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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCCCGAAGAAGGACAAGGCCCCGCCGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttctctcctactggctcgtctcttcgatttgctggaggtgcagcttcttcgggttctcacggcactcgttcctgttggttttgcag

Basic information

species Zea mays
transcript GRMZM2G084868_T03
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|211114494|gb|FL397754.1|FL397754
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|211301114|gb|FL396192.1|FL396192
EST:     GCTCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAKAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: GC-CGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|211439670|gb|FK960515.1|FK960515
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGG
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGG
EST: gi|9952372|gb|BE638955.1|BE638955
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|211459128|gb|FL410726.1|FL410726
EST:     CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|161589886|gb|EY962673.1|EY962673
EST:     CGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: CGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|29543869|gb|CB604249.1|CB604249
EST:     GCCGTCGTCGAAGCCGGCCAAGTACCGGTGGTGGCAAGCAAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: GCCGTCGTCGAAGCCGGCCAAGT-CCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
EST: gi|166502763|gb|EG164293.1|EG164293
EST:     AAAAGAAGAAG                         AAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC
genomic: AAAAGAAGAAGgtgacccttc ... ggttttgcagAAGTGGAGCAAGGGAAAGCTAAAGGAGAAGGTAAACAACGCGGTGCTGTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCCCGAAGAAGGACAAGGCCCCGCCGCCGTCGTCGAAGCCGGCCAAGTCCGGTGGTGGCAAGCAAAAGAAGAAGgtgacccttctctcctactggctcgtctcttcgatttgctggaggtgcagcttcttcgggttctcacggcactcgttcctgttggttttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG