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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAACGAAGTGCGTTTCCACCTAATTTTGTGCACTCTTTAGATAGCTCTCACATGATGATGACAGCCCTTGCTTGTAGTAAAGCGGGACTTACATTTGCAGgtgtgttgtggacgtgtgttacgcacttgttaggtttcttgaacttaattctattcaacctagctggcaacaacttataatttgttaagttgttattttctttgtcctggaaatgtcttaaaaatgattcgacataaagattgtgaaaaaaacatactgttctccag

Basic information

species Physcomitrella patens
transcript PP1S246_118V6.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S246_118V6.1 (Physcomitrella patens), 5'ss of exon 19
lower sequence: LOC_Os06g44230.1 (Oryza sativa), 5'ss of exon 17
CAACGAAGTGCGTTTCCACCTAATTTTGTGCACTCTTTAGATAGCTCTCACATGATGATGACAGCCCTTGCTTGTAGTAAAGCGGGACTTACATTTGCAGgtgtgttgtggacgtgtgttacgcacttgttaggtttcttgaacttaattctattcaacctagctggcaacaacttataatttgttaagttgttattttctttgtcctg-gaaatgtcttaaaaatgattcgacataaagattgtgaaaaaaacatactgttctccag
|||      || ||||| || ||||||||||||||| | ||||| || |||||||||||||| ||  |||| || |  || || || |||   ||||||||| || | ||                        |||  ||     | | ||||   |  ||  |  ||  |||  | | ||   ||| ||   ||  || |||   ||  || ||  || ||                                             
CAAAAGGCAGCTTTTCCCCCAAATTTTGTGCACTCTCTTGATAGTTCACACATGATGATGACTGCTATTGCATGCAAAAAGGCTGGTCTTCATTTTGCAGgtttgatctga-----------------------tttactggttccattactatcagaaataattaccagtaacaga-acttccataattttacatagtcattgcagtgcaaagtgcatttaag--------------------------------------------

upper sequence: PP1S246_118V6.1 (Physcomitrella patens), 5'ss of exon 19
lower sequence: GRMZM2G115564_T02 (Zea mays), 5'ss of exon 17
CAACGAAGTGCGTTTCCACCTAATTTTGTGCACTCTTTAGATAGCTCTCACATGATGATGACAGCCCTTGCTTGTAGTAAAGCGGGACTTACATTTGCAGgtgtgttgtggacgtgtgttacgcacttgttaggtttcttgaacttaattctattcaacctagctggcaacaacttataatttgttaagttgttattttctttgtcctggaaatgtcttaaaaatgattcgacataaagattgtgaaaaaaacatactgttctccag
|||      || |||||||| ||||||||||||||  | ||||| || || ||||||||||||||  ||||||| |   |  | || |||   |||||||||  |||    |   ||| ||   ||| | |   ||  |  ||   |  | || | |||  |||   |  || |  | | |   |||  | |||   ||  |  |                                                              
CAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCACTGGATAGTTCACATATGATGATGACAGCGATTGCTTGCAAGGAGTCTGGCCTTCATTTTGCAGgttcgtttctta---gtggtatcgactagctc--ttgttgcaaggcacatatagtgaac--agcacactgcatcgga-agtccattatatggttcaattaatcatatg-----------------------------------------------------------
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|15327490|gb|BI488244.1|BI488244
EST:     CATGATGATGACAGCCCTTGCTTGTAGTAAAGCGGGACTTACATTTGCAG                         GCGTGCACGATTCCTATTGGACTCATGCTGGAGATGTGGAGAATATGAACG
genomic: CATGATGATGACAGCCCTTGCTTGTAGTAAAGCGGGACTTACATTTGCAGgtgtgttgtg ... tgttctccagGCGTGCACGATTCCTATTGGACTCATGCTGGAGATGTGGAGAATATGAACG
EST: gi|162164596|gb|FC341891.1|FC341891
EST:     CATGATGATGACAGCCCTTGCTTGTAGTAAAGCGGGACTTACATTTGCAG                         GCGTGCACGATTCCTATTGGACTCATGCTGGAGATGTGGAGAATATGAACG
genomic: CATGATGATGACAGCCCTTGCTTGTAGTAAAGCGGGACTTACATTTGCAGgtgtgttgtg ... tgttctccagGCGTGCACGATTCCTATTGGACTCATGCTGGAGATGTGGAGAATATGAACG