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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGCTGACATTAGCTGCTGGTGTTGAGCGAACCGCATCTCACCCTATTGCTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTGgtttgtgcagtcacatctttgagattatgtccatttttggttggtgcgatatcatgacagatatgattcactcgacatacctggtaaaagtggctgtttttacacgattacag

Basic information

species Physcomitrella patens
transcript PP1S121_53V6.1
intron # 12
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|162234164|gb|FC410768.1|FC410768
EST:     CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGC-GCCAAGCAGTG                         GTCCAGGAGTCTACGTTTGAACAGG
genomic: CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTGgtttgtgcag ... acgattacagGTCCAGGAGTCTACGTTTGAACAGG
EST: gi|100417161|gb|BY957198.1|BY957198
EST:     CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTG                         GTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT
genomic: CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTGgtttgtgcag ... acgattacagGTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT
EST: gi|162168676|gb|FC343938.1|FC343938
EST:     CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTG                         GTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT
genomic: CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTGgtttgtgcag ... acgattacagGTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT
EST: gi|162177316|gb|FC353473.1|FC353473
EST:     CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTG                         GTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT
genomic: CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTGgtttgtgcag ... acgattacagGTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT
EST: gi|162164775|gb|FC341316.1|FC341316
EST:     CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTG                         GTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT
genomic: CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTGgtttgtgcag ... acgattacagGTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT
EST: gi|162214364|gb|FC390083.1|FC390083
EST:     CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTG                         GTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT
genomic: CTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTGgtttgtgcag ... acgattacagGTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATT

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), 33 (downstream exon)
Score: 13

TTTGCTGACATTAGCTGCTGGTGTTGAGCGAACCGCATCTCACCCTATTGCTAAGGCGCTGGTCCAGGCAGCAACAAGCGCTGGTTGCCGCCAAGCAGTGgtttgtgcag ... acgattacagGTCCAGGAGTCTACGTTTGAACAGGAACCAGGGAGTGGAGCCAAAGCTATTGTTGAAGGGAAGCTTGTAACTGTGGGCACGTTAGAATGGCTTCGCAG




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