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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgatcagatgttaggttttagatggagcattgggagagttactcatggttgtaagtatagtcagccctcattctttctcgtcctctgacgtttgcagCAAGTTGCGCTTTTCGTGGATTTCAAGGTCGATGAGAGTTACACCCCGAACAAGATATCAATTCGAGCTGGCAATTCTTTTCATGATCTTCGG

Basic information

species Physcomitrella patens
transcript PP1S42_273V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S42_273V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G054247_T04 (Zea mays), 3'ss of exon 2
gtttgatcagatgttaggttttagatggagcattgggagagttactcatg-gttgtaagtatagtcagccctcattctttctcgtcctctgacgt-ttgcagCAAGTTGCGCTTTTCGTGGATTTCAAGGTCGATGAGAGTTACACCCCGAACAAGATATCAATTCGAGCTGGCAATTCTTTTCATGATCTTCGG-------
                     |   ||   || | |    | ||||| |  |   |  |  | |   |   | |  ||   | || || ||  ||   | |||  |||| ||| | ||||||||||||| |||| ||||||||||| |||| |||||| || || || || ||  ||   || ||  | ||   |       
--------------------gtgcctgcttcagtagagatgctactcctttgccttgtgattcgatggttttgagactaattggttctatgttgtgcggtagCTCGTTGTGCTCTACGTGGATTTCAAGCTCGACGAGAGTTACACGCCGAGCAAGATCTCCATCCGGGCCGGGGATGGCTTCCACAACCTAAAGGTACGCT

upper sequence: PP1S42_273V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G054247_T03 (Zea mays), 3'ss of exon 2
gtttgatcagatgttaggttttagatggagcattgggagagttactcatg-gttgtaagtatagtcagccctcattctttctcgtcctctgacgt-ttgcagCAAGTTGCGCTTTTCGTGGATTTCAAGGTCGATGAGAGTTACACCCCGAACAAGATATCAATTCGAGCTGGCAATTCTTTTCATGATCTTCGG
                     |   ||   || | |    | ||||| |  |   |  |  | |   |   | |  ||   | || || ||  ||   | |||  |||| ||| | ||||||||||||| |||| ||||||||||| |||| |||||| || || || || ||  ||   || ||  | ||   |
--------------------gtgcctgcttcagtagagatgctactcctttgccttgtgattcgatggttttgagactaattggttctatgttgtgcggtagCTCGTTGTGCTCTACGTGGATTTCAAGCTCGACGAGAGTTACACGCCGAGCAAGATCTCCATCCGGGCCGGGGATGGCTTCCACAACCTAAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatggttgtaagtatagtcagccctcattctttctcgtcctctgacgtttgcagCAAGTTGCGCTTTTCGTGGATTTCAAGGTCGATGAGAGTTACACCCCGAACAAGATATCAATTCGAGCTGGCAATTCTTTTCATGATCTTCGG
                                        ctctgac  putative branch site (score: 3)
         taagtata  TA-rich tract