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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttgcatgattgcttccttataatctggactgacgctttcctttaaaccgcataggtccctgagctatataatcatttgttgtgttcccttcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCTCGACGGCATTCAGGATTCGGTTCCTTATTTGGGAGTGGACCGTAGCCCG

Basic information

species Zea mays
transcript GRMZM2G043350_T02
intron # 10
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|149101574|gb|EE187700.2|EE187700
EST:     GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|32848647|gb|CD988328.1|CD988328
EST:     GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|71434428|gb|DR815478.1|DR815478
EST:     GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTTCCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|71759011|gb|DR956948.1|DR956948
EST:     GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|5706281|gb|AI942057.1|AI942057
EST:     GACTCCCTAACGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|60346873|gb|DN213846.1|DN213846
EST:     GACTCCCTAACGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|60353976|gb|DN220949.1|DN220949
EST:     GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|71446525|gb|DR827575.1|DR827575
EST:     GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|78092424|gb|DV520798.1|DV520798
EST:     GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|93015969|gb|EB641489.1|EB641489
EST:     ACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: ACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|60338451|gb|DN205424.1|DN205424
EST:     GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|60401450|gb|DN234257.1|DN234257
EST:     GACTCCCTAACGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
EST: gi|60399024|gb|DN231840.1|DN231840
EST:     GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAA                         CTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT
genomic: GACTCCCTAATGGACGCCCATTTCCTCCACTATTCAACTTTAAGCAGGAAgtaagtgatt ... tcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaccgcataggtccctgagctatataatcatttgttgtgttcccttcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCTCGACGGCATTCAGGATTCGGTTCCTTATTTGGGAGTGGACCGTAGCCCG
                              tttgttgtgttccctt  CT-rich tract
                    tatataatcatttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttgcatgattgcttccttataatctggactgacgctttcctttaaaccgcataggtccctgagctatataatcatttgttgtgttcccttcctttgcagCTAGCAAACGCACCACCGGAGCTTGTCAGCAGGCTATTACCAGAGCATGCTCGACGGCATTCAGGATTCGGTTCCTTATTTGGGAGTGGACCGTAGCCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA