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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAGAAGTCATCATAGAGCAAGAGATGATGATAAGCGCAAGAGCATGAGTAAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaataccaatatgcagttccaccatttggttactctttacatgttccgaaattctaatttgatttcttccaacag

Basic information

species Zea mays
transcript GRMZM2G016296_T06
intron # 6
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|87157632|gb|DY402421.1|DY402421
EST:     AAGAGCAGGAGCAGGAGCA----CA-A-GTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCAGCACAGTGCTAGCCCTCGC
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGC
EST: gi|71766439|gb|DR964376.1|DR964376
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|74235570|gb|DT643484.1|DT643484
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|71421374|gb|DR805394.1|DR805394
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|211456040|gb|FL150302.1|FL150302
EST:     AAGAGCAGGAGCAGGAGCA----CA-A-GTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGTCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|50325878|gb|CO521004.1|CO521004
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|211422683|gb|FL350037.1|FL350037
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGC
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGC
EST: gi|74235569|gb|DT643483.1|DT643483
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|76280364|gb|DV019932.1|DV019932
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|71317634|gb|DR795571.1|DR795571
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|76936777|gb|DV174882.1|DV174882
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|74232258|gb|DT640172.1|DT640172
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
EST: gi|91873269|gb|EB403226.1|EB403226
EST:     AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAG                         TGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA
genomic: AAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaat ... cttccaacagTGCTTCACCTGCCCGGCACAGTGCTAGCCCTCGCAAGAGCCCACCGCCACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAGAAGTCATCATAGAGCAAGAGATGATGATAAGCGCAAGAGCATGAGTAAGAGCAGGAGCAGGAGCAGGAGCACAAGTAGAAGCCGCTCATACTATAGgtgcctcaataccaatatgcagttccaccatttggttactctttacatgttccgaaattctaatttgatttcttccaacag

- - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC