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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaaaagctaatcatatagtatgctatgacatcttcaaacattgtcattaaaacaaattcctagtttgaaccattcttttcctttccttttatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG

Basic information

species Zea mays
transcript GRMZM5G884316_T03
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|78077326|gb|DV505760.1|DV505760
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCCAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|78111844|gb|DV530241.1|DV530241
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|76918443|gb|DV167297.1|DV167297
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|89762405|gb|DY690005.1|DY690005
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|76011704|gb|DT938874.1|DT938874
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|71431444|gb|DR812494.1|DR812494
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|76021372|gb|DT948542.1|DT948542
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|78105804|gb|DV524222.1|DV524222
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|74232780|gb|DT640694.1|DT640694
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|76911871|gb|DV164475.1|DV164475
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|78120002|gb|DV538386.1|DV538386
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|148971070|gb|EE021911.2|EE021911
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
EST: gi|71439008|gb|DR820058.1|DR820058
EST:     CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTG                         GCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
genomic: CCAACCAACCACTACCGGCGTGTGGATGATAGCAGGTTATCTGTTGCGTGgtatgcactg ... tatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattaaaacaaattcctagtttgaaccattcttttcctttccttttatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG
                   tttgaaccattctttt  CT-rich tract
                                          ttttatcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agaaaagctaatcatatagtatgctatgacatcttcaaacattgtcattaaaacaaattcctagtttgaaccattcttttcctttccttttatctttcagGCATAAATCGTCCCTGTTGGTGAGCTGTTCCAAAGACTCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - gtatgct
- - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa