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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATTTGTACAAAGCTTACGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatgcttgtcatcagttgcaattataaacctggttatcaaatttagaatgattataagttcctagccaatcgaggattgttggattagaggcct...

Basic information

species Physcomitrella patens
transcript PP1S41_177V6.1
intron # 5
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|162192525|gb|FC368635.1|FC368635
EST:     CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAG                         ATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
genomic: CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
EST: gi|162230102|gb|FC406250.1|FC406250
EST:     CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAG                         ATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
genomic: CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
EST: gi|208350063|gb|DC910298.1|DC910298
EST:     CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAG                         ATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
genomic: CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
EST: gi|162263739|gb|FC439638.1|FC439638
EST:     CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAG                         ATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
genomic: CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
EST: gi|100353603|gb|BY964889.1|BY964889
EST:     CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAG                         ATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
genomic: CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
EST: gi|208354187|gb|DC902443.1|DC902443
EST:     CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAG                         ATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
genomic: CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
EST: gi|162249310|gb|FC423980.1|FC423980
EST:     CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAG                         ATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
genomic: CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
EST: gi|100389012|gb|BY952216.1|BY952216
EST:     CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAG                         ATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
genomic: CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
EST: gi|67569370|gb|BJ942194.1|BJ942194
EST:     CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAG                         ATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA
genomic: CGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCA

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: 28 (upstream exon), 33 (downstream exon)
Score: 6

CCATTTGTACAAAGCTTACGGGCATGCTCAAAGTCAGGTCTGCACAACCCGCTTAAGAATCCCGAAAGgtgtgttatg ... attcctgcagATACTTGCTTTACGGAGATATCATGGCTAAGGCAGCTCACTTGCTGAAGCAACCTCAG




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