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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtctacctttcttacgcatattacttagatgagtctgctcagcagtagcataatagttcacagacaggactctgaagcaaatttttgttttgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCAGTGCAATGGAG

Basic information

species Zea mays
transcript GRMZM2G063679_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|19436405|gb|BM952815.1|BM952815
EST:     TGTTCCTTCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AATGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|87152325|gb|DY397114.1|DY397114
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|19057678|gb|BM736345.1|BM736345
EST:     TCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|19057505|gb|BM736172.1|BM736172
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|22490933|gb|BU050856.1|BU050856
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|16916311|gb|BM072788.1|BM072788
EST:     GTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: GTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|19436847|gb|BM953257.1|BM953257
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|19436846|gb|BM953256.1|BM953256
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|19821929|gb|BQ047953.1|BQ047953
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCNTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|60340804|gb|DN207777.1|DN207777
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|211057943|gb|FL196745.1|FL196745
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGAGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
EST: gi|211057940|gb|FL196742.1|FL196742
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGNGCCTGTGAAGCGTTTCCTTGCGGC
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGG-GCCTGTGAAGCGTTTCCTTGCGGC
EST: gi|19436404|gb|BM952814.1|BM952814
EST:     TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTG                         AAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA
genomic: TGTTCCATCCCACATCTATTCTGCCTCGGCTTGCACCTTCGACCTCGCTGgtaagttcca ... tgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagcataatagttcacagacaggactctgaagcaaatttttgttttgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCAGTGCAATGGAG
                                    tttttgtttt  CT-rich tract
                                 aaatttttgttttga  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctacctttcttacgcatattacttagatgagtctgctcagcagtagcataatagttcacagacaggactctgaagcaaatttttgttttgagttgcagAAAGTTCTGACCTCAAACTGAAAGGGGCCTGTGAAGCGTTTCCTTGCGGCAGTGCAATGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - tcagcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacagac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgaagc