (Zea mays), 3'ss of exon 8
gcccgatgtgttccggagaggctctcccccccccccttgtcctgatctgtagttgccattcctgttttggcggttgggagcgactgttttgcttttgagctatattttgattctgtgtaattttcgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGGGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCCTTATG
                                           | || || |     |||  | |  |     ||   |   || ||| |    ||||   ||| |||     | |||  ||     | |  ||| ||||||||||||||||| || |||||||| ||  ||||||| |||||||||||||  || ||  | | ||| || || || ||| |  | || ||| | 
-------------------------------------------gttcggttgggaatattagtatgatatgctttaccactcac-gttatttcattga---atacttttgacatttgtgtttgcttcataaacagGGGAACTGTTCGCTATGCTAGCGTGCATGCCCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTCGCATACACTCTTATTTTTCTTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgactgttttgcttttgagctatattttgattctgtgtaattttcgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGGGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCCTTATG
                        ttttgat  putative branch site (score: 4)
                                        ttttcgt  putative PPT
                    tatattttgattct  TA-rich tract