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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAGGCGCTGACAACTGGGGCGGTGAATGGGGTGCTGGCGAAGCTGCAGCTCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttactcttctcataataacatggatcttcctgctagtgttttgtttacacgtgcttagtttgtctaggatacagtgcttaattgattgatagtt...

Basic information

species Zea mays
transcript GRMZM2G159237_T03
intron # 3
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|78117854|gb|DV536241.1|DV536241
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|76908312|gb|DV162877.1|DV162877
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|9743056|gb|BE519204.1|BE519204
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAG
EST: gi|60396348|gb|DN229217.1|DN229217
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|29130009|gb|CB380713.1|CB380713
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|9742963|gb|BE519111.1|BE519111
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|76291477|gb|DV031045.1|DV031045
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|22541981|gb|BU092419.1|BU092419
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCCCCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|84980400|gb|DW530749.1|DW530749
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGCGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|87298795|gb|DY470798.1|DY470798
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGCGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|30087470|gb|CB885676.1|CB885676
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTAAAAAACCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|76280595|gb|DV020163.1|DV020163
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|149102131|gb|EE287570.2|EE287570
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|76287509|gb|DV027077.1|DV027077
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|71311034|gb|DR791823.1|DR791823
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|60351426|gb|DN218399.1|DN218399
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|22489242|gb|BU049165.1|BU049165
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGCGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|37382876|gb|CF628407.1|CF628407
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|4573135|gb|AI586784.1|AI586784
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
EST: gi|67030712|gb|CO459461.1|CO459461
EST:     TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAG                         CTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG
genomic: TCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttac ... cggatttcagCTCCTCCTGCTGACGGTGTCTGGGACGCAGCTGTGGCTCCACCTCCAGCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCAGGCGCTGACAACTGGGGCGGTGAATGGGGTGCTGGCGAAGCTGCAGCTCCAGCTGCTAGCATTCCAGCTGCTGGCGCAGACTGGGCTGCTGCTCCAGgtccagttactcttctcataataacatggatcttcctgctagtgttttgtttacacgtgcttagtttgtctaggatacagtgcttaattgattgatagtt

- - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT