• sequences
  • The most prevalent repeated sequences in the embedded microsatellite regions were CCT:AGG, CTT:AAG, CTTT:AAAG, and CCCT:AGGG. (wikipedia.org)
  • These strand biased pyrimidine:purine repeating sequences were shown to adopt triple-stranded structures under superhelical stress or at slightly acidic pH. (wikipedia.org)
  • The palindromic sequence CGCACGTGCG:CGCACGTGCG, flanked by extended palindromic Z-DNA sequences over a 35 bp domain, adopted a Z-DNA structure with a symmetrical arrangement in equilibrium with a stem-loop structure centered on the palindrome containing the CGCAC:GTGCG motif. (wikipedia.org)
  • Variations among cloned RU sequences were characterized by the number of microsatellite repeats, and also by the lengths of C and G stretches where triple stranded structures formed. (wikipedia.org)
  • In contrast to longer tandem repeats, our definition of STRs found them to be present in exons of most known human genes (92%), 99% of all STR sequences in exons are shorter than 33 base pairs and 62% of all STR sequences are imperfect repeats. (biomedcentral.com)
  • Overall, 30% of the human genome consists of repetitive DNA sequences [ 5. McMurray CT. Mechanisms of trinucleotide repeat instability during human development. Nat Rev Genet. 2010; 11: 786-799. [ CrossRef ] ">5 ]. (lidsen.com)
  • The presence of trinucleotide repeats (microsatellites), also known as tandem repeat sequences, that are responsible for the development of diseases was identified as a novel type of mutation in the early 1990s [ 6. Krzyzosiak WJ, Sobczak K, Wojciechowska M, Fiszer A, Mykowska A, Kozlowski P. Triplet repeat RNA structure and its role as pathogenic agent and therapeutic target. Nucleic Acids Res. 2012; 40: 11-26. [ CrossRef ] ">6 ]. (lidsen.com)
  • A phylogenetic tree was built based on the sequences of 76 protein-coding genes that are shared by the eleven sequenced representatives of Caryophyllaceae and C. apetalus, and it revealed that C. apetalus and C. quitensis form a clade that is closely related to Silene species and Agrostemma githago . (peerj.com)
  • Calibrating PCR fragment lengths in individual genotypes by using the RefSeq sequence enabled us to infer repeat number in the HGDP-CEPH dataset and to calculate the mean number of repeats (as opposed to the mean PCR fragment length), under the assumption that differences in PCR fragment length reflect differences in the numbers of repeats in the embedded repeat sequences. (biomedcentral.com)
  • These sequences could be genes specific to Annona sp. (biomedcentral.com)
  • SSRs
  • Simple sequence repeats (SSRs) are widely used as molecular markers in maize genetics and breeding, but only two thousands pairs of SSRs have been published currently, which hardly satisfies for the increasing needs of geneticists and breeders. (biomedcentral.com)
  • genome-wide
  • Genome-wide analysis using gene family specific Hidden Markov Model of conserved domains identified 520 genes distributed among 20 gene families related to biosynthesis/modification of various cell wall polymers such as cellulose, hemicellulose, pectin, and lignin. (frontiersin.org)
  • repetitive
  • A fragment containing the domain was excised and subcloned in order to examine structural properties of the alternating purine and pyrimidine motif independently of the four compositionally-biased repetitive divergent domains within RU. (wikipedia.org)
  • A microsatellite is a tract of repetitive DNA in which certain DNA motifs (ranging in length from 1-6 or more base pairs) are repeated, typically 5-50 times. (wikipedia.org)
  • genetic
  • Overall, our study provides a comprehensive information on cell wall related genes families in sorghum which offers a valuable resource to develop strategies for altering biomass composition by plant breeding and genetic engineering approaches. (frontiersin.org)
  • They are also used in genetic linkage analysis to locate a gene or a mutation responsible for a given trait or disease. (wikipedia.org)
  • It is this high mutation rate that has been a key factor in determining the informativeness of microsatellites in genetic studies. (biomedcentral.com)
  • deletions
  • We have found that the gain of novel LCRs is frequently associated with repeat expansion whereas the loss of LCRs is more often due to accumulation of amino acid substitutions as opposed to deletions. (biomedsearch.com)
  • A bias toward deletions at homopolymers and insertions at (AT) n microsatellites suggests a different mechanism for mismatch generation at these sites. (g3journal.org)
  • The telomeric repeat insertion occurred either without modification of the sequence at the break site or with processing of the ends produced by the break involving deletions, insertions or target site duplications [ 17 ] (Additional data file 1). (biomedcentral.com)
  • base pairs
  • Some types of satellite DNA in humans are: A repeated pattern can be between 1 base pair long (a mononucleotide repeat) to several thousand base pairs long[citation needed], and the total size of a satellite DNA block can be several megabases without interruption. (wikipedia.org)
  • Four divergent domains consisted of microsatellite repeats biased in composition with purines on one strand and pyrimidines on the other, including mononucleotide repeats of C:G base pairs approximately 20 bp in length. (wikipedia.org)
  • Between the strand-biased microsatellite repeats and G:C mononucleotide repeats, all sequence variations retained one or two base pairs with A (purine) interrupting the pyrimidine-rich strand and T (pyrimidine) interrupting the purine-rich strand. (wikipedia.org)
  • AT in ATATATATAT) is repeated at least three times, (3) there are only few base pairs that do not match the periodic motif (see Methods). (biomedcentral.com)
  • synthesis
  • These data indicate that repair‐ associated DNA synthesis is inhibited by secondary structures formed by CAG 98 and that these structures promote repeat expansions during DSB repair. (embopress.org)
  • The Mre11 complex thus appears to be directly involved in removing CAG or CTG hairpins that arise frequently during DNA synthesis accompanying gene conversion of these trinucleotide repeats. (embopress.org)
  • Telomerase utilizes a portion of its RNA component as a template for the synthesis of telomeric repeats. (biomedcentral.com)
  • analysis
  • Chromosomal localization analysis of these genes revealed that about 65% of cell wall related genes were confined to four chromosomes (Chr. (frontiersin.org)
  • To gain further insight into potential functional roles, expression analysis of these gene families was performed using publically available data sets in various tissues and under abiotic stress conditions. (frontiersin.org)
  • These could be potential candidates for transcript based microsatellite analysis in A. squamosa . (biomedcentral.com)
  • Maize
  • In maize, centromeric satellite repeat (CentC) and centromeric retrotransposons (CR), a class of Ty3/gypsy retrotransposons, are enriched at centromeres. (biomedcentral.com)
  • Maize centromeres are enriched in the tandem centromeric satellite repeat CentC and centromeric retrotransposons (CR). (biomedcentral.com)
  • long
  • Although these tandem repeats clearly originated in at least two separate events, they are derived from similar regions of their respective parent element, namely the long terminal repeat (LTR) and untranslated region (UTR). (biomedcentral.com)
  • size
  • A PCR fragment length represents the size of the region between the distal ends of a DNA primer pair, with changes in the number of repeats of the microsatellite embedded between the primer pair leading to corresponding changes in PCR fragment length. (biomedcentral.com)
  • length
  • However, variation in the length of the repeat is common. (wikipedia.org)
  • The difference in how many of the repeats is present in the region (length of the region) is the basis for DNA fingerprinting. (wikipedia.org)
  • The complete cp genome of C. apetalus has the length of 151,228 bp, 36.65% GC content, and a quadripartite structure with a large single copy (LSC) of 83,380 bp and a small single copy (SSC) of 17,206 bp separated by inverted repeats (IRs) of 25,321 bp. (peerj.com)