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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGAACTGCAACAATGGTTTCGGAAGAAACCGCATCACCTACACAGACACGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctacttacgtattctccggtcctgcttccgttttatacttgttccctgtactgactgaccatatatgttccgcacggcag

Basic information

species Zea mays
transcript GRMZM2G179737_T02
intron # 6
splice site 5'
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|32836771|gb|CD976449.1|CD976449
EST:     ACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: ACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|18385139|gb|BM418338.1|BM418338
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|149110591|gb|EE190498.2|EE190498
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|20507208|gb|BQ279531.1|BQ279531
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|71432608|gb|DR813658.1|DR813658
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|19350892|gb|BM895424.1|BM895424
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGCCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|19351534|gb|BM896066.1|BM896066
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|101390191|gb|EB817028.1|EB817028
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|60353776|gb|DN220749.1|DN220749
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAAAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|110515503|gb|EE020091.1|EE020091
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCCAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|91054011|gb|EB164429.1|EB164429
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|83279335|gb|DV943343.1|DV943343
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|149021621|gb|EE045803.2|EE045803
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|148969450|gb|EE020256.2|EE020256
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|60358592|gb|DN225565.1|DN225565
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|149087736|gb|EE287093.2|EE287093
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|78087095|gb|DV515488.1|DV515488
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|211079592|gb|FK945962.1|FK945962
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCRGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|88758213|gb|DY542354.1|DY542354
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|32836777|gb|CD976455.1|CD976455
EST:     ACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: ACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|60398214|gb|DN231030.1|DN231030
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAAAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|93012420|gb|EB637940.1|EB637940
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|7216937|gb|AW563074.1|AW563074
EST:     GTGTACCCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: GTGTA-CCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|78087096|gb|DV515489.1|DV515489
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|91048207|gb|EB158625.1|EB158625
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|60398588|gb|DN231404.1|DN231404
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAAAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|149110590|gb|EE294202.2|EE294202
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|4610088|gb|AI600927.1|AI600927
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGAGAACTGCAACAATGGTTTCGGAAGAAACCGCATCACCTACACAGACACGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctacttacgtattctccggtcctgcttccgttttatacttgttccctgtactgactgaccatatatgttccgcacggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA