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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATACTTCAATTGTGCCGTCATAAATCCAAAAGCTGAGCGGCAATGGCCTCGAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAGgtaattaatatctcaaaactgtcacgtctattcctcttcgaacttccggtgaatgctacttagtacttttgtgtgtgtctcgagcttctgaagcacgaca...

Basic information

species Physcomitrella patens
transcript PP1S48_57V6.2
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|208395513|gb|DC928928.1|DC928928
EST:     GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAG                         AGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG
genomic: GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAGgtaattaata ... gaatctgtagAGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG
EST: gi|100384943|gb|BY969678.1|BY969678
EST:     GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAG                         AGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG
genomic: GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAGgtaattaata ... gaatctgtagAGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG
EST: gi|18366577|gb|BJ198656.1|BJ198656
EST:     GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAG                         AGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG
genomic: GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAGgtaattaata ... gaatctgtagAGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG
EST: gi|19787903|gb|BQ040684.1|BQ040684
EST:     GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAG                         AGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG
genomic: GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAGgtaattaata ... gaatctgtagAGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG
EST: gi|18370166|gb|BJ201768.1|BJ201768
EST:     GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAG                         AGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG
genomic: GAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAGgtaattaata ... gaatctgtagAGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTG

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: 19 (upstream exon), 31 (downstream exon)
Score: 2

ATACTTCAATTGTGCCGTCATAAATCCAAAAGCTGAGCGGCAATGGCCTCGAAGTACATTGACGTTATGGGCGTTCTTTTGTTATTGCTAGTAGCCTCAGgtaattaata ... gaatctgtagAGGGCGTTCGGAAGTACCTGACAATGCAAGACTTGGCGAGAATCCAGGCTGAAGCTGCACAG




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