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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTGCACTCCTTGGAAAAATTGATGAGAAGATTATTGACATGTATGACATGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcctattaccaaaaaaattcgaatgtccagcagggttggcgatgaagttgaagggttaaattcacttcaaatctattggtgaccatttctggatcatgtgtgttaagtagtttgatctttctgtacgtgtggcag

Basic information

species Physcomitrella patens
transcript PP1S100_23V6.1
intron # 11
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|37840302|gb|BJ598310.1|BJ598310
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|208373324|gb|DC944967.1|DC944967
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|162159099|gb|FC334270.1|FC334270
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|208372810|gb|DC956211.1|DC956211
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|67698955|gb|BJ959188.1|BJ959188
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|37837357|gb|BJ595365.1|BJ595365
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|18335062|gb|BJ167080.1|BJ167080
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|162225721|gb|FC401863.1|FC401863
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|37847853|gb|BJ605861.1|BJ605861
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|208371608|gb|DC952250.1|DC952250
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|162159100|gb|FC334271.1|FC334271
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
EST: gi|37852235|gb|BJ610243.1|BJ610243
EST:     TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAG                         AGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA
genomic: TGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCA

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: 32 (upstream exon), 33 (downstream exon)
Score: 3

GCTTGCACTCCTTGGAAAAATTGATGAGAAGATTATTGACATGTATGACATGTACGAGCCAGTCAATGATTCTTCACTTGACAACTGCTTCATTTCGAAGgtattagcct ... cgtgtggcagAGCTACGATCCAACAACTCACTTCGAGACGACAGTGCAAGATGTACTTTCAATGTATACCAAAATCACTGGAAAG




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