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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGCGGTCGGTCGCTCCCCTCCTCTGTCCGCGATCTCGGCTGGCCGCCTGGGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatctctccagtccggtccccccctggcccctaccccaaccctaccggctggttcgtcgcgcgcgccgaatcgtggagaggcgggaatctgacgcggacctcattggattccgtgcag

Basic information

species Zea mays
transcript GRMZM2G018837_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|149075355|gb|EE163864.2|EE163864
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211057553|gb|FL294376.1|FL294376
EST:     GGCTTGGCCCTCGCC-CCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         ATTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGACTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211057556|gb|FL294379.1|FL294379
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211057557|gb|FL294380.1|FL294380
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|26557412|gb|CA829647.1|CA829647
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211054587|gb|FL294369.1|FL294369
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|76937510|gb|DV175167.1|DV175167
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|149000276|gb|EE037432.2|EE037432
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|76910443|gb|DV163876.1|DV163876
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211441219|gb|FL152932.1|FL152932
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211057550|gb|FL294373.1|FL294373
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211054585|gb|FL294367.1|FL294367
EST:     GGCTTGGCCCTCGCC-CCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         ATTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGACTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211057551|gb|FL294374.1|FL294374
EST:     GGCTTGGCCCTCGCC-CCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         ATTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGACTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|148974485|gb|EE025268.2|EE025268
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|148956501|gb|EC902338.2|EC902338
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211054577|gb|FL294359.1|FL294359
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|149014700|gb|EE044372.2|EE044372
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211057549|gb|FL294372.1|FL294372
EST:     GGCTTGGCCCTCGCC-CCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         ATTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGACTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211054583|gb|FL294365.1|FL294365
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|37420242|gb|CF647811.1|CF647811
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|211054586|gb|FL294368.1|FL294368
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
EST: gi|76015275|gb|DT942445.1|DT942445
EST:     GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAG                         GTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA
genomic: GGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatc ... ttccgtgcagGTTTGCTCGGGTCTTCGTGCCAGCGACGATGAAGGACAAGCGTGGGCTCGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGCGGTCGGTCGCTCCCCTCCTCTGTCCGCGATCTCGGCTGGCCGCCTGGGCTTGGCCCTCGCCACCGCTCCCGTCTCCGGTTCCGGCGGCCGAGCCAGgtgaacgatctctccagtccggtccccccctggcccctaccccaaccctaccggctggttcgtcgcgcgcgccgaatcgtggagaggcgggaatctgacgcggacctcattggattccgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -CGCCACCG