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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCGAGCATCGGAATATAATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcgctgacatactttgtgtgttcagactctagaggaagtgcttgattccaggactttttccttgtttattgtaaaaggaacaggagagcagaaatgaatggcttactcattttatctgttgcctttcctatactaattagtttggccttttattgtgtgaaag

Basic information

species Zea mays
transcript GRMZM2G128995_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128995_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os05g51530.1 (Oryza sativa), 5'ss of exon 5
GTTCGAGCATCGGAATATAATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcgctgacatactttgtgtgttcagactctagaggaagtgcttgattccaggactttttccttgtttattgtaaaaggaacaggagagcagaaatgaatggcttactcattttatctgttgcctttcctatactaattagtttggccttttattgtgtgaaag
||||||| | ||||||| ||||||||||||||||||||||||||||||||||| ||||||| ||| ||||| |||||  || ||     || || ||  |  |  ||               |||  | | |||| |  ||||||  ||| |   ||| |  ||     |  |||| ||  || |||| |  ||   ||        ||||||||||||   |  |  ||| |     
GTTCGAGGAGCGGAATACAATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGAAAGCAAACTGGAAGgtagattgca-tgccac----tgagtttttggctttaag---------------cca--attctttcttgttttatttcaaaggactcagaaatgcgagggt--atggtttcatc-ttttgttagtcaact--------ctaattagtttgttttccttctgtatag---
















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|32907249|gb|CF012062.1|CF012062
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|19351863|gb|BM896395.1|BM896395
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|87153287|gb|DY398076.1|DY398076
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|31363830|gb|CD448185.1|CD448185
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCACAGCGGGAG                         CTTAGCGGTTCG
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCG
EST: gi|71427970|gb|DR809020.1|DR809020
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|148954149|gb|EC899548.2|EC899548
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         C---G-G-TTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|31348626|gb|CD432983.1|CD432983
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|211532950|gb|FL381081.1|FL381081
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCCCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGGAGGATATGAT
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGC--GGTTCGTGATCTTTCCAATCTGGTAAAACCGG-AGGATATGAT
EST: gi|19351525|gb|BM896057.1|BM896057
EST:     AATAATGCAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|60358961|gb|DN225934.1|DN225934
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|67032136|gb|CO460885.1|CO460885
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|148968978|gb|EE019672.2|EE019672
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|22491457|gb|BU051380.1|BU051380
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|211452191|gb|FL398498.1|FL398498
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|67018576|gb|CO447325.1|CO447325
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|149010225|gb|EE042044.2|EE042044
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|211413494|gb|FL407160.1|FL407160
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGTAGCAAAGTGGGAG                         CTTAGCGGGTTCGTGATCTTTCCCATCTGGTAAAACCCGGAGGATATGATC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGG-TTCGTGATCTTTCCAATCTGGTAAAACC-GGAGGATATGATC
EST: gi|149000734|gb|EE037952.2|EE037952
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|149098811|gb|EE184822.2|EE184822
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|211057980|gb|FL426570.1|FL426570
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGNCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCA
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAG-CGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCA
EST: gi|148963815|gb|EE014912.2|EE014912
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|6095541|gb|AW120208.1|AW120208
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
EST: gi|211319940|gb|FL427662.1|FL427662
EST:     ATAATGTAAGGAGCCNAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGGTTCGTGATCTTTCCCATCTGGTAAAACCGGGAGGATATGATC
genomic: ATAATGTAAGGAGCC-AGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGG-TTCGTGATCTTTCCAATCTGGTAAAACCGG-AGGATATGATC
EST: gi|67013699|gb|CO442448.1|CO442448
EST:     AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAG                         CTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC
genomic: AATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcg ... tgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCGAGCATCGGAATATAATAATGTAAGGAGCCAGCTTAGTGCGATCAACAGGAAGCAAAGTGGGAGgtaaattgcgctgacatactttgtgtgttcagactctagaggaagtgcttgattccaggactttttccttgtttattgtaaaaggaacaggagagcagaaatgaatggcttactcattttatctgttgcctttcctatactaattagtttggccttttattgtgtgaaag

- - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG