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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACACTGCTGGACAGGAGAGGTTTAGGAGTTTGATTCCCAGCTACATCCGGGATTCGTCCGTGGCAGTGGTTGTCTATGATGTTTCCAgtaagtatttgtttgattttcttacccaagagcactgtgtctttacacttgagttgttgcgtaagatttgttagaaggatggcctctactggtgtatcaa...

Basic information

species Physcomitrella patens
transcript PP1S39_147V6.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S39_147V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os03g09140.1 (Oryza sativa), 5'ss of exon 3
GGACACTGCTGGACAGGAGAGGTTTAGGAGTTTGATTCCCAGCTACATCCGGGATTCGTCCGTGGCAGTGGTTGTCTATGATGTTTCCAgtaagt--atttgtttgattttcttacccaagagcactgtgtctttacacttgagttgttgcgtaagatttgttagaaggatggcctctactggtgtatcaa
||| || ||||| |||||||||||  |||| ||||| || || |||||| ||||||| || ||||||||| |||| || |||||  |  | ||||  | ||  |  |    |||  |     ||  | |||   || |    | ||||               ||     | |         |||  |   
GGATACAGCTGGGCAGGAGAGGTTCCGGAGCTTGATCCCAAGTTACATCAGGGATTCTTCTGTGGCAGTGATTGTTTACGATGTGACTGgcaagttaacttcatctacacccttttctctctgctgt-tgtaactagaaagaatttgtgatcctttgccctccagtgctcttgtaaactacagtgctttt-

upper sequence: PP1S39_147V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G128771_T01 (Zea mays), 5'ss of exon 3
GGACACTGCTGGACAGGAGAGGTTTAGGAGTTTGATTCCCAGCTACATCCGGGATTCGTCCGTGGCAGTGGTTGTCTATGATGTTTCCAgtaagt-atttgtttgattttcttacccaagagcactgtgtctttacacttgagttgttgcgtaagatttgttagaaggatggcctctactggtgtatcaa
||| ||||| ||||||||||||||||||||| | ||||| ||||||||| |||| || || || || |||||||| |||||||| |||||| ||| | |        ||   ||      | || ||  |     ||  ||    | |   |     ||   |||     ||     | || | |    |
GGATACTGCAGGACAGGAGAGGTTTAGGAGTCTTATTCCAAGCTACATCAGGGACTCTTCTGTTGCGGTGGTTGTTTATGATGTATCCAgtgagtcactcaaaaaccttgtatagttgtaatcattgcatgacaccagctggtccgatctttcctggtt-ccagacttccggtgaacaatgttatgcata

upper sequence: PP1S39_147V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: EFJ22994 (Selaginella moellendorffii), 5'ss of exon 3
GGACACTGCTGGACAGGAGAGGTTTAGGAGTTTGATTCCCAGCTACATCCGGGATTCGTCCGTGGCAGTGGTTGTCTATGATGTTTCCAgtaagtatttgtttgattttcttacccaagagcactgtgtctttaca-cttgagttgttgcgtaagatttgttagaaggatggcctctactggtgtatcaa
||| |||||||| |||||| | ||  |||||||||||||||||||||| |||||||||||||||||||| || || || |||||  | |||||||  ||| ||  ||   || | | |    |||| |    || | |||  |||   |                                         
GGATACTGCTGGCCAGGAGCGCTTCCGGAGTTTGATTCCCAGCTACATACGGGATTCGTCCGTGGCAGTCGTCGTGTACGATGTAGCGAgtaagttcttgcttctttgcgtttctcgatcatactgagggagtaaaacttcggttccag-----------------------------------------

upper sequence: PP1S39_147V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: EFJ30542 (Selaginella moellendorffii), 5'ss of exon 3
GGACACTGCTGGACAGGAGAGGTTTAGGAGTTTGATTCCCAGCTACATCCGGGATTCGTCCGTGGCAGTGGTTGTCTATGATGTTTCCAgtaagtatttgtttgattttcttacccaagagcactgtgtctttacacttgagttgttgcgtaagatttgttagaaggatggcctctactggtgtatcaa
||| |||||||| |||||| | ||  |||||||||||||||||||||| |||||||||||||||||||| || || || |||||  | |||||||  ||| ||  ||   || | | |    ||     |||  |                                                      
GGATACTGCTGGCCAGGAGCGCTTCCGGAGTTTGATTCCCAGCTACATACGGGATTCGTCCGTGGCAGTCGTCGTGTACGATGTAGCGAgtaagttgttgcttc-ttgcgtttctcgatcatacaa-aacttcgcttccag------------------------------------------------

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|208346149|gb|DC917102.1|DC917102
EST:     CAGCTACATCCGGGATTCGTCCGTGGCAGTGGTTGTCTATGATGTTTCCA                         ATCGGCAATCGTTTATGAATACAGCTCGGTGGGTTGAAGAAGTCCGAACAG
genomic: CAGCTACATCCGGGATTCGTCCGTGGCAGTGGTTGTCTATGATGTTTCCAgtaagtattt ... atgtgaacagATCGGCAATCGTTTATGAATACAGCTCGGTGGGTTGAAGAAGTCCGAACAG