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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGTCACACGAACGACTGCACTAGAGTATGAGGACATTCGGGCTGGCAAAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtatattcctgattttcctggtacttgattgtacttcttttcttgtccgaatataaatcatgattcattagatctttattgagaatagctccaagtcctgagttagttccagattgtttgaaactttgaaagaactgcag

Basic information

species Physcomitrella patens
transcript PP1S96_37V6.2
intron # 4
splice site 5'
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|67574689|gb|BJ947513.1|BJ947513
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAANTGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208352205|gb|DC906308.1|DC906308
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208392681|gb|DC934011.1|DC934011
EST:     AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|100443744|gb|BY963841.1|BY963841
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|100386432|gb|BY951228.1|BY951228
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|208370080|gb|DC948147.1|DC948147
EST:     AAGCACGTTTNATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208376907|gb|DC906848.1|DC906848
EST:     AAGCACGTTTAATTGAGCGTGGGGAGAGGTTTGGTGAAATATCTCAGAAG                         GCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
genomic: AAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCG
EST: gi|208353378|gb|DC918476.1|DC918476
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

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 26 (downstream exon)
Score: 9

GTATGTCACACGAACGACTGCACTAGAGTATGAGGACATTCGGGCTGGCAAAGCACGTTTAATTGAGCGTGGGGAAAGGTTTGGTGAAATATCTCAGAAGgtactgtata ... agaactgcagGCTCGACGAACGATTGCAATGCTTGGACAAGATTTTATTCTAAATGGATCGACCATCCTGACACATGGATTTTCAAGAGTGGTGCTGAACTTGCTGAAAC




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