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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGAAGCCCAAGGACATGCCACTGTGTTCGTGGCGAAGTTCTTTGGTCGCGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTGgtatgcatcaatccctgtcgcaactctcaaatcactgcatgagattaattacttgtgaagttacaactgaacctacttgcttggaaggatgcacatgccc...

Basic information

species Physcomitrella patens
transcript PP1S41_47V6.1
intron # 2
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|162183135|gb|FC360090.1|FC360090
EST:     CGCAGGACTCATGGGTTTTATTAGCGCCGTACCAGAAAACCAACGCTCTG                         CGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
genomic: CGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTGgtatgcatca ... tgttgcgcagCGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
EST: gi|162173241|gb|FC350023.1|FC350023
EST:     CGCAGGACTCATGGGTTTTATTAGCGCCGTACCAGAAAACCAACGCTCTG                         CGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
genomic: CGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTGgtatgcatca ... tgttgcgcagCGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
EST: gi|162209720|gb|FC385654.1|FC385654
EST:     CGCAGGACTCATGGGTTTTATTAGCGCCGTACCAGAAAACCAACGCTCTG                         CGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
genomic: CGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTGgtatgcatca ... tgttgcgcagCGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
EST: gi|162184460|gb|FC359206.1|FC359206
EST:     CGCAGGACTCATGGGTTTTATTAGCGCCGTACCAGAAAACCAACGCTCTG                         CGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
genomic: CGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTGgtatgcatca ... tgttgcgcagCGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
EST: gi|162270240|gb|FC447252.1|FC447252
EST:     CGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTG                         CGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
genomic: CGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTGgtatgcatca ... tgttgcgcagCGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
EST: gi|162257217|gb|FC433093.1|FC433093
EST:     CGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTG                         CGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG
genomic: CGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTGgtatgcatca ... tgttgcgcagCGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGG

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: 34 (upstream exon), 34 (downstream exon)
Score: 18

TCGGAAGCCCAAGGACATGCCACTGTGTTCGTGGCGAAGTTCTTTGGTCGCGCAGGACTCATGGGCTTTATTAGCGCCGTACCAGAAAACCAACGCTCTGgtatgcatca ... tgttgcgcagCGTTATTTCAGTCTCTGCTCTACGAGGCCTGTGGACGGACGGTGAATCCGGTGTTCGGCGCAGTGGGCCTTCTCTGGAGTGGGAATTGGCAAATCTGCCA




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