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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtcctcggtcacgcttatttccccgatttttcaactacctgtgtaaacttgaattcgttcgcctgtgggattcgcggattttcatatcctcgcttttgttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAGAAGATGAAATACCTAAGGTTTTTGAGGAAGCGGATGAACACCAAACCCA

Basic information

species Physcomitrella patens
transcript PP1S75_223V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S75_223V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ34798 (Selaginella moellendorffii), 3'ss of exon 1
gtacgtcctcggtcacgcttatttccccgatttttcaactacctgtgtaaacttgaattcgttcgcctgtgggattcgcggattttcatatcctcgcttt-tgttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAGAAGATGAAATACCTAAGGTTTTTGAGGAAGCGGATGAACACCAAACCCA
                                              ||| |    || ||   ||    | | || |||   | || || || |  |  | |||||    |||||| |    || |||||||||||     | || || ||||| ||  | ||||||||||| ||||| |||||| |||||||||| |||||||| || ||||
----------------------------------------------gtaga---aaaatctcgcgatcttagaatgcgc---tattgatctctttccactgtgttc----cagGTTATCACGCGATGCGAGGAGATTGCTCTCTCGGGCGGCCTCGTCCGCCAGAAGATGAAGTACCTGAGGTTTCTGAGGAAGCGCATGAACACGAAGCCCA

upper sequence: PP1S75_223V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ23532 (Selaginella moellendorffii), 3'ss of exon 1
gtacgtcctcggtcacgcttatttccccgatttttcaactacctgtgtaaacttgaattcgttcgcctgtgggattcgcggattttcatatcctcgcttt-tgttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAGAAGATGAAATACCTAAGGTTTTTGAGGAAGCGGATGAACACCAAACCCA
                                              ||| |    || ||   ||    | | || |||   | || || || |  |  | |||||    |||||| |    || |||||||||||     | || || ||||| ||  | ||||||||||| ||||| |||||| |||||||||| ||||||||||| ||||
----------------------------------------------gtaga---aaaatctcgcgatcttagaatgcgc---tattgatctctttccactgtgttc----cagGTTATCACGCGATGCGAGGAGATTGCTCTCTCGGGCGGCCTCGTCCGCCAGAAGATGAAGTACCTGAGGTTTCTGAGGAAGCGCATGAACACCAAGCCCA
















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|18325923|gb|BJ157922.1|BJ157922
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|37840797|gb|BJ598805.1|BJ598805
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67578235|gb|BJ950402.1|BJ950402
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67572139|gb|BJ944963.1|BJ944963
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67576598|gb|BJ949422.1|BJ949422
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67691747|gb|BJ951980.1|BJ951980
EST:     TCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: TCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162249129|gb|FC420380.1|FC420380
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162184188|gb|FC359649.1|FC359649
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67694629|gb|BJ954862.1|BJ954862
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|37821428|gb|BJ579494.1|BJ579494
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162184189|gb|FC359650.1|FC359650
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67700129|gb|BJ960362.1|BJ960362
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67704631|gb|BJ964864.1|BJ964864
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|100355108|gb|BY965008.1|BY965008
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162262069|gb|FC436850.1|FC436850
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162267118|gb|FC443349.1|FC443349
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67571310|gb|BJ944134.1|BJ944134
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|18363651|gb|BJ195723.1|BJ195723
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67716345|gb|BJ966605.1|BJ966605
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162249130|gb|FC420381.1|FC420381
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162246156|gb|FC423592.1|FC423592
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67694095|gb|BJ954328.1|BJ954328
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67507712|gb|BJ940592.1|BJ940592
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67701102|gb|BJ961335.1|BJ961335
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67695506|gb|BJ955739.1|BJ955739
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|37834782|gb|BJ592794.1|BJ592794
EST:     TCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: TCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|7286629|gb|AW599116.1|AW599116
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGAGAGATA-GCTTGTCATGTGGCCTTGTGAGGCA
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAG-GAGATCTGCTTGTCAGGTGGCCTTGTGAGGCA
EST: gi|18342311|gb|BJ174346.1|BJ174346
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67570797|gb|BJ943621.1|BJ943621
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67724859|gb|BJ975118.1|BJ975118
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162246155|gb|FC423591.1|FC423591
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162277320|gb|FC453126.1|FC453126
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162221684|gb|FC397909.1|FC397909
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162277321|gb|FC453127.1|FC453127
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|162221683|gb|FC397908.1|FC397908
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
EST: gi|67508528|gb|BJ941392.1|BJ941392
EST:     GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTG                         GTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG
genomic: GCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAG

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: 33 (upstream exon), 35 (downstream exon)
Score: 30

AGGCCTTTGCGCCAAGGTCGTCGTGGTCGATGCTCGCCACCACATGCTCGGCCGCTTAGCCTCCATCCTCGCGAAAGAGCTCCTCAATGGCCAGAAAGTGgtacgtcctc ... ttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAGAAGATGAAATACCTAAGGTTTTTGAGGAAGCGGATGAACACCAAACCCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgttcgcctgtgggattcgcggattttcatatcctcgcttttgttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAGAAGATGAAATACCTAAGGTTTTTGAGGAAGCGGATGAACACCAAACCCA
                                 tcctcgcttttgttc  CT-rich tract
                        attttcatat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtcctcggtcacgcttatttccccgatttttcaactacctgtgtaaacttgaattcgttcgcctgtgggattcgcggattttcatatcctcgcttttgttcaaaccagGTTGTTGTACGTTGCGAGGAGATCTGCTTGTCAGGTGGCCTTGTGAGGCAGAAGATGAAATACCTAAGGTTTTTGAGGAAGCGGATGAACACCAAACCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG