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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGCGCGTGGAGCTGTCTTCGGTGGATCCAGCCACCACTCTCCTCTCGTACATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaatccttgacacaattcctgctttgtgggtctactgcttcgatgagaccacgcaagggataagggtgtgtttgtttatttgttttgatgaggaatttgttatggtttttgtgttcag

Basic information

species Physcomitrella patens
transcript PP1S93_48V6.1
intron # 1
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|18360415|gb|BJ192477.1|BJ192477
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18358528|gb|BJ190587.1|BJ190587
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18374763|gb|BJ206341.1|BJ206341
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18331389|gb|BJ163400.1|BJ163400
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18359969|gb|BJ192030.1|BJ192030
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18362025|gb|BJ194092.1|BJ194092
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18371212|gb|BJ202814.1|BJ202814
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18371996|gb|BJ203598.1|BJ203598
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18328907|gb|BJ160913.1|BJ160913
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18367560|gb|BJ199643.1|BJ199643
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18328188|gb|BJ160192.1|BJ160192
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18368771|gb|BJ200856.1|BJ200856
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18365813|gb|BJ197891.1|BJ197891
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
EST: gi|18373515|gb|BJ205093.1|BJ205093
EST:     CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAG                         GTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA
genomic: CATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCA

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: 31 (upstream exon), 35 (downstream exon)
Score: 7

CAGCGCGTGGAGCTGTCTTCGGTGGATCCAGCCACCACTCTCCTCTCGTACATTCGCAGTGAGACACCTTTCAAAGGCACCAAGCGAGGGTGTGGCGAAGgtaaagaaat ... ttgtgttcagGTGGCTGTGGAGCATGTGTGGTAATGTTGGCGAGGTACAACCCTGTCACCAAAGAAGTCAAGGAAAGTTCCGTTAATTCGTGCTTGGTGTTACTCTGCTC




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