Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgattttctacacgtgcattgcgtttctaccatcatcgtacattatgcttcagttaactaaatagcagttgatcaccggagttggatcaggtgctgctttcaagcaggaatgattttctacactgttgatcactactgacgtcggccttaatttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGCAATTATGGAAAGCTTTAAGATGTTCAATGCGGATTTCATGGCTCAATAC

Basic information

species Physcomitrella patens
transcript PP1S64_220V6.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S64_220V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: Vv00s0225g00130.t01 (Vitis vinifera), 3'ss of exon 13
gtatgattttctacacgtgcattgcgtttctaccatcatcgtacattatgcttcagttaactaaatagcagttgatcaccggagttggatcaggtgctgctttcaagcaggaatgattttctacactgttgatca-ctactgacgtcggccttaatttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGCAATTATGGAAAGCTTTAAGATGTTCAATGCGGATTTCATGGCTCAATAC
                                                      ||||  |||||  |   ||  | |     |||  ||   | |        |||  ||||   | |  | |  | ||  ||| | ||| ||     ||||  ||||||   ||    || ||  |  | || || ||||| ||  | ||| | ||||||||||||||||||||||| || |||| ||||||||  || |||||||  ||||| 
----------------------------------------------------gaagtt--ctaaagggtgctt--ttat----gtttaatggagagaaaa----aagagggaactctataattctgtatttttcaacaacttactataacctt--tttgtgtctagGGTCTTCCACTTAAGGACAACCATCTTGCCAGCTGAGGAAGACATGCCTGCAATTATGGAAAGTTTCAAGAAGTTCAATGATGAGTTCATGGAACAATAT
















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|162165338|gb|FC340826.1|FC340826
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162160586|gb|FC336355.1|FC336355
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|15261160|gb|BI436470.1|BI436470
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162174740|gb|FC352156.1|FC352156
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162191335|gb|FC368144.1|FC368144
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162182491|gb|FC357466.1|FC357466
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162184108|gb|FC358854.1|FC358854
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162170440|gb|FC347625.1|FC347625
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162198243|gb|FC373115.1|FC373115
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162244597|gb|FC424603.1|FC424603
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|208396587|gb|DC915899.1|DC915899
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162189526|gb|FC365748.1|FC365748
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|18341229|gb|BJ173262.1|BJ173262
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162166217|gb|FC343434.1|FC343434
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162155390|gb|FC332004.1|FC332004
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162184109|gb|FC358855.1|FC358855
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162178198|gb|FC354916.1|FC354916
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162191242|gb|FC367920.1|FC367920
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162184543|gb|FC360017.1|FC360017
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162181881|gb|FC357688.1|FC357688
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162154421|gb|FC330423.1|FC330423
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162178199|gb|FC354917.1|FC354917
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162152453|gb|FC328016.1|FC328016
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|18339704|gb|BJ171731.1|BJ171731
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162166216|gb|FC343433.1|FC343433
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|7583963|gb|AW699863.1|AW699863
EST:     GGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162165158|gb|FC341153.1|FC341153
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162197023|gb|FC373363.1|FC373363
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162160781|gb|FC336680.1|FC336680
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162160585|gb|FC336354.1|FC336354
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162188743|gb|FC364029.1|FC364029
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162246303|gb|FC421048.1|FC421048
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162166223|gb|FC343440.1|FC343440
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162156209|gb|FC332584.1|FC332584
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162171668|gb|FC348129.1|FC348129
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162181859|gb|FC357666.1|FC357666
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162182492|gb|FC357467.1|FC357467
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162165339|gb|FC340827.1|FC340827
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162223428|gb|FC400319.1|FC400319
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162166621|gb|FC343513.1|FC343513
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|18334955|gb|BJ166973.1|BJ166973
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|37852182|gb|BJ610190.1|BJ610190
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162199478|gb|FC373780.1|FC373780
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162252057|gb|FC428296.1|FC428296
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162188744|gb|FC364030.1|FC364030
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAG
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAG
EST: gi|162165157|gb|FC341152.1|FC341152
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
EST: gi|162174741|gb|FC352157.1|FC352157
EST:     GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGG                         TACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC
genomic: GCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGC

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: 81

GGCAAGCAGGCAAAGCTCCTGATGTCTTTTACTGCTTGAGGCTTCTTGAAGCCACTGGAATTTCCACTGTGCCAGGGTCAGGGTTTGGTCAGAAAGAAGGgtatgatttt ... ttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGCAATTATGGAAAGCTTTAAGATGTTCAATGCGGATTTCATGGCTCAATAC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatgattttctacactgttgatcactactgacgtcggccttaatttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGCAATTATGGAAAGCTTTAAGATGTTCAATGCGGATTTCATGGCTCAATAC
                                        ttaatttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgattttctacacgtgcattgcgtttctaccatcatcgtacattatgcttcagttaactaaatagcagttgatcaccggagttggatcaggtgctgctttcaagcaggaatgattttctacactgttgatcactactgacgtcggccttaatttgtgcacagTACTTTTCATGTTCGAACGACGATCTTACCGTCAGAGAAGGACATGCCTGCAATTATGGAAAGCTTTAAGATGTTCAATGCGGATTTCATGGCTCAATAC

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