Intragenic tandem repeats in Daphnia magna: structure, function and distribution.

ABSTRACT:

Background

Expressed sequence tag (EST) databases provide a valuable source of genetic data in organisms whose genome sequence information is not yet compiled. We used a published EST database for the waterflea Daphnia magna (Crustacea:Cladocera) to isolate variable number of tandem repeat (VNTR) markers for linkage mapping, Quantitative Trait Loci (QTL), and functional studies.

Findings

Seventy-four polymorphic markers were isolated and characterised. Analyses of repeat structure, putative gene function and polymorphism indicated that intragenic tandem repeats are not distributed randomly in the mRNA sequences; instead, dinucleotides are more frequent in non-coding regions, whereas trinucleotides (and longer motifs involving multiple-of-three nucleotide repeats) are prefere

SUBMITTER: Colson I 

PROVIDER: S-EPMC2763877 | biostudies-literature | 2009 Oct

REPOSITORIES: biostudies-literature