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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAATTGCAGTTGGAGCCTGCTACAAGTGGAATTCTTCCTGCTAATTCAACCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcgttcagtgctttttcaacttccttttttacatgtgttggtaaaccttgattttaggtgctcctcacgaccagcttgctcacttcagcgttcttacatgtgttgatattgcag

Basic information

species Physcomitrella patens
transcript PP1S26_191V6.1
intron # 17
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|162191131|gb|FC367393.1|FC367393
EST:     CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAG                         AAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
genomic: CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcg ... gatattgcagAAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
EST: gi|37820996|gb|BJ579062.1|BJ579062
EST:     CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAG                         AAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAAGGGAAACAAT
genomic: CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcg ... gatattgcagAAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
EST: gi|37852688|gb|BJ610696.1|BJ610696
EST:     CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAG                         AAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
genomic: CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcg ... gatattgcagAAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
EST: gi|22492795|gb|BU052718.1|BU052718
EST:     CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAG                         AAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
genomic: CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcg ... gatattgcagAAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
EST: gi|162191132|gb|FC367394.1|FC367394
EST:     CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAG                         AAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
genomic: CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcg ... gatattgcagAAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
EST: gi|37822697|gb|BJ580763.1|BJ580763
EST:     CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAG                         AAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
genomic: CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcg ... gatattgcagAAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
EST: gi|162162150|gb|FC337724.1|FC337724
EST:     CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAG                         AAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
genomic: CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcg ... gatattgcagAAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
EST: gi|162232498|gb|FC408880.1|FC408880
EST:     CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAG                         AAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT
genomic: CCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcg ... gatattgcagAAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAAT

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: 30 (upstream exon), 35 (downstream exon)
Score: 13

GCAATTGCAGTTGGAGCCTGCTACAAGTGGAATTCTTCCTGCTAATTCAACCAACTCAGTCACACAATTGATCAGACTCACCAACAATATGCATGGGCAGgtactattcg ... gatattgcagAAAGCTTTAGTCATGAAGTTGAGAGTGAGCTACAAGGCAAATGGAAACAATGTACTAGAGCAAGGGCAAGTTAATAACTTCCCTGCCGGGTTGTAGTAAT




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