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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATTTAATGGAAAAGATAGAGAAGGAGAACTTGCTGCACCGTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagctcgctaaagcatttgtacacccttttccgttcgtgccaagcatccaccatattcgaatccttgaaaatgaggattttgtagtttcgaggca...

Basic information

species Physcomitrella patens
transcript PP1S28_399V6.1
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|208375041|gb|DC956423.1|DC956423
EST:     TTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: TTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100367664|gb|BY984756.1|BY984756
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100448697|gb|CJ972996.1|CJ972996
EST:     GTGCGTTCAGTGTCCTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100399390|gb|BY954346.1|BY954346
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|162217577|gb|FC393981.1|FC393981
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208365909|gb|DC951088.1|DC951088
EST:     TCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: TCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208353466|gb|DC938701.1|DC938701
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208397465|gb|DC908299.1|DC908299
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208367267|gb|DC939825.1|DC939825
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100451948|gb|CJ975023.1|CJ975023
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208390214|gb|DC941993.1|DC941993
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208386359|gb|DC932855.1|DC932855
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208358240|gb|DC930681.1|DC930681
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|19784534|gb|BQ040190.1|BQ040190
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100434315|gb|BY979047.1|BY979047
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208377735|gb|DC940847.1|DC940847
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|18363121|gb|BJ195193.1|BJ195193
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGC
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGC
EST: gi|18329541|gb|BJ161547.1|BJ161547
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208374313|gb|DC940670.1|DC940670
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|18331218|gb|BJ163227.1|BJ163227
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|162217722|gb|FC393814.1|FC393814
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100365672|gb|BY948358.1|BY948358
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100368808|gb|BY984900.1|BY984900
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100424955|gb|BY976899.1|BY976899
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208357909|gb|DC934828.1|DC934828
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208376707|gb|DC902916.1|DC902916
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|162215822|gb|FC390887.1|FC390887
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208345096|gb|DC909458.1|DC909458
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208375497|gb|DC937012.1|DC937012
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|208389975|gb|DC938030.1|DC938030
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|162192625|gb|FC370672.1|FC370672
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100388888|gb|BY988764.1|BY988764
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
EST: gi|100420599|gb|BY976088.1|BY976088
EST:     GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAG                         AAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT
genomic: GTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGT

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

GTCATTTAATGGAAAAGATAGAGAAGGAGAACTTGCTGCACCGTGCGTTCAGTGTCTTTCTTTTCAATTCCAAGCATGAGCTCCTGTTGCAGgtattgagct ... tatatttcagAAACGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGTTGCAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACC




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