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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaatatttgagaacggaggtaatactatatttggatctactgttttagtgccaaatgatcatggcaggattacttatgtggaatcaatttcctttgcagACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCAGAACCAGCACAAATACGAGGCAAGACTGTTTATATTCAGTATTCAAATA

Basic information

species Zea mays
transcript GRMZM2G028921_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|211404941|gb|FL354736.1|FL354736
EST:     ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTC                         ACTGACGTTNATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
genomic: ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTCgtaagtcctt ... tcctttgcagACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
EST: gi|71423320|gb|DR806002.1|DR806002
EST:     ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTC                         ACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
genomic: ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTCgtaagtcctt ... tcctttgcagACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
EST: gi|76292022|gb|DV031590.1|DV031590
EST:     ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTC                         ACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
genomic: ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTCgtaagtcctt ... tcctttgcagACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
EST: gi|149108000|gb|EE292356.2|EE292356
EST:     ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTC                         ACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
genomic: ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTCgtaagtcctt ... tcctttgcagACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
EST: gi|211474628|gb|FL315180.1|FL315180
EST:     ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTC                         ACTGACGTTNATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
genomic: ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTCgtaagtcctt ... tcctttgcagACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCA
EST: gi|211525173|gb|FL201999.1|FL201999
EST:     ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTC                         ACTGACGTTAATCAGGCAA
genomic: ACACCAAGAGCGGCGTCGGCGCCAACCACAACCAGGCCTTTGTCGAGTTCgtaagtcctt ... tcctttgcagACTGACGTTAATCAGGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagtgccaaatgatcatggcaggattacttatgtggaatcaatttcctttgcagACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCAGAACCAGCACAAATACGAGGCAAGACTGTTTATATTCAGTATTCAAATA
                                           tttcctttgc  CT-rich tract
                        attacttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaatatttgagaacggaggtaatactatatttggatctactgttttagtgccaaatgatcatggcaggattacttatgtggaatcaatttcctttgcagACTGACGTTAATCAGGCAATCTCGATGGTTTCTTATTTCGCATCATCTTCAGAACCAGCACAAATACGAGGCAAGACTGTTTATATTCAGTATTCAAATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA