TY - JOUR
T1 - On biased distribution of introns in various eukaryotes
AU - Sakurai, A.
AU - Fujimori, S.
AU - Kochiwa, H.
AU - Kitamura-Abe, S.
AU - Washio, T.
AU - Saito, R.
AU - Carninci, P.
AU - Hayashizaki, Y.
AU - Tomita, M.
N1 - Funding Information:
We are grateful to Yoshihito Niimura for useful discussion. This study was supported by a research grant for the RIKEN Genome Exploration Research Project from the Science and Technology Agency of the Japanese Government, CREST (Core Research for Evolutional Science and Technology) and ACT-JST (Research and Development for Applying Advanced Computational Science and Technology) of the Japan Science and Technology Corporation (JST) to Y.H. This work was also supported in part by a grant from the Ministry of Agriculture, Forestry and Fisheries of Japan (Rice Genome Project SY-1104).
PY - 2002/10/30
Y1 - 2002/10/30
N2 - We conducted comprehensive analyses on intron positions in the Mus musculus genome by comparing genomic sequences in the GenBank database and cDNA sequences in the mouse cDNA library recently developed by Riken Genomic Sciences Center. Our results confirm that introns have a tendency to be located toward the 5′ end of the gene. The same type of analysis was conducted in the coding region of seven eukaryotes (Saccharomyces cerevisiae, Plasmodium falciparum, Caenorhabditis elegans, Drosophila melanogaster, M. musculus, Homo sapiens, Arabidopsis thaliana). Introns in genes with a single intron have a locational bias toward the 5′ end in all species except A. thaliana. We also measured the distance from the start codon to the position of the intron, and found that single introns prefer the location immediately after the start codon in S. cerevisiae and P. falciparum. We discuss three possible explanations for these findings: (1) they are the consequence of intron loss by reverse-transcriptase; (2) they are necessary to accommodate the function; and (3) they are concerned with the mechanism of pre-mRNA splicing.
AB - We conducted comprehensive analyses on intron positions in the Mus musculus genome by comparing genomic sequences in the GenBank database and cDNA sequences in the mouse cDNA library recently developed by Riken Genomic Sciences Center. Our results confirm that introns have a tendency to be located toward the 5′ end of the gene. The same type of analysis was conducted in the coding region of seven eukaryotes (Saccharomyces cerevisiae, Plasmodium falciparum, Caenorhabditis elegans, Drosophila melanogaster, M. musculus, Homo sapiens, Arabidopsis thaliana). Introns in genes with a single intron have a locational bias toward the 5′ end in all species except A. thaliana. We also measured the distance from the start codon to the position of the intron, and found that single introns prefer the location immediately after the start codon in S. cerevisiae and P. falciparum. We discuss three possible explanations for these findings: (1) they are the consequence of intron loss by reverse-transcriptase; (2) they are necessary to accommodate the function; and (3) they are concerned with the mechanism of pre-mRNA splicing.
KW - Intron loss
KW - Position of intron
KW - Regulatory sequences
KW - Single intron
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U2 - 10.1016/S0378-1119(02)01035-1
DO - 10.1016/S0378-1119(02)01035-1
M3 - Article
C2 - 12468090
AN - SCOPUS:0037202361
SN - 0378-1119
VL - 300
SP - 89
EP - 95
JO - Gene
JF - Gene
IS - 1-2
ER -