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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcgaaagctgctcttgggccttggttttgaaggtcgtgtcctaaatgttttcaatttattttttctttctgaaccttgcgtttgttacatggtgtgtagGGTGCTTCAACTGCATGGAACGTACCCATTGCATTTATAAGCGTGATCATATTGCCAATTGTTGGAAACGCCGCAGAACATGCGAGTGCTATTATGTTTG

Basic information

species Physcomitrella patens
transcript PP1S21_141V6.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S21_141V6.3 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ33760 (Selaginella moellendorffii), 3'ss of exon 4
atcgaaagctgctcttgggccttggttttgaaggtcgtgtcctaaatgttttcaatttattttttctttctgaaccttgcgtttgttacatgg-tgtgtagGGTGCTTCAACTGCATGGAACGTACCCATTGCATTTATAAGCGTGATCATATTGCCAATTGTTGGAAACGCCGCAGAACATGCGAGTGCTATTATGTTTG
                                              || |||  |||   | |||  |||      |  |  || |  | ||| ||   |||||||  |       |||||| | ||  | || ||||| ||||||||||| ||||||||||||||||| || ||||| |||||||| ||||| |||||||
---------------------------------------------gtgattttgattatctctttgattcg----ttctcacttctcgcttggctgcacagGGTGCCGCCGACAGTTGGAACATCCCTGTGGCTTTTATCAGCGTGATCATCTTGCCAATTGTTGGAAATGCGGCAGAGCATGCGAGCGCTATAATGTTTG

upper sequence: PP1S21_141V6.3 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ12361 (Selaginella moellendorffii), 3'ss of exon 4
atcgaaagctgctcttgggccttggttttgaaggtcgtgtcctaaatgttttcaatttattttttctttctgaaccttgcgtttgttacatgg-tgtgtagGGTGCTTCAACTGCATGGAACGTACCCATTGCATTTATAAGCGTGATCATATTGCCAATTGTTGGAAACGCCGCAGAACATGCGAGTGCTATTATGTTTG
                                              || |||  |||   | |||  |||      |  |  || |  | ||| ||   |||||||  |       |||||| | ||  | || ||||| ||||||||||| ||||||||||||||||| || ||||| |||||||| ||||| |||||||
---------------------------------------------gtgattttgattatctctttgattcg----ttctcacttctcgcttggctgctcagGGTGCCGCCGACAGTTGGAACATCCCTGTGGCTTTTATCAGCGTGATCATCTTGCCAATTGTTGGAAATGCGGCAGAGCATGCGAGCGCTATAATGTTTG
















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|100420664|gb|BY993453.1|BY993453
EST:     TGACTCTCTTTATCTCCATACTGTCGGAATATTTGGTTGATGCAATCGAG                         GGTGCTTCAACTGCATGGAACGTACCCATTGCATTTATAAGCGTGATCATA
genomic: TGACTCTCTTTATCTCCATACTGTCGGAATATTTGGTTGATGCAATCGAGgtatgctttt ... tggtgtgtagGGTGCTTCAACTGCATGGAACGTACCCATTGCATTTATAAGCGTGATCATA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttttcaatttattttttctttctgaaccttgcgtttgttacatggtgtgtagGGTGCTTCAACTGCATGGAACGTACCCATTGCATTTATAAGCGTGATCATATTGCCAATTGTTGGAAACGCCGCAGAACATGCGAGTGCTATTATGTTTG
     ttcaatttattttttc  TA-rich tract