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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGAGGGACACCCCGGGAGGCGGGTAGGCCGGGATGGGGGCTCTGGGTACGCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatttgggctttagggtttgtatttgttctgaatttcaaggatatagtttagcaagagagctaatactttttcttttgcag

Basic information

species Zea mays
transcript GRMZM2G139643_T04
intron # 2
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|101402086|gb|EB822652.1|EB822652
EST:     GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGG                         AAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
genomic: GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatt ... tcttttgcagAAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
EST: gi|50336822|gb|CO531948.1|CO531948
EST:     GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGG                         AAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
genomic: GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatt ... tcttttgcagAAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
EST: gi|76014054|gb|DT941224.1|DT941224
EST:     GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGG                         AAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
genomic: GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatt ... tcttttgcagAAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
EST: gi|71417068|gb|DR803915.1|DR803915
EST:     GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGG                         AAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
genomic: GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatt ... tcttttgcagAAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
EST: gi|211508855|gb|FL158319.1|FL158319
EST:     GCTGATGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGG                         AAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACAACTGAAG
genomic: GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatt ... tcttttgcagAAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
EST: gi|76282448|gb|DV022016.1|DV022016
EST:     GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGG                         AAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
genomic: GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatt ... tcttttgcagAAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
EST: gi|71768840|gb|DR966777.1|DR966777
EST:     GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGG                         AAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
genomic: GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatt ... tcttttgcagAAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
EST: gi|71446122|gb|DR827172.1|DR827172
EST:     GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGG                         AAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG
genomic: GCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatt ... tcttttgcagAAAGATTTTTGTCGGAGGCGTTGCTTGGGAGACTACTGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGAGGGACACCCCGGGAGGCGGGTAGGCCGGGATGGGGGCTCTGGGTACGCTGTTGCTGTCGGAGAGGATGGGAGGGGGGCGGGTGGCGACTCGTTGGGgtgagcgatttgggctttagggtttgtatttgttctgaatttcaaggatatagtttagcaagagagctaatactttttcttttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG