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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcctggtggtggtggtgtacaatttattaatagcctataaataaataaataattagcatgtgcagctactgataaaagagtcccgtggctcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAGAAACGTTGGGGGCAGTTTGGACCTCGGAGCAGCAGCATCCATGGCGGGA

Basic information

species Zea mays
transcript GRMZM2G443985_T02
intron # 14
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|76288363|gb|DV027931.1|DV027931
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|74231924|gb|DT639838.1|DT639838
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|50334375|gb|CO529501.1|CO529501
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|71439507|gb|DR820557.1|DR820557
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|78083294|gb|DV511687.1|DV511687
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|78109374|gb|DV527790.1|DV527790
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|76014684|gb|DT941854.1|DT941854
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|71418512|gb|DR804465.1|DR804465
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|71771028|gb|DR968965.1|DR968965
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|37416678|gb|CF645992.1|CF645992
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|211138015|gb|FL213720.1|FL213720
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|76282427|gb|DV021995.1|DV021995
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|211138016|gb|FL213721.1|FL213721
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|50324042|gb|CO519168.1|CO519168
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|78076561|gb|DV504995.1|DV504995
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|71439506|gb|DR820556.1|DR820556
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|78084510|gb|DV512903.1|DV512903
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|50337067|gb|CO532193.1|CO532193
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|91871743|gb|EB401700.1|EB401700
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|71314972|gb|DR794105.1|DR794105
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|89757661|gb|DY687168.1|DY687168
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|78109441|gb|DV527857.1|DV527857
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
EST: gi|93012122|gb|EB637642.1|EB637642
EST:     CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAG                         CAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG
genomic: CCCACTGGGCCACTGAGAATTTCTGGAAGGGCTCCTTTTCCTCGGAGAAGgtaaagccct ... tcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaataattagcatgtgcagctactgataaaagagtcccgtggctcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAGAAACGTTGGGGGCAGTTTGGACCTCGGAGCAGCAGCATCCATGGCGGGA
                      tactgat  putative branch site (score: 2)
                         tgataaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcctggtggtggtggtgtacaatttattaatagcctataaataaataaataattagcatgtgcagctactgataaaagagtcccgtggctcgcaagcagCAATCTTGAGTCCTGGCCTGGGTCTTCGCTGCCAGCACGCTTGTGGCCAAGAAACGTTGGGGGCAGTTTGGACCTCGGAGCAGCAGCATCCATGGCGGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG