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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGGAGGAAGATACAGCGCATTTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgagtggaaatttttgtgcttcataccagactgacagtgaatcttaccgaagcaatatacaccaatcaactagtttattatgatgaaattattt...

Basic information

species Zea mays
transcript GRMZM2G114758_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G114758_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g09920.1 (Oryza sativa), 5'ss of exon 8
TGGGGAGGAAGATACAGCGCATTTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgagtggaaatttttgtgcttcatac-cagactgacagtgaatcttaccgaagcaatatacaccaatcaactagtttattatgatgaaattattt
|||||||||||| ||||||||| || ||||||||||||| || ||||||||| | ||||||||  | ||||||| |||| || | ||  |||| |   |||| |  |||||| ||||| || ||    |  || |||      || | | ||    |    ||  |  |||  
TGGGGAGGAAGAGACAGCGCATCTGTTGCTTGGGAAATTCAAGTGGGGTCACTCGTTCTTGTCAGTTAACAGgttagttcagagaaatattttat-tgtcatgcatagactggcagtgcattttggacacacagtatctgtttatgatcaagggagtgcatattcatatataa
















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|12972397|gb|BG267961.1|BG267961
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|110193278|gb|EC875176.1|EC875176
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|78544567|gb|DV622065.1|DV622065
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAATGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|86468292|gb|DY234662.1|DY234662
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|211377879|gb|FL093310.1|FL093310
EST:     TAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|113664113|gb|DW825770.1|DW825770
EST:     CATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: CATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|83279425|gb|DV943433.1|DV943433
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|94473540|gb|EB702498.1|EB702498
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATTTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|71304851|gb|DR788540.1|DR788540
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|88750787|gb|DY534928.1|DY534928
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|60345140|gb|DN212113.1|DN212113
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|78074927|gb|DV503361.1|DV503361
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTTTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|78118561|gb|DV536945.1|DV536945
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|89251519|gb|DY623305.1|DY623305
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTTTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA
EST: gi|213167931|gb|FM194811.1|FM194811
EST:     TTGCTGCTTGGGAAATTTAAANNNNGTCACGCATTCTTGTCTCTAA-CAN                         NNNTCTCCTGAAAGCATACTCCCA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCA
EST: gi|211480276|gb|FL093313.1|FL093313
EST:     TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAG                         AGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATCATCAA
genomic: TTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgag ... caatatgcagAGATCTCCTGAAAGCATACTCCCAGTGTGAAAATGGAGCTGAGATTATCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGGAGGAAGATACAGCGCATTTGCTGCTTGGGAAATTTAAATGGGGTCACGCATTCTTGTCTCTAAACAGgtcagttgagtggaaatttttgtgcttcataccagactgacagtgaatcttaccgaagcaatatacaccaatcaactagtttattatgatgaaattattt

- - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - GCTGCT