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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcactagagtaaaataattattcatatctttttaatcaggaatttttattgtggttcttccatatttagctcagtagtgaagcttggttgtattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAAAACTAAAGGAATGGCAGAATAAAGAAATTCTGTTGAGGGCAACAGCATG

Basic information

species Zea mays
transcript GRMZM2G142502_T03
intron # 9
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|149014311|gb|EE043888.2|EE043888
EST:     ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAA                         GATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
EST: gi|22546253|gb|BU098564.1|BU098564
EST:     ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAA                         GATGGAAAGAAGCAAT
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAAT
EST: gi|211191423|gb|FL472420.1|FL472420
EST:     ACAATGCACCATGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAA                         GATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
EST: gi|60353959|gb|DN220932.1|DN220932
EST:     ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAA                         GATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
EST: gi|110517035|gb|EE021622.1|EE021622
EST:     ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAA                         GATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
EST: gi|149079391|gb|EE168366.2|EE168366
EST:     ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTTTCAAA                         GATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
EST: gi|28361590|gb|CB239946.1|CB239946
EST:     ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAA                         GATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
EST: gi|87157166|gb|DY401955.1|DY401955
EST:     ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAA                         GATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
EST: gi|28390376|gb|CB250185.1|CB250185
EST:     ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAA                         GATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
EST: gi|211359371|gb|FL212472.1|FL212472
EST:     ACAATGCACCATGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAA                         GATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA
genomic: ACAATGCACCACGTTTTCCAGTGAAGAAGCGACAGCCTTTCTTTCTCAAAgtaaacatct ... tattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattgtggttcttccatatttagctcagtagtgaagcttggttgtattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAAAACTAAAGGAATGGCAGAATAAAGAAATTCTGTTGAGGGCAACAGCATG
                                          ttgtatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcactagagtaaaataattattcatatctttttaatcaggaatttttattgtggttcttccatatttagctcagtagtgaagcttggttgtattttgcagGATGGAAAGAAGCAATAGCCGCCGATCACGTGAAACTTGTTGTGTCCTGAAAACTAAAGGAATGGCAGAATAAAGAAATTCTGTTGAGGGCAACAGCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA