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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTGTTCTATATCGCCCCATTGCTCGCTCGCCAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacagtctcaggtccctccctcgttcgcattgtctttccatttctctatatgctttgcttgcgcccccgttcgttcgtcagatcgaccacctcct...

Basic information

species Zea mays
transcript GRMZM5G833389_T02
intron # 1
splice site 5'
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|71330938|gb|DR802276.1|DR802276
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135945|gb|FK961385.1|FK961385
EST:     GTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: GTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211136895|gb|FK961399.1|FK961399
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211136889|gb|FK961393.1|FK961393
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135008|gb|FK961373.1|FK961373
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211137829|gb|FK961411.1|FK961411
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135007|gb|FK961372.1|FK961372
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135946|gb|FK961386.1|FK961386
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135939|gb|FK961379.1|FK961379
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135943|gb|FK961383.1|FK961383
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135941|gb|FK961381.1|FK961381
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|148961947|gb|EE012741.2|EE012741
EST:     GCAAAAGCAGAAGCAAAAAGAGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: GCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211136902|gb|FK961406.1|FK961406
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211137828|gb|FK961410.1|FK961410
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211134061|gb|FK961356.1|FK961356
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211134998|gb|FK961363.1|FK961363
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135009|gb|FK961374.1|FK961374
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135942|gb|FK961382.1|FK961382
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|6526987|gb|AW216215.1|AW216215
EST:     AGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAG                         GTCTTGNTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: AGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135005|gb|FK961370.1|FK961370
EST:     AGGCAAAAGCAGAAGCAAAAAGAGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: AGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135004|gb|FK961369.1|FK961369
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211136898|gb|FK961402.1|FK961402
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135000|gb|FK961365.1|FK961365
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
EST: gi|211135012|gb|FK961377.1|FK961377
EST:     CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCNNNNNNNGAAAG                         GTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC
genomic: CAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacag ... tgtttggtagGTCTTGTTGCCGATGGGGAGCTCAGGGTTCTCGTGGACGCTTCCGGACCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCTGTTCTATATCGCCCCATTGCTCGCTCGCCAAGAGTTCTTCTTGTTAGGCAAGGCAAAAGCAGAAGCAAAAAGAGAAAGgtaagaacagtctcaggtccctccctcgttcgcattgtctttccatttctctatatgctttgcttgcgcccccgttcgttcgtcagatcgaccacctcct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccacctcc