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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCATGGAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAGgtaaacctgagattttaggtttgagttacatattgaaaaaacatatgcatatatgcatgttttttttaatgagtttcttttggatattatcaactccgtt...

Basic information

species Zea mays
transcript GRMZM2G047310_T02
intron # 20
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|71439549|gb|DR820599.1|DR820599
EST:     AAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTTGGATTGCGTTCTGAG                         GGTGCACCTAGGAGCTCT
genomic: AAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTT-GGATTGCGTTCTGAGgtaaacctga ... ccttttgtagGGTGCACCTAGGAGCTCT
EST: gi|101399213|gb|EB821480.1|EB821480
EST:     GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAG                         GGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA
genomic: GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAGgtaaacctga ... ccttttgtagGGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA
EST: gi|13557985|gb|BG549341.1|BG549341
EST:     GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAG                         GGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA
genomic: GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAGgtaaacctga ... ccttttgtagGGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA
EST: gi|211011729|gb|FL062982.1|FL062982
EST:     GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAG                         GGTGCACCTAGGAGCTCTGGTAATGGTGGGCTAACTCAGAGGGCATCTGCA
genomic: GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAGgtaaacctga ... ccttttgtagGGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA
EST: gi|5816386|gb|AI987302.1|AI987302
EST:     GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAG                         GGTGCACCTAGGAGCTCTGGTAATGGNGGGCCAACTCAGAGGGCATCTGCA
genomic: GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAGgtaaacctga ... ccttttgtagGGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA
EST: gi|93281335|gb|EB673599.1|EB673599
EST:     GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAG                         GGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA
genomic: GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAGgtaaacctga ... ccttttgtagGGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA
EST: gi|149103859|gb|EE289270.2|EE289270
EST:     GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAG                         GGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA
genomic: GAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAGgtaaacctga ... ccttttgtagGGTGCACCTAGGAGCTCTGGTAATGGTGGGCCAACTCAGAGGGCATCTGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCATGGAAATTCCTTCCAGAAGAAACTCTCGCTGCTTTTTGGATTGCGTTCTGAGgtaaacctgagattttaggtttgagttacatattgaaaaaacatatgcatatatgcatgttttttttaatgagtttcttttggatattatcaactccgtt

- - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaca