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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttttgtcaatttgaattttcagggagaaaatttctcttgagctagatttgcacaacagcacaacagtattcttatgaagcatttttcttatttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG

Basic information

species Zea mays
transcript GRMZM2G001887_T03
intron # 4
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|14364863|gb|BG946674.1|BG946674
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|18385240|gb|BM418439.1|BM418439
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|18172412|gb|BM347800.1|BM347800
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|60394804|gb|DN227674.1|DN227674
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCGGTCGATTATCAACCAGGTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|60339434|gb|DN206407.1|DN206407
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|22819814|gb|BU499904.1|BU499904
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|78087437|gb|DV515830.1|DV515830
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|32931902|gb|CF036714.1|CF036714
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|60346649|gb|DN213622.1|DN213622
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|211138546|gb|FL389992.1|FL389992
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|60340677|gb|DN207650.1|DN207650
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|16925652|gb|BM078720.1|BM078720
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|27522108|gb|CA989214.1|CA989214
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|21760021|gb|BQ635562.1|BQ635562
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|71427873|gb|DR808923.1|DR808923
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|38687563|gb|CK144594.1|CK144594
EST:     CAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: CAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|211207058|gb|FL397903.1|FL397903
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|60401056|gb|DN233863.1|DN233863
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|18177681|gb|BM378891.1|BM378891
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|18165115|gb|BM334954.1|BM334954
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|211381842|gb|FL377370.1|FL377370
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|60342382|gb|DN209355.1|DN209355
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|6918526|gb|AW400056.1|AW400056
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|47962818|gb|CN845527.1|CN845527
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|29130307|gb|CB381011.1|CB381011
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|7031231|gb|AW461119.1|AW461119
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|45567234|gb|CK985471.1|CK985471
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|60400933|gb|DN233740.1|DN233740
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|149014130|gb|EE043671.2|EE043671
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|14243944|gb|BG841641.2|BG841641
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|78119546|gb|DV537930.1|DV537930
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|211443775|gb|FL403728.1|FL403728
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|9794276|gb|BE552584.1|BE552584
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|211269426|gb|FK963247.1|FK963247
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|9794715|gb|BE553023.1|BE553023
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|21843331|gb|BQ703912.1|BQ703912
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|149017495|gb|EE045693.2|EE045693
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|74235700|gb|DT643614.1|DT643614
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|83278322|gb|DV942330.1|DV942330
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|78084435|gb|DV512828.1|DV512828
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGATGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|148956153|gb|EC901928.2|EC901928
EST:     GTCAATTGGTGGTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATTTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
EST: gi|16925877|gb|BM078945.1|BM078945
EST:     GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGA                         AGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
genomic: GTCAATTGGTGCTAATACATGGGTGGTCAGTGGAACTCCACAGACAAAGAgtatgttctc ... atttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttgcacaacagcacaacagtattcttatgaagcatttttcttatttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG
                                   catttttcttattt  CT-rich tract
                                    atttttcttatttgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttttgtcaatttgaattttcagggagaaaatttctcttgagctagatttgcacaacagcacaacagtattcttatgaagcatttttcttatttgaacagAGCTGCAAGATCTGCTTCCGTCGATTATCAACCAGCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA