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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatcttgctatagcttttctttatttctctctagcctctttatttgtttacgttattttcatgaactaatgggctgcatctttttttcag

Basic information

species Zea mays
transcript GRMZM2G143462_T04
intron # 4
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|211394218|gb|FL229512.1|FL229512
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|149095756|gb|EE181396.2|EE181396
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|148995692|gb|EE034914.2|EE034914
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|89759371|gb|DY688230.1|DY688230
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|30306905|gb|CD001578.1|CD001578
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|74242202|gb|DT650116.1|DT650116
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|148947026|gb|EC892323.2|EC892323
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|89758471|gb|DY687642.1|DY687642
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|89761592|gb|DY689541.1|DY689541
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|9731840|gb|BE510592.1|BE510592
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|211394220|gb|FL229514.1|FL229514
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|211488314|gb|FK957004.1|FK957004
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|78111156|gb|DV529553.1|DV529553
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|148999208|gb|EE036127.2|EE036127
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|211491194|gb|FK957015.1|FK957015
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|93280956|gb|EB673220.1|EB673220
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|71771539|gb|DR969476.1|DR969476
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|32805412|gb|CD957648.1|CD957648
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
EST: gi|76912415|gb|DV164721.1|DV164721
EST:     ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCC                         GGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA
genomic: ACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatctt ... tttttttcagGGTGGCACCAATTACAACTTCTCAGCCTGAAGGACTTCCTGCACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACTCAAACACTCCTGCAACAAGGCAGGCACCTCCTCTAGAGGCCCCACAACAAGCTCCTCAACCCCCgtgagatcttgctatagcttttctttatttctctctagcctctttatttgtttacgttattttcatgaactaatgggctgcatctttttttcag

- - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC