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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCGGCTAGTGAAGTAGCTGAAGGAAAGTTGACCGACCATTTTCCACTTGTTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAGgtacttcccaacttgtactgcgagcttgataatattgattactgtgctctactgttattcgcctatcattcagaagtcgagaacatcatctaaataacaggtggcgtacaattcatttagtcattttggctctttcatgtgcttgaatag

Basic information

species Physcomitrella patens
transcript PP1S9_243V6.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S9_243V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 5'ss of exon 3
AGCGGCTAGTGAAGTAGCTGAAGGAAAGTTGACCGACCATTTTCCACTTGTTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAGgtactt----cccaacttgtactgcgagcttgataatattgattactgtgctctactgttattcgcctatcattcagaagtcgagaacatcatctaaataacaggtggcgtacaattcatttagtcattttggctctttcatgtgcttgaatag
 || |||   || || ||||||||| ||||    ||||| |||||||||||| | |||||||| || || ||||| |||| |||||||||| | ||||||||  ||    ||||   || ||| | |   |   |||  |   ||||||    ||||  || |    | |  | |       |  ||  |    ||||     |                                                  
GGCTGCTCAGGAGGTTGCTGAAGGACAGTTAGATGACCACTTTCCACTTGTTATCTGGCAAACTGGGAGTGGCACACAAAGCAACATGAACGCCAATGAGgtttttttttcccattatgcactactattgtatgaattgtctatactgtttgttactaataattaaatgtggtac-----ctgccaatgtgcgttaaagctttga-------------------------------------------------

upper sequence: PP1S9_243V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA02G01920.1 (Glycine max), 5'ss of exon 3
AGCGGCTAGTGAAGTAGCTGAAGGAAAGTTGACCGACCATTTTCCACTTGTTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAGgtacttcccaacttgtactgcgagcttgataatattgattactgtgctctactgttattcgcctatcattcagaagtcgagaacatcatctaaataacaggtggcgtacaattcatttagtcattttggctctttcatgtgcttgaatag
||||||    ||||| || || |||||  | | |||||||||||| || ||||| |||||||| ||||| ||||||||||  ||||||||  |||| |||||  |    |  |  | || |   ||   || | ||||   |||  |   ||  | ||   |     ||  | | ||       | ||| |||  | |                                                    
AGCGGCACAAGAAGTGGCCGAGGGAAAACTAAACGACCATTTTCCTCTCGTTGTATGGCAAACTGGCAGTGGCACTCAAAGTAACATGAATGCTAACGAGgt--taattagttactgcttcctact-attatttttga--gctgcacctaaccttaatgttctgcatataaatatgttatagctaacatttaaggatcttagatt---------------------------------------------
















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|18360863|gb|BJ192926.1|BJ192926
EST:     TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAG                         GTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCAT
genomic: TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAGgtacttccca ... gcttgaatagGTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCAT
EST: gi|162192987|gb|FC369903.1|FC369903
EST:     TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAG                         GTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCATTGGCAGCAAA
genomic: TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAGgtacttccca ... gcttgaatagGTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCATTGGCAGCAAA
EST: gi|162189500|gb|FC365514.1|FC365514
EST:     TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAG                         GTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCATTGGCAGCAAA
genomic: TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAGgtacttccca ... gcttgaatagGTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCATTGGCAGCAAA
EST: gi|18361637|gb|BJ193703.1|BJ193703
EST:     TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAG                         GTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCATTGGCAGCA
genomic: TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAGgtacttccca ... gcttgaatagGTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCATTGGCAGCA
EST: gi|18368538|gb|BJ200623.1|BJ200623
EST:     TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAG                         GTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCATTGGCAGCA
genomic: TTGTTTGGCAAACGGGCAGCGGCACTCAAACCAACATGAACTCTAATGAGgtacttccca ... gcttgaatagGTGATTGCAAATCGTGCGGGTGAGATTCTTGGCATTCCCATTGGCAGCA