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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaatttacattctcaatatgcttttccagaagaactttgttgaattagagtagcagtttgtgctgatcttttactccacgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGAGGACTATATGCTTTGCTGCTACGGACAAGCAGGAGCCGGTCGTTTCACG

Basic information

species Zea mays
transcript GRMZM2G034975_T01
intron # 2
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|211120701|gb|FL137079.1|FL137079
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGA
EST: gi|211121478|gb|FL137087.1|FL137087
EST:     GTTCAGAGAGTCAATGGAAGCACGATGCCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGNATGGACGATTTCATATTAAG
genomic: GTTCAGAGAGTCAATGGAAGCACGATGC-AGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATG-ATGGACGATTTCATATTAAG
EST: gi|211120700|gb|FL137078.1|FL137078
EST:     AGTTCAGAGAGTCAATGGGAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|211121474|gb|FL137083.1|FL137083
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTWGCAGCACTGGCGACCATGAT
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGAT
EST: gi|211120704|gb|FL137082.1|FL137082
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|211121477|gb|FL137086.1|FL137086
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|86472486|gb|DY238856.1|DY238856
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|211120703|gb|FL137081.1|FL137081
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|76910325|gb|DV163808.1|DV163808
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|211121484|gb|FL137093.1|FL137093
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAC                         CTCAAGTTTT-AGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|211120702|gb|FL137080.1|FL137080
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCG
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCG
EST: gi|211121483|gb|FL137092.1|FL137092
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAG
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAG
EST: gi|76010385|gb|DT937555.1|DT937555
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|78079427|gb|DV507839.1|DV507839
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|94476849|gb|EB705807.1|EB705807
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|211121481|gb|FL137090.1|FL137090
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|71326147|gb|DR799760.1|DR799760
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|211121482|gb|FL137091.1|FL137091
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|71314223|gb|DR793729.1|DR793729
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|211121485|gb|FL137094.1|FL137094
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|78082089|gb|DV510501.1|DV510501
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|50325253|gb|CO520379.1|CO520379
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|76933226|gb|DV173377.1|DV173377
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|50332229|gb|CO527355.1|CO527355
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
EST: gi|211121486|gb|FL137095.1|FL137095
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGA
EST: gi|211121487|gb|FL137096.1|FL137096
EST:     AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAG                         CTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA
genomic: AGTTCAGAGAGTCAATGGAAGCACGATGCAGCATTTCGGTACTCTAAAAGgtaagtaatt ... acgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactttgttgaattagagtagcagtttgtgctgatcttttactccacgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGAGGACTATATGCTTTGCTGCTACGGACAAGCAGGAGCCGGTCGTTTCACG
                            tgctgat  putative branch site (score: 3)
       ttgaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtaatttacattctcaatatgcttttccagaagaactttgttgaattagagtagcagtttgtgctgatcttttactccacgctagcagCTCAAGTTTTTAGCAGCACTGGCGACCATGATGGACGATTTCATATTAAGAGGACTATATGCTTTGCTGCTACGGACAAGCAGGAGCCGGTCGTTTCACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT