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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGCCCGCATTGGAGTTGATGAAGAGCGTTAAGTCGCCGGAAGGAGAGATGCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCGgtgtgttttctcaattggtttcggctcttttggcgtttgtagatttgaagaggctttttgttgttctgttttgcgtttcttcacaggggagtgctatgtg...

Basic information

species Physcomitrella patens
transcript PP1S98_36V6.3
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|208373612|gb|DC952437.1|DC952437
EST:     TGTCGGAATGTG-TGCCTGTGATCG                         ACAAGTTT-GGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCANCA
genomic: TGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
EST: gi|208386562|gb|DC956882.1|DC956882
EST:     GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCG                         ACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
genomic: GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
EST: gi|67698630|gb|BJ958863.1|BJ958863
EST:     CTGTCGGAATGTGTTGCCTGTGATCG                         ACNAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
genomic: CTGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
EST: gi|208366007|gb|DC951180.1|DC951180
EST:     GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCG                         ACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
genomic: GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
EST: gi|208360960|gb|DC957481.1|DC957481
EST:     GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCG                         ACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
genomic: GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
EST: gi|208346548|gb|DC916814.1|DC916814
EST:     TCGGAATGTGTTGCCTGTGATCG                         ACNAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
genomic: TCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
EST: gi|162271188|gb|FC446137.1|FC446137
EST:     GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCG                         ACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
genomic: GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
EST: gi|100422425|gb|BY976367.1|BY976367
EST:     GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCG                         ACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
genomic: GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
EST: gi|208363377|gb|DC946975.1|DC946975
EST:     TGTCGGAATGTGTTGCCTGTGATCG                         ACNAG-TTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
genomic: TGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
EST: gi|208363326|gb|DC935493.1|DC935493
EST:     GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCG                         ACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA
genomic: GCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACA

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: 24 (upstream exon), 34 (downstream exon)
Score: 7

GGGCCCGCATTGGAGTTGATGAAGAGCGTTAAGTCGCCGGAAGGAGAGATGCTCACGAAGCCTTTTCTTGACGTCTGTCGGAATGTGTTGCCTGTGATCGgtgtgttttc ... gccttttcagACAAGTTTGGGAGTTCCATGGCACTTGTGAAATCTGATGTTGGCGGCAACATTTCG




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