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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCAAGCTCTGAGCAACACGCATCTGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaagtttgcgtgctcacacttcttcaggtggtctgcagaagttaatttcatttgaattcctcttttggttttattcaacgtcgattaaggtcg...

Basic information

species Physcomitrella patens
transcript PP1S97_54V6.4
intron # 3
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|37841964|gb|BJ599972.1|BJ599972
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|18332442|gb|BJ164455.1|BJ164455
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|208388641|gb|DC953431.1|DC953431
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGCAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|67696509|gb|BJ956742.1|BJ956742
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|37835663|gb|BJ593675.1|BJ593675
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|18337853|gb|BJ169877.1|BJ169877
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|162249476|gb|FC426746.1|FC426746
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|18338064|gb|BJ170088.1|BJ170088
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|67574156|gb|BJ946980.1|BJ946980
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|162248874|gb|FC422881.1|FC422881
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|18341780|gb|BJ173815.1|BJ173815
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|37850242|gb|BJ608250.1|BJ608250
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|18364771|gb|BJ196844.1|BJ196844
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|37845267|gb|BJ603275.1|BJ603275
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|37853392|gb|BJ611400.1|BJ611400
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|18354273|gb|BJ186329.1|BJ186329
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|67697554|gb|BJ957787.1|BJ957787
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|162258316|gb|FC434243.1|FC434243
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|162210551|gb|FC386847.1|FC386847
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|37835745|gb|BJ593757.1|BJ593757
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|162224213|gb|FC399277.1|FC399277
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|208368661|gb|DC947936.1|DC947936
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|162258317|gb|FC434244.1|FC434244
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|18354193|gb|BJ186249.1|BJ186249
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|67692998|gb|BJ953231.1|BJ953231
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|67573124|gb|BJ945948.1|BJ945948
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|162249477|gb|FC426747.1|FC426747
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|67569732|gb|BJ942556.1|BJ942556
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|162210550|gb|FC386846.1|FC386846
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
EST: gi|67508263|gb|BJ941132.1|BJ941132
EST:     TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAG                         CCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC
genomic: TGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTC

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: 48

CTTCAAGCTCTGAGCAACACGCATCTGAGTAGTATGGTTGAGTTGTATTCGACTCTTACAGCCCGAAGTAACCAGgtactactaa ... ctttgcgcagCCTATGCCAGCGGAGCAACTTCAAAAGCTGAAGCATTATAAGGACGTTCTCCACAGAATGATCCCTTATATGAGAGTTCCGAAGGAGCGTATACCAGCTG




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