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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctcttcctttctttttccattctctccctcccttcaagaacgtgtttcccattgcgacgttggatctaaccgtgtgtcttggtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGTGCTTGTGGGTGCCTGAGACCAAGGGAAGAACGCTAGAGGAAATCGCCTT

Basic information

species Zea mays
transcript GRMZM2G097768_T02
intron # 17
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|21330477|gb|BQ485858.1|BQ485858
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|21236535|gb|BQ441989.1|BQ441989
EST:     TGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: TGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|211113971|gb|FL431731.1|FL431731
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACATTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|101389585|gb|EB816725.1|EB816725
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATTTACGCCGTCGTGTTTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|18166608|gb|BM336447.1|BM336447
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|26455414|gb|CA826997.1|CA826997
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|71766861|gb|DR964798.1|DR964798
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|211126445|gb|FL284300.1|FL284300
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACATTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|193503179|gb|AM937591.1|AM937591
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACATTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|67016921|gb|CO445670.1|CO445670
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACATTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|211440838|gb|FL476613.1|FL476613
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACATTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|149077603|gb|EE166303.2|EE166303
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|6563963|gb|AW231585.1|AW231585
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACATTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|87154157|gb|DY398946.1|DY398946
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|50325332|gb|CO520458.1|CO520458
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATTTACGCCGTCGTGTTTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|409675|gb|T12737.1|T12737
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|26455008|gb|CA826591.1|CA826591
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|193503551|gb|AM937740.1|AM937740
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACATTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|37374223|gb|CF623456.1|CF623456
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACATTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|83279317|gb|DV943325.1|DV943325
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACATTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
EST: gi|50325565|gb|CO520691.1|CO520691
EST:     ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAG                         GAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT
genomic: ATGGGCCATTACAATGACGGCAAGCCTGATGTTGAACTGGAGCAGTGGAGgtctcttcct ... gtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaacgtgtttcccattgcgacgttggatctaaccgtgtgtcttggtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGTGCTTGTGGGTGCCTGAGACCAAGGGAAGAACGCTAGAGGAAATCGCCTT
                           atctaac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctcttcctttctttttccattctctccctcccttcaagaacgtgtttcccattgcgacgttggatctaaccgtgtgtcttggtttgaccagGAACCTTTGCTATCTACGCCGTCGTGTCTACCATGGCCCTCATTTTCGTGTGCTTGTGGGTGCCTGAGACCAAGGGAAGAACGCTAGAGGAAATCGCCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA