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'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggacattgcagaacaattacatggcattgccatcagaccatttcgatttcttagtagttacattgattttctgttaccatgatgtgcatttgcatacaataaatcatgtcacttaagattggagctacaaatactgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACATTCACACGTACAAGAAAACCATG

Basic information

species Zea mays
transcript GRMZM2G042818_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G042818_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g54860.1 (Oryza sativa), 3'ss of exon 4
gtatggacattgcagaacaattacatggcattgccatcagaccatttcgatttcttagtagttacattgattttctgttaccatgatgtgcatttgcatacaataaatcatgtcacttaagattggagctacaaatactgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACATTCACACGTACAAGAAAACCATG
||||||| ||   |  |   || ||  | |        |   |||  |     |||| |   ||  ||||||| |  |  ||| ||    |||||||  ||| |   | ||| || ||||   |     ||  |  ||| |||||||||||| ||||| ||||||||||| || || |||||||||||||||||||| || |||||||| |||||||||  |
gtatggatatgatatgaatgtttcagtgtagcagtggtaccacatcacatgaccttactgtataatttgatttcc-atccccaagactcacatttgcgcacact---tgatggcatttaaaccta---ttaacagaactcctttgcagATGACTCCTGTCTCGAGGTTGTTTACAGGATGTATTGGCTTTGCTACCATATCCACACGTATAAGAAAACCGCG
















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|74240480|gb|DT648394.1|DT648394
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|33942681|gb|CF349281.1|CF349281
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380227|gb|FL081829.1|FL081829
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|101390789|gb|EB817329.1|EB817329
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|71448792|gb|DR829842.1|DR829842
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|148991517|gb|EE033036.2|EE033036
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCCAC
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACC-AC
EST: gi|211380223|gb|FL081825.1|FL081825
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTA
EST: gi|29544420|gb|CB604800.1|CB604800
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|78109535|gb|DV527951.1|DV527951
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211252500|gb|FL081823.1|FL081823
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380230|gb|FL081832.1|FL081832
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGT
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGT
EST: gi|211380232|gb|FL081834.1|FL081834
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380228|gb|FL081830.1|FL081830
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380226|gb|FL081828.1|FL081828
EST:     TGCATTTTCTGCTGGTGGGGA-CTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380225|gb|FL081827.1|FL081827
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380234|gb|FL081836.1|FL081836
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|149000045|gb|EE037146.2|EE037146
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|76292518|gb|DV032086.1|DV032086
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|74239820|gb|DT647734.1|DT647734
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|71304196|gb|DR788218.1|DR788218
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|148930999|gb|EC873545.2|EC873545
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|101384069|gb|EB814089.1|EB814089
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCAC
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCC-TCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCAC
EST: gi|211252496|gb|FL081819.1|FL081819
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211252492|gb|FL081815.1|FL081815
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATNAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTT
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTT
EST: gi|71429840|gb|DR810890.1|DR810890
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|22819358|gb|BU499448.1|BU499448
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|93012152|gb|EB637672.1|EB637672
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380236|gb|FL081838.1|FL081838
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|91056953|gb|EB167371.1|EB167371
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211252498|gb|FL081821.1|FL081821
EST:     TGCATTTTCTGCTGGTGGGGA-CTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380231|gb|FL081833.1|FL081833
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGTGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211252499|gb|FL081822.1|FL081822
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCTTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380224|gb|FL081826.1|FL081826
EST:     TGCATTTTCTGCTGGTGGGGA-CTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|211380235|gb|FL081837.1|FL081837
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCTTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|149089063|gb|EE178226.2|EE178226
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|148959115|gb|EE010592.2|EE010592
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|71448491|gb|DR829541.1|DR829541
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|74238393|gb|DT646307.1|DT646307
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|71447954|gb|DR829004.1|DR829004
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
EST: gi|22472580|gb|BU037060.1|BU037060
EST:     TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAA                         ATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA
genomic: TGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACA

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 41 (downstream exon)
Score: 78

GGTGCTGGGCGTGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACATTCACACGTACAAGAAAACCATG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 202

GGTGCTGGGCGTGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACATTCACACGTACAAGAAAACCATG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 202

GGTGCTGGGCGTGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACATTCACACGTACAAGAAAACCATG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 193

GGTGCTGGGCGTGCATTTTCTGCTGGTGGGGACCTAAAGATGTTTTATGAAGGGAAATCAAgtatggacat ... tgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACATTCACACGTACAAGAAAACCATG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcatacaataaatcatgtcacttaagattggagctacaaatactgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACATTCACACGTACAAGAAAACCATG
                                            ctgcttt  CT-rich tract
     tacaataaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatggacattgcagaacaattacatggcattgccatcagaccatttcgatttcttagtagttacattgattttctgttaccatgatgtgcatttgcatacaataaatcatgtcacttaagattggagctacaaatactgctttgcagATGATTCCTGCCTCGAGGTTGTGTATAGAATGTATTGGCTTTGCTACCACATTCACACGTACAAGAAAACCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA