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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtatattcctgattttcctggtacttgattgtacttcttttcttgtccgaatataaatcatgattcattagatctttattgagaatagctccaagtcctgagttagttccagattgtttgaaactttgaaagaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCGACCATCCTGACACATGGATTTTCAAGAGTGGTGCTGAACTTGCTGAAAC

Basic information

species Physcomitrella patens
transcript PP1S96_37V6.1
intron # 4
splice site 3'
intron type U2

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|162190305|gb|FC366463.1|FC366463
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208359160|gb|DC934663.1|DC934663
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208400609|gb|DC904585.1|DC904585
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208397989|gb|DC920721.1|DC920721
EST:     AAGCACGTTTAATTGAGCGTGGGGAGAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|37852566|gb|BJ610574.1|BJ610574
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208394905|gb|DC920192.1|DC920192
EST:     AGCACGTTTAANTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTNTAAATGGATCG
genomic: AGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208373028|gb|DC948793.1|DC948793
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208360788|gb|DC946484.1|DC946484
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208374643|gb|DC931982.1|DC931982
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208370080|gb|DC948147.1|DC948147
EST:     AAGCACGTTTNATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208353378|gb|DC918476.1|DC918476
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208352201|gb|DC906304.1|DC906304
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|67698107|gb|BJ958340.1|BJ958340
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208394901|gb|DC920188.1|DC920188
EST:     AGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTNGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGT-GAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctccaagtcctgagttagttccagattgtttgaaactttgaaagaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCGACCATCCTGACACATGGATTTTCAAGAGTGGTGCTGAACTTGCTGAAAC
                           attgttt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactgtatattcctgattttcctggtacttgattgtacttcttttcttgtccgaatataaatcatgattcattagatctttattgagaatagctccaagtcctgagttagttccagattgtttgaaactttgaaagaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCGACCATCCTGACACATGGATTTTCAAGAGTGGTGCTGAACTTGCTGAAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA