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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCACAATTAAGCGTGGAGTGGGAACGGATACGTGTGTGAGCGTGAACTACGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattgcgtgcactcattacagggatccgtgttacctcaattgtttagccgtttaccgtaatcaagtctcgttctcttctaccattgcccagaattgttcagagtcaaagttcgctgtggatacggtaggcaacggtgcgaagactaatggagcttgtgattttgacgagatcag

Basic information

species Physcomitrella patens
transcript PP1S205_25V6.1
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|162153879|gb|FC330010.1|FC330010
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|100407600|gb|BY991774.1|BY991774
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|162178857|gb|FC354789.1|FC354789
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|162169105|gb|FC345995.1|FC345995
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|162156500|gb|FC332108.1|FC332108
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|208360056|gb|DC939332.1|DC939332
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|208374258|gb|DC941127.1|DC941127
EST:     CGATGACTNCNTGAATGACNTTGAAAGCGNANACACC-TGCTTATCGATG                         GANGCATGATGTC
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTC
EST: gi|162278586|gb|FC454048.1|FC454048
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|162177062|gb|FC353115.1|FC353115
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|162187679|gb|FC364630.1|FC364630
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|162179457|gb|FC355457.1|FC355457
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|162159393|gb|FC334661.1|FC334661
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
EST: gi|162181032|gb|FC358686.1|FC358686
EST:     CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATG                         GAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT
genomic: CGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCT

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), 35 (downstream exon)
Score: 19

TTCACAATTAAGCGTGGAGTGGGAACGGATACGTGTGTGAGCGTGAACTACGATGACTTCGTGAATGACGTTGAAAGCGGAGACACCCTGCTTATCGATGgtaagtattg ... acgagatcagGAGGCATGATGTCGCTAGAGGTAAAGTCGAAGACGCATGAGGAAGTTCTCTGTGAGGTAGTGGACGGGGGTGAACTGAAGTCTCGTCGTCATCTCAACGT




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