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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGACAGATTCTCAAACCCGGCGAACTCCGGGCAGGGCTCACGTCGCCGATCCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctcctcgcctcgcaatcttttccacctctcgtcgccgtacggttccttgttttggtgggttcgctggtacactgagaacgaactggctggttt...

Basic information

species Zea mays
transcript GRMZM2G006790_T01
intron # 1
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|94477770|gb|EB706728.1|EB706728
EST:     CCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCT
genomic: CCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCC-AGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCT
EST: gi|211172415|gb|FL359082.1|FL359082
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366894|gb|FL196959.1|FL196959
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTRATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366893|gb|FL196958.1|FL196958
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366887|gb|FL196952.1|FL196952
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366892|gb|FL196957.1|FL196957
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|74234338|gb|DT642252.1|DT642252
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211213037|gb|FL316832.1|FL316832
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211203216|gb|FL341877.1|FL341877
EST:     CGCTCCCGGATTCTCTTGGCGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CGCTCCCGGATTCTCTT--TGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211023359|gb|FL325324.1|FL325324
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211023721|gb|FL334134.1|FL334134
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366890|gb|FL196955.1|FL196955
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366882|gb|FL196947.1|FL196947
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211411713|gb|FL322222.1|FL322222
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366891|gb|FL196956.1|FL196956
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366886|gb|FL196951.1|FL196951
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|148978865|gb|EE026354.2|EE026354
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211162599|gb|FL365711.1|FL365711
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366884|gb|FL196949.1|FL196949
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGA-GAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|71428676|gb|DR809726.1|DR809726
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|76013244|gb|DT940414.1|DT940414
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
EST: gi|211366883|gb|FL196948.1|FL196948
EST:     CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAG                         GCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT
genomic: CCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctc ... tcatttccagGCCTTCAGCAGCTCCGTCTCCGTGTGTATCTGATCGGGGGATTCTTTGCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGACAGATTCTCAAACCCGGCGAACTCCGGGCAGGGCTCACGTCGCCGATCCCGCTCCCGGATTCTCTTTGCCGCCGCGAGGAGACGGCGTCCAGTCCAGgcaagcgctcctcgcctcgcaatcttttccacctctcgtcgccgtacggttccttgttttggtgggttcgctggtacactgagaacgaactggctggttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA