Objective comparison of exon and intron sequences by means of 2-dimensional data analysis methods.
Here we advocate the use of 2-dimensional data representation in the context of the informational approach of sequence analysis (Claverie & Bougueleret (1986) Nucleic Acids Research 14, 179-196) by applying these methods to the problem of intron/exon discrimination. Two main findings are reported: i) oligonucleotide patterns complementary to the Ul small nuclear RNA are specifically avoided in exon sequences, ii) vertebrate intron sequences, to the exclusion of other eukaryotic phyla, are characterized by a peculiar distribution of CpG containing patterns.
Bougueleret
L
L
Computer Science Unit, Institut Pasteur, Paris, France.
Tekaia
F
F
Sauvaget
I
I
Claverie
J M
JM
D000465:Algorithms; D000818:Animals; D001483:Base Sequence; D003201:Computers; D003568:Cytidine Monophosphate / Q000031:analogs & derivatives / Q000235:genetics; D003627:Data Interpretation, Statistical; D015226:Dinucleoside Phosphates; D005057:Eukaryotic Cells; D005091:Exons; D006151:Guanosine / Q000031:analogs & derivatives / Q000235:genetics; D007256:Information Systems; D007438:Introns; D008838:Microcomputers; D009841:Oligonucleotides / Q000235:genetics; D012326:RNA Splicing
D003568:Cytidine Monophosphate; D015226:Dinucleoside Phosphates; D006151:Guanosine; D009841:Oligonucleotides; C015772:CpG dinucleotide