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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtattctgtcatttgattactttctgtatactaatataaattagcattattctgtcatacagtatgtagtcttatttgaatggttcatttccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG

Basic information

species Zea mays
transcript GRMZM2G038606_T02
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|211074698|gb|FL076203.1|FL076203
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATAGGAAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATAGGAAG
EST: gi|211533726|gb|FL071650.1|FL071650
EST:     AGTGTTACATTCGCGGGAACACCATTNAGTATCTTCGAGTTCCTGATGAG                         GTGAYTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211536731|gb|FL071660.1|FL071660
EST:     AGTGT-ACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATAGGAA
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATAGGAA
EST: gi|94474355|gb|EB703313.1|EB703313
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTTTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|5343007|gb|AI795312.1|AI795312
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|31358015|gb|CD442372.1|CD442372
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|78115517|gb|DV533905.1|DV533905
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211077444|gb|FL076220.1|FL076220
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGAAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|89252869|gb|DY624655.1|DY624655
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|60337220|gb|DN204193.1|DN204193
EST:     GTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: GTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211077445|gb|FL076221.1|FL076221
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211077443|gb|FL076219.1|FL076219
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAG
EST: gi|211077441|gb|FL076217.1|FL076217
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAARAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211536732|gb|FL071661.1|FL071661
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211533731|gb|FL071655.1|FL071655
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGG
EST: gi|32868742|gb|CF008424.1|CF008424
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211074704|gb|FL076209.1|FL076209
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGAYTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATAGG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATAGG
EST: gi|211074701|gb|FL076206.1|FL076206
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGAAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|37396802|gb|CF635695.1|CF635695
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211533729|gb|FL071653.1|FL071653
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211533732|gb|FL071656.1|FL071656
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211077437|gb|FL076213.1|FL076213
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211077438|gb|FL076214.1|FL076214
EST:     AGTGTTACATTCGCGGGAACACCATTNAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTC
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTC
EST: gi|78107776|gb|DV526194.1|DV526194
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|40333860|gb|CK367930.1|CK367930
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211077436|gb|FL076212.1|FL076212
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAAC
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAAC
EST: gi|211533730|gb|FL071654.1|FL071654
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGNTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211074703|gb|FL076208.1|FL076208
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATA
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATA
EST: gi|211536733|gb|FL071662.1|FL071662
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|37375632|gb|CF624266.1|CF624266
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211533727|gb|FL071651.1|FL071651
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211074702|gb|FL076207.1|FL076207
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATAGGAA
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAGATAGGAA
EST: gi|211533728|gb|FL071652.1|FL071652
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCT
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCT
EST: gi|211536730|gb|FL071659.1|FL071659
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211533733|gb|FL071657.1|FL071657
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|9952507|gb|BE639090.1|BE639090
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|76927712|gb|DV171333.1|DV171333
EST:     AGTGTTACATTTGCGGGAACACCATTAAGTATTTTTGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTTTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|84970052|gb|DW468427.1|DW468427
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211077434|gb|FL076210.1|FL076210
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCCTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTC-AGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211074700|gb|FL076205.1|FL076205
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211077442|gb|FL076218.1|FL076218
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCCTCGAGTTCCTGATGAG                         GTGATTGACAAGGT-CAGGAGGAAACTTCT
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCT
EST: gi|211533734|gb|FL071658.1|FL071658
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|211536735|gb|FL071664.1|FL071664
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
EST: gi|78115516|gb|DV533904.1|DV533904
EST:     AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG                         GTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
genomic: AGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAGgtatggattt ... ccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attattctgtcatacagtatgtagtcttatttgaatggttcatttccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG
                                      ttcatttccttcttc  CT-rich tract
                          ttatttgaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattctgtcatttgattactttctgtatactaatataaattagcattattctgtcatacagtatgtagtcttatttgaatggttcatttccttcttcagGTGATTGACAAGGTTCAGGAGGAAACTTCTAAAAGCCGATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA