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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGACCACAAAAGTCATCGTAGAGCAAGAGATGATGTTAAGCGCAAGAGCAGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaataccaatgtgcaggtgcaccatttggttattctttgcatgttcccaaattataatttgatttctttcaacag

Basic information

species Zea mays
transcript GRMZM2G110143_T02
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|149005363|gb|EE039915.2|EE039915
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTTTTCACCTGCCCGGGGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|74237054|gb|DT644968.1|DT644968
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|149005364|gb|EE039916.2|EE039916
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCC
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCC
EST: gi|71321794|gb|DR797590.1|DR797590
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|74241217|gb|DT649131.1|DT649131
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|89757947|gb|DY687314.1|DY687314
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCG
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCG
EST: gi|78076982|gb|DV505416.1|DV505416
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|149107293|gb|EE189175.2|EE189175
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|71325766|gb|DR799564.1|DR799564
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|71420359|gb|DR805069.1|DR805069
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|71325769|gb|DR799565.1|DR799565
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCTCA-GAGCCCACCGCCAC
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCC-CAAGAGCCCACCGCCAC
EST: gi|89757945|gb|DY687313.1|DY687313
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTTTTCTCCTGCCCGGCGCAGTGTTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|76290039|gb|DV029607.1|DV029607
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|50335676|gb|CO530802.1|CO530802
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|71321797|gb|DR797591.1|DR797591
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCCTCC-AAGAGCCCACCGGCAC
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCC-TCCCAAGAGCCCACCGCCAC
EST: gi|149101748|gb|EE287365.2|EE287365
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|31558120|gb|CD527332.1|CD527332
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|74237053|gb|DT644967.1|DT644967
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|211253499|gb|FL469937.1|FL469937
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|89756357|gb|DY686407.1|DY686407
EST:     GAAGNCA-GAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCCAGAGCCCACCGCCACA
genomic: GAAG-CAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|50328941|gb|CO524067.1|CO524067
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|211440858|gb|FL253847.1|FL253847
EST:     AAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|29543368|gb|CB603764.1|CB603764
EST:     GAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: GAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|60400418|gb|DN233225.1|DN233225
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|29543688|gb|CB604068.1|CB604068
EST:     GCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAG-GCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: GCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|50335677|gb|CO530803.1|CO530803
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|30306409|gb|CD001082.1|CD001082
EST:     GCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: GCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|28982754|gb|BQ538326.2|BQ538326
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|78076983|gb|DV505417.1|DV505417
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|74243433|gb|DT651347.1|DT651347
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|89247003|gb|DY618789.1|DY618789
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|76290040|gb|DV029608.1|DV029608
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|30307255|gb|CD001928.1|CD001928
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAGAGCCCACCGCCACA
EST: gi|50325433|gb|CO520559.1|CO520559
EST:     AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAG                         TTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAG
genomic: AGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaat ... ctttcaacagTTCTTCACCTGCCCGGCGCAGTGCTAGTCCTCCCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGACCACAAAAGTCATCGTAGAGCAAGAGATGATGTTAAGCGCAAGAGCAGAAGCAAGAGTAGAAGCAGGAGCAGGAGTAGAAGCCGCTCATACCACAGgtgcctcaataccaatgtgcaggtgcaccatttggttattctttgcatgttcccaaattataatttgatttctttcaacag

- - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC