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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataacgtaccactgcaatgtttacttctttgatttatcacacaactcactgtcatgcatattatctcaaagcattatgttgttggaacggttgt...

Basic information

species Zea mays
transcript GRMZM2G114220_T01
intron # 2
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|211392505|gb|FL156794.1|FL156794
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389874|gb|FL156779.1|FL156779
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389876|gb|FL156781.1|FL156781
EST:     --G-TTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389878|gb|FL156783.1|FL156783
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392499|gb|FL156788.1|FL156788
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392496|gb|FL156785.1|FL156785
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389879|gb|FL156784.1|FL156784
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|50338446|gb|CO533572.1|CO533572
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392507|gb|FL156796.1|FL156796
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392498|gb|FL156787.1|FL156787
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|76909136|gb|DV163240.1|DV163240
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|6637070|gb|AW261342.1|AW261342
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAACCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|71417924|gb|DR804257.1|DR804257
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTCTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392504|gb|FL156793.1|FL156793
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392503|gb|FL156792.1|FL156792
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|91049005|gb|EB159423.1|EB159423
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|32859779|gb|CD999460.1|CD999460
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|32862738|gb|CF002420.1|CF002420
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211395124|gb|FL156801.1|FL156801
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392510|gb|FL156799.1|FL156799
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211395123|gb|FL156800.1|FL156800
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392502|gb|FL156791.1|FL156791
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211389877|gb|FL156782.1|FL156782
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|91873355|gb|EB403312.1|EB403312
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|14242735|gb|BG840580.2|BG840580
EST:     CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|213183590|gb|FM196389.1|FM196389
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
EST: gi|211392508|gb|FL156797.1|FL156797
EST:     --G-TTGAGGGAAGTTGAAGCAAAAGTCTAA-CAAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCG
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAA-TGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCG
EST: gi|93015584|gb|EB641104.1|EB641104
EST:     CA-GTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATG                         TTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT
genomic: CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataa ... ttccatgtagTTTTACGGGGGATATGCTTACCATGGCAACTCGTTTGAGCAAACATACCGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGGTTGAGGGAAGTTGAAGCAAAAGTCTAAGCAAAAATGgtattcataacgtaccactgcaatgtttacttctttgatttatcacacaactcactgtcatgcatattatctcaaagcattatgttgttggaacggttgt

- - - - - - - TTGAAG
- - - - - - -  TGAAGC
- - - - - - - -  AAGCAA
- - - - - - - - - - - - - -  AAGCAA