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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggctcttctcccccccccccctccccccccttctcttgatctgtagttgccattcctgttttggcggttgggagcgactgttttgcttttgagctatattttgattctgtgtaatttttgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGAGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCATTATG

Basic information

species Physcomitrella patens
transcript PP1S360_49V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S360_49V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: LOC_Os05g11140.1 (Oryza sativa), 3'ss of exon 8
gtgaggctcttctcccccccccccctccccccccttctcttgatctgtagttgccattcctgttttggcggttgggagcgactgttttgcttttg--agctatattttgattctgtgtaatttttgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGAGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCATTATG
                                       |||    | || | |  |            |      |||    | ||| ||| ||  |   |||   ||| |     || |  ||        || ||||||||||||||||| ||||||||||| ||  |  |||| ||||| || || |  || ||  | | ||| || || |||||  | || ||  || | 
-------------------------------------gtttgtgagggagatactttattgaaaactaagtcctaaagccctcgattttcttgtgttactaataaactgacttgtcatactgattacctgaaaagGGGAACTGTTCGCTATGCTAGTGTGCATGCTCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTA

upper sequence: PP1S360_49V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G158177_T01 (Zea mays), 3'ss of exon 1
gtgaggctcttctcccccccccccctccccccccttctcttgatctgtagttgccattcctgttttggcggttgggagcgactgttttgcttttgagctatattttgattctgtgtaatttttgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGAGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCATTATG
                                           |  ||  |||  | |  |  ||||  |      |         ||  ||    |  ||| |||     | |||| ||  |  | |  ||| ||||||||||||||||| ||||||||||| ||  || |||| |||||||||||||  || ||  | | ||| || || || ||  |  | ||  || | 
------------------------------------------gttcgt--ttgggaatattagtttgatgtgctttactactcacattatttcattggaatacttttgacatttgtatttgcttcataaacagGGGAACTGTTCGCTATGCTAGTGTGCATGCTCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTTGCATACACGCTTATTTTTCTTCTA

upper sequence: PP1S360_49V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G045259_T02 (Zea mays), 3'ss of exon 8
gtgaggctcttctcccccccccccctccccccccttctcttgatctgtagttgccattcctgttttggcggttgggagcgactgttttgcttttgagctatattttgattctgtgtaatttttgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGAGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCATTATG
                                         | || || |     |||  | |  |     ||   |   || ||| |    ||||   ||| |||     | |||  ||  |  | |  ||| ||||||||||||||||| || |||||||| ||  || |||| |||||||||||||  || ||  | | ||| || || || ||| |  | ||  || | 
-----------------------------------------gttcggttgggaatattagtatgatatgctttaccactcac-gttatttcattga---atacttttgacatttgtgtttgcttcataaacagGGGAACTGTTCGCTATGCTAGCGTGCATGCCCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTCGCATACACTCTTATTTTTCTTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgactgttttgcttttgagctatattttgattctgtgtaatttttgtacatgcagTGGAACTGTTCGCTATGCGAGTGTGCATGCACATATGAGAAGGACTGGGAGTAGGAAGGACGACTTGGGATCACTGGCTTATACTTTGGTATTCATTATG
                        ttttgat  putative branch site (score: 4)
                                        tttttgt  putative PPT
                    tatattttgattct  TA-rich tract