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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTTCTGGAGTAATTTTGGCTCAGGCAGTTTGTGATGGGTCAACTGAGATTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatcgatgatgacactggtttcagatttgtttcttatttagtttgatactttgagaactaaaatctgttggcgtcagccctcatgcacatcaga...

Basic information

species Zea mays
transcript GRMZM2G155314_T02
intron # 6
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|94476824|gb|EB705782.1|EB705782
EST:     TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAG                         GATGGGGAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCT
genomic: TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatc ... tacaatgcagGATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCT
EST: gi|74245146|gb|DT653060.1|DT653060
EST:     TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAG                         GATGGGAAAATCCCGATCATGTACCCAGCATTTAA
genomic: TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatc ... tacaatgcagGATGGGAAAATCCCGATCATGTACCCAGCATTTAA
EST: gi|71772874|gb|DR970797.1|DR970797
EST:     TGTNCA-GTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAG                         GATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT
genomic: TGT-CAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatc ... tacaatgcagGATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT
EST: gi|78118021|gb|DV536408.1|DV536408
EST:     TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAG                         GATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT
genomic: TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatc ... tacaatgcagGATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT
EST: gi|91048309|gb|EB158727.1|EB158727
EST:     TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAG                         GATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGC
genomic: TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatc ... tacaatgcagGATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGC
EST: gi|76012307|gb|DT939477.1|DT939477
EST:     TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAG                         GATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT
genomic: TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatc ... tacaatgcagGATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT
EST: gi|78107760|gb|DV526178.1|DV526178
EST:     TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAG                         GATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT
genomic: TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatc ... tacaatgcagGATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT
EST: gi|74242116|gb|DT650030.1|DT650030
EST:     TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAG                         GATGGGAAAATCCCGATCATGTACCCAGCATTTTAATGGGCATCGGGAGCT
genomic: TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatc ... tacaatgcagGATGGGAAAATCCCGATCATGTACCCAGCATTT-AATGGGCATCGGGAGCT
EST: gi|67031456|gb|CO460205.1|CO460205
EST:     TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAG                         GATGGGGAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT
genomic: TTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatc ... tacaatgcagGATGGGAAAATCCCGATCATGTACCCAGCATTTAATGGGCATCGGGAGCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCTTCTGGAGTAATTTTGGCTCAGGCAGTTTGTGATGGGTCAACTGAGATTGTCAAGTTTTTGCTAGAGGTTGGAGCTGATCCTAACATTCCTGATGAGgtgatgaatcgatgatgacactggtttcagatttgtttcttatttagtttgatactttgagaactaaaatctgttggcgtcagccctcatgcacatcaga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT