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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagttattattctaaaccaactttgcggcttagctttttatattcttttcccttgcaatatcttcatggcactgaacagaatggatccttgcctatgcagTTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGGAAACGCCTTCGACAACAGGATCGATGCGAAGCGAACACTGCGTGAAATA

Basic information

species Physcomitrella patens
transcript PP1S149_39V6.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S149_39V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ22596 (Selaginella moellendorffii), 3'ss of exon 1
gagttattattctaaaccaactttgcggcttagctttttatattcttttcccttgcaatatcttcatggcactgaacagaatggatccttgcctatgcagTTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGGAAACGCCTTCGACAACAGGATCGATGCGAAGCGAACACTGCGTGAAATA
  || | | | ||    |  ||  |   |  |  ||    |    ||  |||||||  |    |||  || |        ||      || |     ||| ||     |  | | ||  ||    || || || ||  |||| || || || || ||||||||||||||||||||||| ||||| ||| |||| || || 
--gtgagtgtgctccttc--ctccgtctcccaa-ttggggtcgatttgccccttgcc-tgctctcaaagctcgccgtctcataccaagtttcacgcacagCTCTGCAGTGAACAGCGAGACCAACGAAGAAGTTGCTATCAAGAAAATCGGCAATGCCTTCGACAACAGGATCGATGCCAAGCGCACATTGCGCGAGATC
















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|162233698|gb|FC409964.1|FC409964
EST:     TACAAGCCACCACTTCGTCCGATTGGGCGCGGAGCTTATGGAATCGTCTG                         TTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGG
genomic: TACAAGCCACCACTTCGTCCGATTGGGCGCGGAGCTTATGGAATCGTCTGgttagaatcc ... gcctatgcagTTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGG
EST: gi|162154102|gb|FC330545.1|FC330545
EST:     TACAAGCCACCACTTCGTCCGATTGGGCGCGGAGCTTATGGAATCGTCTG                         TTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGG
genomic: TACAAGCCACCACTTCGTCCGATTGGGCGCGGAGCTTATGGAATCGTCTGgttagaatcc ... gcctatgcagTTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGG
EST: gi|100357153|gb|BY983720.1|BY983720
EST:     TACAAGCCACCACTTCGTCCGATTGGGCGCGGAGCTTATGGAATCGTCTG                         TTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGG
genomic: TACAAGCCACCACTTCGTCCGATTGGGCGCGGAGCTTATGGAATCGTCTGgttagaatcc ... gcctatgcagTTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGG
EST: gi|18347968|gb|BJ180015.1|BJ180015
EST:     TACAAGCCACCACTTCGTCCGATTGGGCGCGGAGCTTATGGAATCGTCTG                         TTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGG
genomic: TACAAGCCACCACTTCGTCCGATTGGGCGCGGAGCTTATGGAATCGTCTGgttagaatcc ... gcctatgcagTTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcccttgcaatatcttcatggcactgaacagaatggatccttgcctatgcagTTCACTCTTTGATACCGTTACGGGTGAGGAGGTGGCGGTCAAAAAGATTGGAAACGCCTTCGACAACAGGATCGATGCGAAGCGAACACTGCGTGAAATA
                                        tccttgcct  CT-rich tract
           aatatctt  TA-rich tract