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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taccctaaatactttcttctctgtaaatttattttcgtaactagggcacttagatattaaaatagtttcttgcaatatcatgtgcttcattccaattcagAGAGAAGAATAAAACTCAGAAGGCATCAAACCAACGCTCTGCCAAAAACGATATTGACGAAGAATCAAATGAAAGTGTGAAACCTCAAAGGGTGGGCAGC

Basic information

species Zea mays
transcript GRMZM2G137479_T02
intron # 5
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|89250820|gb|DY622606.1|DY622606
EST:     AGCAGTTTCCGCCCAATTGCCAAGGAGAGCCTGTCACTTGAGGACTCAAA                         AGAGAAGAATAAAACTCCAGAAGGCATTCAA-CCAACGCTCTGCCAAAAAC
genomic: AGCAGTTTCCGCCCAATTGCCAAGGAGAGCCTGTCACTTGAGGACTCAAAgtaagctttt ... tccaattcagAGAGAAGAATAAAACTC-AGAAGGCAT-CAAACCAACGCTCTGCCAAAAAC
EST: gi|9952957|gb|BE639540.1|BE639540
EST:     AGCAGTTTCCGCCCAATTGCCAAGGAGAGCCTGTCACTTGAGGACTCAAA                         AGAGAAGAATAAAACTCAGAAGGCATCAAACCAACGTTCTGCCAAAAACGA
genomic: AGCAGTTTCCGCCCAATTGCCAAGGAGAGCCTGTCACTTGAGGACTCAAAgtaagctttt ... tccaattcagAGAGAAGAATAAAACTCAGAAGGCATCAAACCAACGCTCTGCCAAAAACGA
EST: gi|211510021|gb|FL440680.1|FL440680
EST:     AGCAGTTTCCGCCCAATTGCCAAGGAGAGCCTGTCACTTGAGGACTCAAA                         AGAGAAGAATAAAACTCAGAAGGCATCAAACCAACGTTCTGCCAAAAACGA
genomic: AGCAGTTTCCGCCCAATTGCCAAGGAGAGCCTGTCACTTGAGGACTCAAAgtaagctttt ... tccaattcagAGAGAAGAATAAAACTCAGAAGGCATCAAACCAACGCTCTGCCAAAAACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcacttagatattaaaatagtttcttgcaatatcatgtgcttcattccaattcagAGAGAAGAATAAAACTCAGAAGGCATCAAACCAACGCTCTGCCAAAAACGATATTGACGAAGAATCAAATGAAAGTGTGAAACCTCAAAGGGTGGGCAGC
                                       cttcattcc  CT-rich tract
     tagatattaaaatagt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taccctaaatactttcttctctgtaaatttattttcgtaactagggcacttagatattaaaatagtttcttgcaatatcatgtgcttcattccaattcagAGAGAAGAATAAAACTCAGAAGGCATCAAACCAACGCTCTGCCAAAAACGATATTGACGAAGAATCAAATGAAAGTGTGAAACCTCAAAGGGTGGGCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA