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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGTTGTGCGAGGAGAAATGATTGAATACTACGACGTCTCAGGTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcagatgaagccttcgcctccatttattggaacattgtctatttaacagcttataaagaaaattaaagctcagccttctgtgtgcgtcaacgctatgttgtctgattgtgggatgcggactacgacagattttcatgtgtccgtgcgtgtaaatgcag

Basic information

species Physcomitrella patens
transcript PP1S7_175V6.1
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|100387432|gb|BY988303.1|BY988303
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|18344073|gb|BJ176112.1|BJ176112
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|18350576|gb|BJ182627.1|BJ182627
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|100443225|gb|BY963521.1|BY963521
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|18360143|gb|BJ192205.1|BJ192205
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|100439329|gb|BY980209.1|BY980209
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|100451310|gb|CJ974701.1|CJ974701
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|18349320|gb|BJ181369.1|BJ181369
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|100389088|gb|BY952292.1|BY952292
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|162158888|gb|FC333955.1|FC333955
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|18364143|gb|BJ196216.1|BJ196216
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|18348271|gb|BJ180318.1|BJ180318
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|162237815|gb|FC413924.1|FC413924
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
EST: gi|100370301|gb|BY985342.1|BY985342
EST:     GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAG                         GACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC
genomic: GTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTC

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), 33 (downstream exon)
Score: 4

GTCGTTGTGCGAGGAGAAATGATTGAATACTACGACGTCTCAGGTTGCTACATCCTTCGTCCATGGTCTTACTCAATCTGGGAATCTATTAAGgtatactcag ... gtaaatgcagGACTTTTTTGACAAGGAAATTAAGAAAATGGGCATCGAGAACACCTACTTCCCTCTTTTTGTTTCAGAGAAGGCCTTGACAAAAGAGAAAGATCATGTTG




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