Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattcatcatgtacctgacatttccaaaatagtttgacaatattttctgagttttgtttgctgtttttttttcag

Basic information

species Zea mays
transcript GRMZM2G049811_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G049811_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os06g29180.1 (Oryza sativa), 5'ss of exon 3
TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattcatcatgtacctgacatttccaaaatagtttg-acaata-------ttttctgagttttgtttgctgtttttttttcag
|||||||||||||||||||||||| ||| ||||| || |||||||||||||||||||||||||| ||||||||||| ||||||||||| ||||||||||||||  |  | ||| | | | ||    || ||||||  | |  | | ||       || |||||  ||||| ||   || ||| |||||
TTGAGAAAGAAATTGGGGCCAAATATGAAGAGGATCTCGATGCTATGCTTCCAAAGTGTGATGTCATTGTGATCAATACACCTCTTACAGAGAAAACAAGgttcctgatgatcgtattcttgtttgttgcaaaatcatatacatagtacatctacttatctgaactttgtatg--attctttcttcag

upper sequence: GRMZM2G049811_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA19G01200.1 (Glycine max), 5'ss of exon 3
TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattcatcatgtacctgacatttccaaaatagtttgacaatattttctgagttttgtttgctgtttttttttcag---------------------------
| |||||||| ||||| || || |||||||||||||| ||||| |||||||||||||||||||| ||||| |||||||  |||||||| ||  | ||||||| |   |||    | || || | |    ||||| |   |  | | | ||    | | ||| |   | |    | ||||                            
TGGAGAAAGAGATTGGAGCAAAGTTTGAGGAGGACCTTGATGCAATGCTTCCAAAGTGTGATGTAATTGTTATCAACATGCCTCTTACTGAACAGACAAGgtatactttc----tatatctcaaacaatcaaaa-acactatctacacttg--aaatcttgatccatttacaatgttcaagactattatgagcagtgcataatcagt

upper sequence: GRMZM2G049811_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA13G23790.3 (Glycine max), 5'ss of exon 4
TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattcatcatgtacctgacatttccaaaatagtttgacaatatttt--ctgagttttgtttgctgtttttttttcag-----------------------------------------------------------------------------------------------------------
| |||||||| ||||| || ||||||||||||||||| ||||| |||||||||||||||||||| ||||| |||||||| ||||| || ||| | ||||||| |   || |   |  |  |  || |    ||| |   | || || ||     |||  | |     |  |||  ||||||                                                                                                            
TGGAGAAAGAGATTGGAGCAAAATTTGAGGAGGACCTTGATGCAATGCTTCCAAAGTGTGATGTAATTGTTATCAACACCCCTCTCACTGAGCAGACAAGgtatacttttaaatttaatatctcagtagataaaaaaagtcactattttacacttgaaatctcaagccactttaattttcaaaactattattatgagaagtgcattatcagtgttattcatatccgaaggaataaattctttgatcatcttccagagatgagtagtaaccaaagatttctgtgattcag

upper sequence: GRMZM2G049811_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA19G01210.2 (Glycine max), 5'ss of exon 4
TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattcatcatgtacctgacatttccaaaatagtttgacaatattttctgagttttgtttgctgtttttttttcag-----------------------------------------------------------------------------------------------------------
| |||||||| ||||| || ||||||||||||||||| ||||| |||||||||||||||||||||||||| |||||||| ||||| || ||| | ||||||| |   || |   |  || |  || |     |  |   | |   ||   |   | | |         | |  ||||||                                                                                                            
TGGAGAAAGAGATTGGAGCAAAATTTGAGGAGGACCTTGATGCAATGCTTCCAAAGTGTGATGTGATTGTTATCAACACCCCTCTCACTGAGCAGACAAGgtatacttttaaatttaacatctcagtcaatcagaaaaattattttagacttgaaatctcaagccacttataattttcaaaattattatcatgagaagtgcattatcagtattattcatatcacaaggaataaattgtttgatcatgttccagagatgagtagtaaccaaagatttctgtgattcag

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|9742862|gb|BE519010.1|BE519010
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|4887424|gb|AI677523.1|AI677523
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGA
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGA
EST: gi|67016279|gb|CO445028.1|CO445028
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|78025682|gb|DV494069.1|DV494069
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|193502113|gb|AM937924.1|AM937924
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|211347565|gb|FL462325.1|FL462325
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|211273135|gb|FL031458.1|FL031458
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|7216776|gb|AW562898.1|AW562898
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|60344797|gb|DN211770.1|DN211770
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|60346732|gb|DN213705.1|DN213705
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|149098748|gb|EE184760.2|EE184760
EST:     CAAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGAT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGAT
EST: gi|78543856|gb|DV621354.1|DV621354
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|32844007|gb|CD983688.1|CD983688
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|9952240|gb|BE638823.1|BE638823
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|60338901|gb|DN205874.1|DN205874
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|14244609|gb|BG842547.2|BG842547
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|32863792|gb|CF003474.1|CF003474
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|29544962|gb|CB605140.1|CB605140
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|24764385|gb|CA399550.1|CA399550
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|14244598|gb|BG842536.2|BG842536
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|211273136|gb|FL031459.1|FL031459
EST:     AAGTGTGATGTGATTGTGATCAACACACCTTCT-ACGGAGGAAACAAAG
genomic: AAGTGTGATGTGATTGTGATCAACACACCT-CTTACGGAGAAAACAA-G
EST: gi|84969946|gb|DW468339.1|DW468339
EST:     CAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|60351068|gb|DN218041.1|DN218041
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|32849315|gb|CD988996.1|CD988996
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|87156832|gb|DY401621.1|DY401621
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|4967219|gb|AI692105.1|AI692105
EST:     CCAAAGTGTGATGTGATTGTGATCAACACCCCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|31359127|gb|CD443484.1|CD443484
EST:     CCAAAGTGTGATGTGATTGGGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|60352560|gb|DN219533.1|DN219533
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|14204312|gb|BG837989.1|BG837989
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|30705800|gb|CD058924.1|CD058924
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|4886219|gb|AI677339.1|AI677339
EST:     CCAAAGTGTGATGTGATTGTGATCAACCCCCCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|149098747|gb|EE184759.2|EE184759
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|67026478|gb|CO455227.1|CO455227
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACNGAGAAA-CAAG                         AG-CATGTTTAACNAAGAGAGGAT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGAT
EST: gi|149100378|gb|EE186449.2|EE186449
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|24769726|gb|CA404855.1|CA404855
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAACCAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|24763748|gb|CA398919.1|CA398919
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|24769660|gb|CA404789.1|CA404789
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|24773911|gb|CA409165.1|CA409165
EST:     TGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: TGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
EST: gi|7227669|gb|AW566310.1|AW566310
EST:     CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAG                         AGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT
genomic: CCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGT

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), 48 (downstream exon)
Score: 522

TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGTTGTAAATAATGCTCGAGGAGCAATCATGGATGCTCAAGCAGTCGCAGAT


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 484

TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGTTGTAAATAATGCTCGAGGAGCAATCATGGATGCTCAAGCAGTCGCAGAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1172

TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGTTGTAAATAATGCTCGAGGAGCAATCATGGATGCTCAAGCAGTCGCAGAT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 423

TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattc ... tttttttcagAGGCATGTTTAACAAAGAGAGGATTGCAAAGATGAAGAAAGGTGTAATTGTTGTAAATAATGCTCGAGGAGCAATCATGGATGCTCAAGCAGTCGCAGAT


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGAGAAAGAAATTGGGGCCAAATTTGAGGAGGACCTGGATGCTATGCTTCCAAAGTGTGATGTGATTGTGATCAACACACCTCTTACGGAGAAAACAAGgtttgtattcatcatgtacctgacatttccaaaatagtttgacaatattttctgagttttgtttgctgtttttttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA