Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcgtgcctgttcgtgtgctatgagcatgaccccgagcatatggtatttatttctgagaaattagtttctgttattgatttgttgtaagtcctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAGATCATCAGGGAACCAATAGTCAGTAAATATGGTTCTGATGATGGGCTTC

Basic information

species Zea mays
transcript GRMZM2G107639_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107639_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g08270.1 (Oryza sativa), 3'ss of exon 3
----gcgtgcctgttcgtgtgctatgagcatgaccccgagcatatggtatttatttctgagaaattagtttctgt-tattgatttgttgtaagtcctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAGATCATCAGGGAACCAATAGTCAGTAAATATGGTTCTGATGATGGGCTTC
    | |||  || | |  | |||| |     | |  || ||| || |||||| |     ||||||| || || | | || |  |  ||||| || || ||||||||||||||||| ||||| ||||| ||| |||||||| |||||||  || | ||  |  ||||||||  | ||||||||||||| ||||||||||| ||||
agtggtgtgtgtgctggcctcctattactgccaaca-gaacatgtgatatttact----ggaaattatttgctttcttttaaactaatgtaaatcttggatgcagGGAGTTGTTTATTGGCAGCCTCCTGAGGCAGCTATGAATAAGATTAAAGAAATTGTATGGGAACCATCAATCAGTAAATATGGCTCTGATGATGGTCTTC
















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|148932368|gb|EC876010.2|EC876010
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211260539|gb|FL346343.1|FL346343
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211197580|gb|FL085753.1|FL085753
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|78110709|gb|DV529107.1|DV529107
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|67030337|gb|CO459086.1|CO459086
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211010784|gb|FL361163.1|FL361163
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|148947797|gb|EC893285.2|EC893285
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305764|gb|FL085757.1|FL085757
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211307794|gb|FL085775.1|FL085775
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211307792|gb|FL085773.1|FL085773
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211307790|gb|FL085771.1|FL085771
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211111425|gb|FL330322.1|FL330322
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305768|gb|FL085761.1|FL085761
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305765|gb|FL085758.1|FL085758
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211307789|gb|FL085770.1|FL085770
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|148963140|gb|EE014107.2|EE014107
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|149112179|gb|EE295100.2|EE295100
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211307791|gb|FL085772.1|FL085772
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305776|gb|FL085769.1|FL085769
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|149037081|gb|EE155270.2|EE155270
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305763|gb|FL085756.1|FL085756
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|149084340|gb|EE173781.2|EE173781
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305770|gb|FL085763.1|FL085763
EST:     ATWCAAGAACTGCTCCGANGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATC
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATC
EST: gi|211305774|gb|FL085767.1|FL085767
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211164465|gb|FL391054.1|FL391054
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305772|gb|FL085765.1|FL085765
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGMYAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|76286951|gb|DV026519.1|DV026519
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|50325408|gb|CO520534.1|CO520534
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|148990980|gb|EE032414.2|EE032414
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305769|gb|FL085762.1|FL085762
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305766|gb|FL085759.1|FL085759
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211307793|gb|FL085774.1|FL085774
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|149014921|gb|EE044649.2|EE044649
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211448663|gb|FL323020.1|FL323020
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305634|gb|FL309433.1|FL309433
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305773|gb|FL085766.1|FL085766
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211526539|gb|FL366365.1|FL366365
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211307795|gb|FL085776.1|FL085776
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211325052|gb|FL357886.1|FL357886
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305762|gb|FL085755.1|FL085755
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305775|gb|FL085768.1|FL085768
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|211305771|gb|FL085764.1|FL085764
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
EST: gi|148931036|gb|EC873618.2|EC873618
EST:     ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAG                         GGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG
genomic: ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAG

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: 48 (upstream exon), 49 (downstream exon)
Score: 68

ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAGATCATCAGGGAACCAATAGTCAGTAAATATGGTTCTGATGATGGGCTTC


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 289

ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAGATCATCAGGGAACCAATAGTCAGTAAATATGGTTCTGATGATGGGCTTC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 266

ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAGATCATCAGGGAACCAATAGTCAGTAAATATGGTTCTGATGATGGGCTTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 616

ATACAAGAACTGCTCCGAGGGGCCAAGGATGTGATGTCGCTTGCGCAGgtatactctc ... ctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAGATCATCAGGGAACCAATAGTCAGTAAATATGGTTCTGATGATGGGCTTC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatttctgagaaattagtttctgttattgatttgttgtaagtcctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAGATCATCAGGGAACCAATAGTCAGTAAATATGGTTCTGATGATGGGCTTC
                          tattgat  putative branch site (score: 616)
            aaattagttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcgtgcctgttcgtgtgctatgagcatgaccccgagcatatggtatttatttctgagaaattagtttctgttattgatttgttgtaagtcctgaatgcagGGAGTTGTTTACTGGCAACCTCCCGAGTCAGCTATGGATAAGATCGAAAAGATCATCAGGGAACCAATAGTCAGTAAATATGGTTCTGATGATGGGCTTC

- -tgcctgt
- - - - - - -tgtgcta
- - - - - - - - - - -gagcatg
- - - - - - - - - - - - - - - - - -gcatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttgttg