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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcatatctaactgtttccctttttgaggtacaacttgtttacatgtttgtatctggatatatatgaacaatctacttctttcattttgttttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGAGTTGATATGGAAGTCACAGTACTG

Basic information

species Zea mays
transcript GRMZM2G171373_T01
intron # 3
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|78087466|gb|DV515859.1|DV515859
EST:     CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATG                         GTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
genomic: CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcag ... ttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
EST: gi|71757201|gb|DR955138.1|DR955138
EST:     CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATG                         GTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
genomic: CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcag ... ttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
EST: gi|78106048|gb|DV524466.1|DV524466
EST:     CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATG                         GTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
genomic: CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcag ... ttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
EST: gi|71448675|gb|DR829725.1|DR829725
EST:     CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATG                         GTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
genomic: CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcag ... ttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
EST: gi|78089619|gb|DV517993.1|DV517993
EST:     CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATG                         GTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
genomic: CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcag ... ttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
EST: gi|78080649|gb|DV509061.1|DV509061
EST:     CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATG                         GTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
genomic: CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcag ... ttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
EST: gi|94477216|gb|EB706174.1|EB706174
EST:     CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATG                         GTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
genomic: CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcag ... ttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
EST: gi|149112472|gb|EE295341.2|EE295341
EST:     CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATG                         GTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
genomic: CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcag ... ttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
EST: gi|149047925|gb|EE048253.2|EE048253
EST:     CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATG                         GTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA
genomic: CATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcag ... ttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtatctggatatatatgaacaatctacttctttcattttgttttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGAGTTGATATGGAAGTCACAGTACTG
                         tctacttctttcattt  CT-rich tract
           atatatatgaacaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcatatctaactgtttccctttttgaggtacaacttgtttacatgtttgtatctggatatatatgaacaatctacttctttcattttgttttgaatacagGTAGGAAAGGACGTAGTGGCAGAATTAAACAAGGCTATCAAACGCCAAGGAGTTGATATGGAAGTCACAGTACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG