Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcctctattgccttttcgctctgagtttttttctcccgttgttagtgttactgtgtttctcatgtattttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAGAAGATGAAATATCTGAGGTTTTTGAGGAAGAGGATGAACACCAAGCCCA

Basic information

species Physcomitrella patens
transcript PP1S80_110V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S80_110V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ34798 (Selaginella moellendorffii), 3'ss of exon 1
gtaagtcctctattgccttttcgctctgagtttttttctcccgttgttagtgttactgtgtttctcatgtattttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAGAAGATGAAATATCTGAGGTTTTTGAGGAAGAGGATGAACACCAAGCCCA
                        |   |   | |  |   | | |   | | || ||  | |||  |  | | ||  ||||||| ||   || | |||||||||    || || || || || ||| | ||||||||||| || ||||||||| |||||||| | |||||||| |||||||
-----------------------gtagaaaaatctcgcgatcttagaatgcgctattg-atctctt-tccactgtgttccagGTTATCACGCGATGCGAGGAGATTGCTCTCTCGGGCGGCCTCGTCCGCCAGAAGATGAAGTACCTGAGGTTTCTGAGGAAGCGCATGAACACGAAGCCCA

upper sequence: PP1S80_110V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ23532 (Selaginella moellendorffii), 3'ss of exon 1
gtaagtcctctattgccttttcgctctgagtttttttctcccgttgttagtgttactgtgtttctcatgtattttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAGAAGATGAAATATCTGAGGTTTTTGAGGAAGAGGATGAACACCAAGCCCA
                        |   |   | |  |   | | |   | | || ||  | |||  |  | | ||  ||||||| ||   || | |||||||||    || || || || || ||| | ||||||||||| || ||||||||| |||||||| | ||||||||||||||||
-----------------------gtagaaaaatctcgcgatcttagaatgcgctattg-atctctt-tccactgtgttccagGTTATCACGCGATGCGAGGAGATTGCTCTCTCGGGCGGCCTCGTCCGCCAGAAGATGAAGTACCTGAGGTTTCTGAGGAAGCGCATGAACACCAAGCCCA
















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|18346037|gb|BJ178080.1|BJ178080
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|67576930|gb|BJ949754.1|BJ949754
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18344723|gb|BJ176764.1|BJ176764
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37830266|gb|BJ588278.1|BJ588278
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18361020|gb|BJ193084.1|BJ193084
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18350930|gb|BJ182981.1|BJ182981
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|162230875|gb|FC406714.1|FC406714
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37823490|gb|BJ581556.1|BJ581556
EST:     GCCGCTTAGCCTCAATCNTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|162269648|gb|FC444866.1|FC444866
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37821925|gb|BJ579991.1|BJ579991
EST:     TCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: TCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|162269649|gb|FC444867.1|FC444867
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|67709300|gb|BJ965116.1|BJ965116
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18343222|gb|BJ175260.1|BJ175260
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|67719275|gb|BJ969534.1|BJ969534
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37822426|gb|BJ580492.1|BJ580492
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37838910|gb|BJ596918.1|BJ596918
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18344296|gb|BJ176336.1|BJ176336
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37822078|gb|BJ580144.1|BJ580144
EST:     ATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: ATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37823928|gb|BJ581994.1|BJ581994
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18361497|gb|BJ193563.1|BJ193563
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18373955|gb|BJ205533.1|BJ205533
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18351134|gb|BJ183185.1|BJ183185
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37824869|gb|BJ582935.1|BJ582935
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|67718710|gb|BJ968969.1|BJ968969
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18372403|gb|BJ204005.1|BJ204005
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37825155|gb|BJ583221.1|BJ583221
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|162268068|gb|FC443538.1|FC443538
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|67574606|gb|BJ947430.1|BJ947430
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|67727577|gb|BJ977836.1|BJ977836
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|67698024|gb|BJ958257.1|BJ958257
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18339094|gb|BJ171120.1|BJ171120
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|18342779|gb|BJ174815.1|BJ174815
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|162230018|gb|FC405958.1|FC405958
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|162230876|gb|FC406715.1|FC406715
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|37839204|gb|BJ597212.1|BJ597212
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
EST: gi|162268067|gb|FC443537.1|FC443537
EST:     GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTC                         GTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG
genomic: GCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAG

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: 34 (upstream exon), 35 (downstream exon)
Score: 71

AGGCATCTGCGCCAAAGTGGTCGTGGTGGATGCCCGCCACCATATGCTCGGCCGCTTAGCCTCAATCCTCGCCAAAGAGCTTCTCAATGGCCAGAAAGTCgtaagtcctc ... tttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAGAAGATGAAATATCTGAGGTTTTTGAGGAAGAGGATGAACACCAAGCCCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtttttttctcccgttgttagtgttactgtgtttctcatgtattttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAGAAGATGAAATATCTGAGGTTTTTGAGGAAGAGGATGAACACCAAGCCCA
                                       atgtatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcctctattgccttttcgctctgagtttttttctcccgttgttagtgttactgtgtttctcatgtattttgaaccagGTTGTCGTCCGCTCCGAGGAGATCTGCCTGTCAGGTGGTCTTGTCAGGCAGAAGATGAAATATCTGAGGTTTTTGAGGAAGAGGATGAACACCAAGCCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG