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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCACCTCATGGGAGAGGATCTTGAAACGTTGAATCTCAAAGAGCTTCAGCAACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgatcatgtatattagactgcagtgcattccttatgtgttgcttactacaccactgacagccttgcgctctgcgcgttggagaaagctaacaagtaaatattcatcgtatgcgcag

Basic information

species Zea mays
transcript GRMZM2G553379_T05
intron # 4
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|71316728|gb|DR795038.1|DR795038
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCA
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCA
EST: gi|18659149|gb|BM500180.1|BM500180
EST:     ACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATTCAGAACCAGGAAG                         AACCAACTTTATGCTCGAGTTCAATT
genomic: ACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATAT-CAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTT-ATGCTCGAGT-CAATT
EST: gi|50323594|gb|CO518720.1|CO518720
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAA
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAA
EST: gi|76292653|gb|DV032221.1|DV032221
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTTCG-AGCTCAAACGGAAGG
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTT-CGGAGCTCCAACGGAAGG
EST: gi|89757240|gb|DY686922.1|DY686922
EST:     GAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGGTCCAACGGAAGGTAAATTCG
genomic: GAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGGTAAATTCG
EST: gi|26559940|gb|CA832175.1|CA832175
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACAGAAGG
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
EST: gi|67016868|gb|CO445617.1|CO445617
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGCTCCA-CGGAA
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAA
EST: gi|148980413|gb|EE027124.2|EE027124
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGAAAG                         AACCTACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
EST: gi|78082314|gb|DV510726.1|DV510726
EST:     ACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCCAGGAAG                         ACCCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGGTAAATTC
genomic: ACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACC-AGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGGTAAATTC
EST: gi|71325989|gb|DR799677.1|DR799677
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGCTCC
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCC
EST: gi|149001052|gb|EE038303.2|EE038303
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
EST: gi|149083438|gb|EE172758.2|EE172758
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCANGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
EST: gi|74242354|gb|DT650268.1|DT650268
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAA
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAA
EST: gi|78088356|gb|DV516749.1|DV516749
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGCTCCTACGNAAGG
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
EST: gi|78081870|gb|DV510282.1|DV510282
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGTCAATTTCGGAGCTCCAACGGAAGG
EST: gi|89757241|gb|DY686923.1|DY686923
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGC
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGC
EST: gi|74244253|gb|DT652167.1|DT652167
EST:     AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAG                         AACCAACTTATGCTCGAGT
genomic: AACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgat ... gtatgcgcagAACCAACTTATGCTCGAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCACCTCATGGGAGAGGATCTTGAAACGTTGAATCTCAAAGAGCTTCAGCAACTAGAGCAGCAGCTGGAGAGTTCACTGAAACATATCAGAACCAGGAAGgtagtgtgatcatgtatattagactgcagtgcattccttatgtgttgcttactacaccactgacagccttgcgctctgcgcgttggagaaagctaacaagtaaatattcatcgtatgcgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA