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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGAGGCTTGGCCATGCCTTTAAATATAGATATTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttcaaattctctccatgcgtgcacatattaactttagatgaatgataacatctctgtgttcctgattggtag

Basic information

species Zea mays
transcript GRMZM2G017584_T02
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|211059012|gb|FL008172.1|FL008172
EST:     TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAG                         GAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
genomic: TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttc ... tgattggtagGAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
EST: gi|211059010|gb|FL008170.1|FL008170
EST:     TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAG                         GAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCA
genomic: TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttc ... tgattggtagGAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCA
EST: gi|149088813|gb|EE177940.2|EE177940
EST:     TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAG                         GAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
genomic: TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttc ... tgattggtagGAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
EST: gi|93014337|gb|EB639857.1|EB639857
EST:     TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAG                         GAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
genomic: TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttc ... tgattggtagGAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
EST: gi|30087147|gb|CB885355.1|CB885355
EST:     TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAG                         GAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
genomic: TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttc ... tgattggtagGAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
EST: gi|211059013|gb|FL008173.1|FL008173
EST:     TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAG                         GAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
genomic: TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttc ... tgattggtagGAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
EST: gi|211059011|gb|FL008171.1|FL008171
EST:     TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAG                         GAGAACTGTACATCACTCTTTGAATTCAAACGAGTATGGATGGGCAAGAAA
genomic: TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttc ... tgattggtagGAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
EST: gi|50333060|gb|CO528186.1|CO528186
EST:     TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAG                         GAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
genomic: TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttc ... tgattggtagGAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
EST: gi|31910413|gb|CD651411.1|CD651411
EST:     TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAG                         GAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA
genomic: TTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttc ... tgattggtagGAGAACTGTACATCACTCTTCGAATTCAAACGAGTATGGATGGGCAAGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTGAGGCTTGGCCATGCCTTTAAATATAGATATTGATCTGTTCAAGCTGGATATTGATGAGCTGATAGCTGATTATTCCAAGgtagtttttcaaattctctccatgcgtgcacatattaactttagatgaatgataacatctctgtgttcctgattggtag

- - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT