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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acggccacggaaccctcgcgcatgcatgctgcctgctgacgcttaccttcgtttcgttttcatggctgctgctgcttattgctgcgagtgcgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGCGCCATGGGAGGGGGAGTCCACCACCACCACCCGTGCGTGGCTGCTGATG

Basic information

species Zea mays
transcript GRMZM2G139372_T05
intron # 1
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|149096501|gb|EE182246.2|EE182246
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
EST: gi|148933963|gb|EC877954.2|EC877954
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
EST: gi|149099194|gb|EE185222.2|EE185222
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
EST: gi|149084417|gb|EE173872.2|EE173872
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
EST: gi|149090656|gb|EE179979.2|EE179979
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
EST: gi|148933084|gb|EE286018.2|EE286018
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
EST: gi|149103852|gb|EE289263.2|EE289263
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
EST: gi|149076704|gb|EE165348.2|EE165348
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
EST: gi|149073865|gb|EE162188.2|EE162188
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
EST: gi|149071950|gb|EE160336.2|EE160336
EST:     CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATNNNNNNNG                         GCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC
genomic: CGCTTTCAGAATTCAGACAGAGGTCGGTCGCCAGGAACCCATAAAAAAAGgtagctttat ... cgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttcgtttcgttttcatggctgctgctgcttattgctgcgagtgcgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGCGCCATGGGAGGGGGAGTCCACCACCACCACCCGTGCGTGGCTGCTGATG
           ttttcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acggccacggaaccctcgcgcatgcatgctgcctgctgacgcttaccttcgtttcgttttcatggctgctgctgcttattgctgcgagtgcgatgtgcagGCGGCAGCGGGCACAGTCCTCCAGTCCTCGGGTGAGGCGATCGTCGCCGGCGCCATGGGAGGGGGAGTCCACCACCACCACCCGTGCGTGGCTGCTGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT