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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aactgggcaaacctctataatgtcttgttcatttcatttgtgaactccatggttttctgactcagttctgttgataatatgacattttactgtgttgcagGAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAGGATCGAGCAAGTAGATGTGCAATCCCCTGATTCAACTCCTGTTATTCCA

Basic information

species Zea mays
transcript GRMZM2G006107_T02
intron # 7
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|211315858|gb|FL198272.1|FL198272
EST:     AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAG                         AAAGCACACAGTTTTTGGGCAAGCTTGTTGTTGGAAGTGATGTCCCTGA-G
genomic: AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAGgtttgttccg ... tgtgttgcagGAAGCACACAGTTTTTGG-CAAGCTTGTTGTTGGAAGTGATGTTC-TGAAG
EST: gi|94479119|gb|EB708077.1|EB708077
EST:     AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAG                         GAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAG
genomic: AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAGgtttgttccg ... tgtgttgcagGAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAG
EST: gi|211075041|gb|FL431329.1|FL431329
EST:     AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAG                         GAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAG
genomic: AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAGgtttgttccg ... tgtgttgcagGAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAG
EST: gi|211294918|gb|FL414861.1|FL414861
EST:     AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAG                         GAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAG
genomic: AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAGgtttgttccg ... tgtgttgcagGAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAG
EST: gi|211294917|gb|FL414860.1|FL414860
EST:     AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAG                         GAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAG
genomic: AGTGGCTCCCAGTTCTGCATTACTTTCAAGCCTAATTCTCATCTTGACAGgtttgttccg ... tgtgttgcagGAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccatggttttctgactcagttctgttgataatatgacattttactgtgttgcagGAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAGGATCGAGCAAGTAGATGTGCAATCCCCTGATTCAACTCCTGTTATTCCA
                                       ttttact  CT-rich tract
                            ataatatgacatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aactgggcaaacctctataatgtcttgttcatttcatttgtgaactccatggttttctgactcagttctgttgataatatgacattttactgtgttgcagGAAGCACACAGTTTTTGGCAAGCTTGTTGTTGGAAGTGATGTTCTGAAGAGGATCGAGCAAGTAGATGTGCAATCCCCTGATTCAACTCCTGTTATTCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG