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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGAAGCACCTCTTAAGGCATCACCAGAGATGAAGGCGCTTTTGGACCTGGACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgcaactgctgttttctagaatttctcacatgaataagttcaaacctattttcagaagtttgtagctgctaaatatcggaataacccatacattcacatgaattggcag

Basic information

species Physcomitrella patens
transcript PP1S98_210V6.1
intron # 5
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|162202476|gb|FC379211.1|FC379211
EST:     GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|162204829|gb|FC381173.1|FC381173
EST:     GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|162169259|gb|FC345421.1|FC345421
EST:     GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|162155617|gb|FC331035.1|FC331035
EST:     GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|162202475|gb|FC379210.1|FC379210
EST:     GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|162194509|gb|FC370732.1|FC370732
EST:     GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|18333818|gb|BJ165834.1|BJ165834
EST:     CTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: CTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|162204830|gb|FC381174.1|FC381174
EST:     GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|162194508|gb|FC370731.1|FC370731
EST:     GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|37840722|gb|BJ598730.1|BJ598730
EST:     ACATTCCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: ACATT-CCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
EST: gi|162191956|gb|FC366961.1|FC366961
EST:     GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGA                         TTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA
genomic: GACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGA

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: 33 (upstream exon), 34 (downstream exon)
Score: 9

CAGAAGCACCTCTTAAGGCATCACCAGAGATGAAGGCGCTTTTGGACCTGGACATTCCTGGCGCTTTTAAAGTGTTCTTGGCTAAACAAATTAGTTCTGAgtaagttgca ... gaattggcagTTTGACAGATAGCACATCATCATTGGTGGAGAATTCGGTGATCATCGGCGAACGGAACCGAATCGCTATGGACGAACTTGAAGCTTCCTTTAAGGAGGGT




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