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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgcaatttgttgctgttgcacttatgtagatcataagccctattgatttatccattttctgtggtttcaag

Basic information

species Zea mays
transcript GRMZM2G025854_T03
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025854_T05 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os10g11140.2 (Oryza sativa), 5'ss of exon 3
GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgcaatttg-ttgctgttgcacttatgtag-------------------atcata------------agccctattgatttatccattttctgtggtttcaag
|||||||| |||||||||||||| ||||| |||||||||||||||||||||  || |||  ||| |||||||| |   |||                   || | |            |||   ||| ||||||||  |||||||||||| |||
GTGAAAGTGTTCCAGCAGGAGAATTACCTCGCTAATTGGATTCAGgtgtgccacattttacttgatgttgcacgtcaatagccttttctgttttaatgtgatgacacctctaagatggagctacattcatttatcc--tttctgtggtttgaag
















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|211456111|gb|FL153032.1|FL153032
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCNTANT-GGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAAGAT-ATGTGGGTGCAACCCTTGT
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGC-TAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAA-GATTATGTGGGTGCAACCCTTGT
EST: gi|211456112|gb|FL153033.1|FL153033
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211022165|gb|FL153038.1|FL153038
EST:     GTGAAAGTGTTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211456113|gb|FL153034.1|FL153034
EST:     GTGAAAGTGTTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211022172|gb|FL153045.1|FL153045
EST:     GTGAGAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211024619|gb|FL153052.1|FL153052
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211022174|gb|FL153047.1|FL153047
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211456114|gb|FL153035.1|FL153035
EST:     GTGAAAGTGTTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211022173|gb|FL153046.1|FL153046
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211456115|gb|FL153036.1|FL153036
EST:     GTGAAAGTGTTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGNA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|89759099|gb|DY688027.1|DY688027
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTTGCCCCCTGAAGATTATGTGGGTGCCACCCT
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTT-GCCCCCTGAAGATTATGTGGGTGCAACCCT
EST: gi|50333167|gb|CO528293.1|CO528293
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|74238594|gb|DT646508.1|DT646508
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211022178|gb|FL153051.1|FL153051
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211022177|gb|FL153050.1|FL153050
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211022175|gb|FL153048.1|FL153048
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
EST: gi|211022168|gb|FL153041.1|FL153041
EST:     GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAG                         GCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA
genomic: GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgca ... tggtttcaagGCTCTATTCAATTCCTTGCCCCCTGAAGATTATGTGGGTGCAACCCTTGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAAAGTATTCCAGCAGGAGAACTACCTTGCTAATTGGATTCAGgtgtgctgcaatttgttgctgttgcacttatgtagatcataagccctattgatttatccattttctgtggtttcaag

- - - - - - - - AGGAGA
- - - - - - - -  GGAGAA