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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtggttttcggttcacaccacaagattaagctctggtgcatgtgagaacagaacaatgttccagcggctcaagaaagagagagaacgttttcacaacctctaaaaaacagaggattacagtccttgatagagtttggtttcgtgaactgaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGAAGCAGCAAGGAGGTAGACGAGGAGGAGGAGCCCAAGGGGTACATACACG

Basic information

species Zea mays
transcript GRMZM2G178182_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|71767729|gb|DR965666.1|DR965666
EST:     ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAG                         GACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
genomic: ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAGgtactgtggt ... gaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
EST: gi|88756498|gb|DY540639.1|DY540639
EST:     ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAG                         GACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
genomic: ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAGgtactgtggt ... gaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
EST: gi|78113320|gb|DV531712.1|DV531712
EST:     ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAG                         GACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
genomic: ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAGgtactgtggt ... gaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
EST: gi|93013083|gb|EB638603.1|EB638603
EST:     ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAG                         GACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
genomic: ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAGgtactgtggt ... gaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
EST: gi|76914768|gb|DV165681.1|DV165681
EST:     ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAG                         GACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
genomic: ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAGgtactgtggt ... gaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
EST: gi|76280841|gb|DV020409.1|DV020409
EST:     ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAG                         GACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
genomic: ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAGgtactgtggt ... gaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
EST: gi|50330951|gb|CO526077.1|CO526077
EST:     ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAG                         GACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
genomic: ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAGgtactgtggt ... gaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
EST: gi|71439158|gb|DR820208.1|DR820208
EST:     ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAG                         GACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
genomic: ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAGgtactgtggt ... gaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
EST: gi|37421059|gb|CF648227.1|CF648227
EST:     ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAG                         GACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA
genomic: ACAGCGCCAGCGCCAGCGCCAGCTTCAGCTTCAGCTCTGCGCACTCCAAGgtactgtggt ... gaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaacagaggattacagtccttgatagagtttggtttcgtgaactgaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGAAGCAGCAAGGAGGTAGACGAGGAGGAGGAGCCCAAGGGGTACATACACG
                  ccttgat  putative branch site (score: 5)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactgtggttttcggttcacaccacaagattaagctctggtgcatgtgagaacagaacaatgttccagcggctcaagaaagagagagaacgttttcacaacctctaaaaaacagaggattacagtccttgatagagtttggtttcgtgaactgaacaagcagGACTCGAGCTCGAAGGGAAGCACCAAGAATAGGGGAGGGAAAAGAGGCAGAAGCAGCAAGGAGGTAGACGAGGAGGAGGAGCCCAAGGGGTACATACACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG