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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgctgtcgatcgaggattttttttttctgattcactgataactggcatgactgaacattgtttatatctcgctgttcccaattggcttgggcagACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGCTGCTACACAACTTCTGTGTCTACCACATCAATCCCCAGGGACACGAG

Basic information

species Zea mays
transcript GRMZM5G813363_T03
intron # 2
splice site 3'
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|91872830|gb|EB402787.1|EB402787
EST:     AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACT                         ACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
genomic: AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACTgtaagtgctg ... gcttgggcagACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
EST: gi|101391594|gb|EB817733.1|EB817733
EST:     AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACT                         ACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
genomic: AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACTgtaagtgctg ... gcttgggcagACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
EST: gi|101387839|gb|EB815934.1|EB815934
EST:     AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACT                         ACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
genomic: AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACTgtaagtgctg ... gcttgggcagACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
EST: gi|71322272|gb|DR797821.1|DR797821
EST:     AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACT                         ACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
genomic: AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACTgtaagtgctg ... gcttgggcagACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
EST: gi|91047989|gb|EB158407.1|EB158407
EST:     AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACT                         ACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
genomic: AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACTgtaagtgctg ... gcttgggcagACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
EST: gi|88749046|gb|DY533187.1|DY533187
EST:     AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACT                         ACCTGTCCTGTTTCCAAGCTTTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC
genomic: AGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACTgtaagtgctg ... gcttgggcagACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactggcatgactgaacattgtttatatctcgctgttcccaattggcttgggcagACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGCTGCTACACAACTTCTGTGTCTACCACATCAATCCCCAGGGACACGAG
              aacattgtttatat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgctgtcgatcgaggattttttttttctgattcactgataactggcatgactgaacattgtttatatctcgctgttcccaattggcttgggcagACCTGTCCTGTTTCCAAGCATTTTTCTTCTGCCCGGAAGTGGCGTCTTTGCTGCTACACAACTTCTGTGTCTACCACATCAATCCCCAGGGACACGAG

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