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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtccggtatctctgggtggaaaatttatgtgagtacatcttagccatgttgccgataattgcttggtagcggacgtatgtgttgccaccagcg...

Basic information

species Physcomitrella patens
transcript PP1S367_8V6.1
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|208398286|gb|DC912299.1|DC912299
EST:     CGATTCGACTTCACAAAGCCACTCAATNAACGGTTTTCACTAAGTCANAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCACCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|18366481|gb|BJ198560.1|BJ198560
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|100390127|gb|BY989207.1|BY989207
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|67575990|gb|BJ948814.1|BJ948814
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|67717560|gb|BJ967819.1|BJ967819
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|67716961|gb|BJ967220.1|BJ967220
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|162242296|gb|FC418873.1|FC418873
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|208357650|gb|DC934116.1|DC934116
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|18342298|gb|BJ174333.1|BJ174333
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|208344796|gb|DC912630.1|DC912630
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|208374571|gb|DC940760.1|DC940760
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
EST: gi|100413081|gb|BY992578.1|BY992578
EST:     CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG                         TTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA
genomic: CGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAA

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: 13 (upstream exon), 33 (downstream exon)
Score: 5

TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAGgtgaggagtc ... attgttgcagTTTGTTTATGGGCTCAGTGGAGGTGCCATCCCAAGGGGCGCAGATCATCAAAGTTCCAGCGGCTCATTATGAGTTCGGAGCAAACCTTATCGACCAACGG




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