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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactaatgagcattatacttcatcgtctgttggcataggttagtttcagggtgtttatcaatgtttgggctattttgacgcatcgtttgttgcaatgcagGATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTAGCCTTCACTATCATTTCGCGTATTGATGACGTCCTGTATGCGGACAATC

Basic information

species Physcomitrella patens
transcript PP1S34_404V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S34_404V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: AT4G38430.1 (Arabidopsis thaliana), 3'ss of exon 4
tactaatgagcattatacttcatcgtctgttggcataggttagtttcagggtgtttatcaatgtttgggctattttgacgcatcgtttgttgcaatgcagGATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTAGCCTTCACTATCATTTCGCGTATTGATGACGTCCTGTATGCGGACAATC
       |  ||||||| ||    || || |       | | ||| ||   ||   | | ||| || |   ||||    |  | || |||     |||||||||| ||||| |||||||| |||||||||||| | ||| |||| ||  | |||||||  ||||   |  | || ||||| || || ||||  ||  || 
-------gtacattatagtttggagtgtgcttt-----gctggttgcatcatga--aacgatgcttagataatttaagagt-ttgtgtgtgttcttgcagGATGTAGGGCAATCAATTCTGGAGAGTTACTCTAGGGTGATGGAGAGCATGGCCTTCAACATCACGGCCAGAATAGATGATGTGCTTTATGTTGATGATG

upper sequence: PP1S34_404V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: Vv18s0001g00550.t01 (Vitis vinifera), 3'ss of exon 4
tactaatgagcattatacttcatc--gtctgttggcataggttagtttcagggtgtttatcaatgtttgggctattttga-cgcatcgtttgttgcaatgcagGATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTAGCCTTCACTATCATTTCGCGTATTGATGACGTCCTGTATGCGGACAATC
  | |      | | |  | || |  | ||     |||   ||   ||  |      |   ||||  |  |  | |   | || |||  ||||||   |||||||||||||||| ||||| |||||||| |||||  | ||| |||||||  |||||||||  || ||  || | || |||||  | || ||    ||  || 
-gccaggacaaagtctcttccagccagccttgcttcatccatttcattatgaactgatgaaaatggctatgaaagtgaaagcgaatcccttgttgt--tgcagGATGTGGGGCAATCAATCCTCGAGAGCTACTCCAGGGTGATGGAAAGCTTAGCCTTCAACATAATGGCGAGAATAGATGATCTTCTATACATAGATGATG

upper sequence: PP1S34_404V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 6
tactaatgagcattatacttcatcgtctgttggcataggtta--gtttcagggtgtttatcaatgtttgggctattttgacgcatcgtttgttgcaatgcagGATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTAGCCTTCACTATCATTTCGCGTATTGATGACGTCCTGTATGCGGACAATC
      ||||||    ||| ||||     ||   | | | ||   || ||||    | || | |        |   |  | | |   | | |||   |||||||||| |||||| | || || ||||| |||||| ||||| ||||||||||||| ||||  ||  || |  | ||||| || ||  |  |||  ||||   
-----gtgagca----actgcatc-caaattactaaaagctaaaattccaggaaaatcatgagtag--aaaatgactgaaaggaaaatat-ttgt--tgcagGATGTCGGGCAGGCGATCCTGGAGAGCTACTCTAGAGTGTTGGAAAGTCTAGCATTCAGCATTGTTGCTTGGATTGAAGATGTATTACATGAAGACAGAA

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|162255778|gb|FC431438.1|FC431438
EST:     CAGGGATGGCGCAGACCGTGTTAGATGCAAATAAAATTCAGTTCAACAGG                         GATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTA
genomic: CAGGGATGGCGCAGACCGTGTTAGATGCAAATAAAATTCAGTTCAACAGGgtatgatcaa ... tgcaatgcagGATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTA
EST: gi|162256220|gb|FC432276.1|FC432276
EST:     CAGGGATGGCGCAGACCGTGTTAGATGCAAATAAAATTCAGTTCAACAGG                         GATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTA
genomic: CAGGGATGGCGCAGACCGTGTTAGATGCAAATAAAATTCAGTTCAACAGGgtatgatcaa ... tgcaatgcagGATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagggtgtttatcaatgtttgggctattttgacgcatcgtttgttgcaatgcagGATGTGGGGCAGTCAATTCTCGAGAGTTACTCTCGAGTGCTGGAAAGTCTAGCCTTCACTATCATTTCGCGTATTGATGACGTCCTGTATGCGGACAATC
                           ttttgac  putative branch site (score: 3)
        tttatcaat  TA-rich tract