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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagaccaaaattgtttaatcagttaatttttaaatttcttcttgtcattccatgatttaagactgttaactgcaaagtcttatcttaatttcttgtgcagGTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTGCTGTTTTAAAAACAAGTGGCAGTTTTTGTAGTACACAACAGCAGCATTT

Basic information

species Zea mays
transcript GRMZM2G139360_T01
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|76021503|gb|DT948673.1|DT948673
EST:     CACTCGTGCTCTCGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAG                         GTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG
genomic: CACTCGTGCTCTCGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAGgtaggttcgc ... tcttgtgcagGTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG
EST: gi|71757783|gb|DR955720.1|DR955720
EST:     CGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAG                         GTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG
genomic: CGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAGgtaggttcgc ... tcttgtgcagGTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG
EST: gi|71435418|gb|DR816468.1|DR816468
EST:     CTCGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAG                         GTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG
genomic: CTCGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAGgtaggttcgc ... tcttgtgcagGTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG
EST: gi|101399831|gb|EB821762.1|EB821762
EST:     CACTCGTGCTCTCGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAG                         GTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG
genomic: CACTCGTGCTCTCGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAGgtaggttcgc ... tcttgtgcagGTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG
EST: gi|211381885|gb|FL378668.1|FL378668
EST:     CTCTCGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAG                         GTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG
genomic: CTCTCGCCATTCGCTCGAACCCCGAAGAACTGGCAGTGGCAGgtaggttcgc ... tcttgtgcagGTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattccatgatttaagactgttaactgcaaagtcttatcttaatttcttgtgcagGTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTGCTGTTTTAAAAACAAGTGGCAGTTTTTGTAGTACACAACAGCAGCATTT
                                           tttcttgt  CT-rich tract
                                  ttatcttaatttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagaccaaaattgtttaatcagttaatttttaaatttcttcttgtcattccatgatttaagactgttaactgcaaagtcttatcttaatttcttgtgcagGTTACTAGAGGATCACTACTTTGAACTCATTAAAGTGTCTAATGATGGCTGCTGTTTTAAAAACAAGTGGCAGTTTTTGTAGTACACAACAGCAGCATTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT