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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtggtatagtacatggtaccagctcttatgaggaaaataaaaccagatgtggttctctttgagccgctgtctaaaaacctatttatctggtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAAGA

Basic information

species Zea mays
transcript GRMZM2G118014_T02
intron # 1
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:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|22491280|gb|BU051203.1|BU051203
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGAGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211063251|gb|FL401238.1|FL401238
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|6626437|gb|AW257969.1|AW257969
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|87153157|gb|DY397946.1|DY397946
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211384992|gb|FL172471.1|FL172471
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211384994|gb|FL172473.1|FL172473
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211390250|gb|FL172490.1|FL172490
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|19350716|gb|BM895248.1|BM895248
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211390254|gb|FL172494.1|FL172494
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|19272599|gb|BM888855.1|BM888855
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211390251|gb|FL172491.1|FL172491
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211387625|gb|FL172488.1|FL172488
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|76284913|gb|DV024481.1|DV024481
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211387618|gb|FL172481.1|FL172481
EST:     GCCGGCTCTTCCTCGCCGGTCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGACCTTGTTCTAAGATTCACTCGCTTCAGCTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|19351463|gb|BM895995.1|BM895995
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|149079348|gb|EE168324.2|EE168324
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211387620|gb|FL172483.1|FL172483
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211387614|gb|FL172477.1|FL172477
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211384990|gb|FL172469.1|FL172469
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|211390252|gb|FL172492.1|FL172492
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|22491491|gb|BU051414.1|BU051414
EST:     GCCGGCTCTTACTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|87152221|gb|DY397010.1|DY397010
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|76020071|gb|DT947241.1|DT947241
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
EST: gi|19351812|gb|BM896344.1|BM896344
EST:     GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACG                         AAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA
genomic: GCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgt ... gtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatgtggttctctttgagccgctgtctaaaaacctatttatctggtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAAGA
                        gtctaaa  putative branch site (score: 3)
                           taaaaacctatttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtggtatagtacatggtaccagctcttatgaggaaaataaaaccagatgtggttctctttgagccgctgtctaaaaacctatttatctggtgattgcagAAAATGGATCTTGGTCCTTGTTCTAAGATTCACTCGCTTCAACTGCGGAAAGA

- - - - -gtacatg
- - - - - - - - -taccagc
- - - - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gccgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaaaaac