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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTATCGAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatttttcacttacgaacttgttttcttctcctgaatctttacagattgaattagactggctcacacacctttgtattggatttggcag

Basic information

species Physcomitrella patens
transcript PP1S100_117V6.2
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|18342277|gb|BJ174312.1|BJ174312
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|18368349|gb|BJ200434.1|BJ200434
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|162221566|gb|FC397583.1|FC397583
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|100425066|gb|BY976955.1|BY976955
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|100441292|gb|BY962581.1|BY962581
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|208357262|gb|DC910659.1|DC910659
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|100392297|gb|BY953293.1|BY953293
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|67574817|gb|BJ947641.1|BJ947641
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|162278567|gb|FC454029.1|FC454029
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|18357729|gb|BJ189788.1|BJ189788
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|100360601|gb|BY984200.1|BY984200
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|100432786|gb|BY978739.1|BY978739
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|100437022|gb|BY979644.1|BY979644
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
EST: gi|100397347|gb|BY972453.1|BY972453
EST:     GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAG                         GGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC
genomic: GAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGC

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-Seq library.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 18

AGTATCGAACTGTGTCAGGTGTGGCAGGACCTCTTGTCATTTTAGAGAAAGTCAAGgttcgtcatt ... gatttggcagGGGCCCAAATACCAGGAAATTGTGAATCTACGTTTGGGCGATGGAACACGCCGAAGGGGTCAGGTTCTGGAAGTGGATGGTGATCGAGCGGTTGTACAG