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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctgctaggactcatatatcaattgcaaaagtttatttgtaacggcaactcttgatttgagctgtatattgattctatcgtcaatgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAAGTTGATGCCTTTG

Basic information

species Zea mays
transcript GRMZM2G118014_T02
intron # 3
splice site 3'
intron type U2

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|211384991|gb|FL172470.1|FL172470
EST:     TGACGATGCCAAGGCTGCTNATTGCGATATCCGTCTCGGAG-TTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAGGGAAAAAATGGTAGAA
genomic: TGACGATGCCAAGGCTGCT-ATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|71445995|gb|DR827045.1|DR827045
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|211063251|gb|FL401238.1|FL401238
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|87153157|gb|DY397946.1|DY397946
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
EST: gi|211384992|gb|FL172471.1|FL172471
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|211384994|gb|FL172473.1|FL172473
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCT
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCT
EST: gi|211390254|gb|FL172494.1|FL172494
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAA
EST: gi|19272599|gb|BM888855.1|BM888855
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
EST: gi|76284913|gb|DV024481.1|DV024481
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|211400936|gb|FL417155.1|FL417155
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|19351463|gb|BM895995.1|BM895995
EST:     ATGACGATGCCA-GGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAA-CAGATCA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCA
EST: gi|149079348|gb|EE168324.2|EE168324
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|211517989|gb|FL372294.1|FL372294
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|211387620|gb|FL172483.1|FL172483
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGT
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGT
EST: gi|211387614|gb|FL172477.1|FL172477
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAA-TGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|211384990|gb|FL172469.1|FL172469
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAA
EST: gi|211311591|gb|FL416726.1|FL416726
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|211440987|gb|FL029795.1|FL029795
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|22491491|gb|BU051414.1|BU051414
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
EST: gi|87152221|gb|DY397010.1|DY397010
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
EST: gi|76020071|gb|DT947241.1|DT947241
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
EST: gi|19351812|gb|BM896344.1|BM896344
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGG
EST: gi|211019421|gb|FL374991.1|FL374991
EST:     ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTG                         ACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA
genomic: ATGACGATGCCAAGGCTGCTATTGCGATATCCGTCTCGGAGGTTACTCTGgtatctgcta ... atgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaacggcaactcttgatttgagctgtatattgattctatcgtcaatgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAAGTTGATGCCTTTG
                          tatattgattctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatctgctaggactcatatatcaattgcaaaagtttatttgtaacggcaactcttgatttgagctgtatattgattctatcgtcaatgctcacagACGGATGACATACTGCAGCTGTCAAAACAGATCAAGGAAAAAATGGTAGAAGTTGATGCCTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT