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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTTTCAGTCTTGTTGGTGCAAGGCCTTGATTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttggccctccttcagcctctgaaagcgttgatttaattcttctaaccctattttctagctccttgtgcgtactggtttttcctccatttcttca...

Basic information

species Physcomitrella patens
transcript PP1S461_1V6.1
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|18373420|gb|BJ204998.1|BJ204998
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|162259879|gb|FC436014.1|FC436014
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|22492080|gb|BU052003.1|BU052003
EST:     TGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|67569698|gb|BJ942522.1|BJ942522
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|18353813|gb|BJ185868.1|BJ185868
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|18351557|gb|BJ183609.1|BJ183609
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|208397549|gb|DC912167.1|DC912167
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|162228344|gb|FC405216.1|FC405216
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|162204462|gb|FC381690.1|FC381690
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|162234371|gb|FC410117.1|FC410117
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|18331744|gb|BJ163755.1|BJ163755
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|67576478|gb|BJ949302.1|BJ949302
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|67573367|gb|BJ946191.1|BJ946191
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|67569443|gb|BJ942267.1|BJ942267
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|18355712|gb|BJ187771.1|BJ187771
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|162271080|gb|FC446614.1|FC446614
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|18357974|gb|BJ190033.1|BJ190033
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
EST: gi|162211721|gb|FC388009.1|FC388009
EST:     TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATG                         GCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG
genomic: TTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGG

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), 24 (downstream exon)
Score: 28

CTCTTTCAGTCTTGTTGGTGCAAGGCCTTGATTGCTCTGCCGTGCCGTTGCTGTGCTGTGCCAGCCTCTCCGATCGCCATGgtactcttgg ... tgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTTGACAAGTTGGGTGGTGCCTTC




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