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| Content | |
| Description | functional repeats in mouse cDNAs. |
| Organisms | Mouse |
| Contact | |
| Research center | RIKEN |
| Laboratory | Biomedical Knowledge Discovery Team, Bioinformatics Group |
| Primary citation | PMID 14681460 |
| Access | |
| Website | http://facts.gsc.riken.go.jp/FREP/ |
FREP is a database of mouse repeat sequences derived from cDNAs [1]
In the fields of molecular biology and genetics, a genome is all genetic material of an organism. It consists of DNA. The genome includes both the genes and the noncoding DNA, as well as mitochondrial DNA and chloroplast DNA. The study of the genome is called genomics.
A microsatellite is a tract of repetitive DNA in which certain DNA motifs are repeated, typically 5–50 times. Microsatellites occur at thousands of locations within an organism's genome. They have a higher mutation rate than other areas of DNA leading to high genetic diversity. Microsatellites are often referred to as short tandem repeats (STRs) by forensic geneticists and in genetic genealogy, or as simple sequence repeats (SSRs) by plant geneticists. A microsatellite database can be accessed https://data.ccmb.res.in/msdb/
An inverted repeat is a single stranded sequence of nucleotides followed downstream by its reverse complement. The intervening sequence of nucleotides between the initial sequence and the reverse complement can be any length including zero. For example, 5'---TTACGnnnnnnCGTAA---3' is an inverted repeat sequence. When the intervening length is zero, the composite sequence is a palindromic sequence.
A gene knockout is a genetic technique in which one of an organism's genes is made inoperative. However, KO can also refer to the gene that is knocked out or the organism that carries the gene knockout. Knockout organisms or simply knockouts are used to study gene function, usually by investigating the effect of gene loss. Researchers draw inferences from the difference between the knockout organism and normal individuals.
Genome projects are scientific endeavours that ultimately aim to determine the complete genome sequence of an organism and to annotate protein-coding genes and other important genome-encoded features. The genome sequence of an organism includes the collective DNA sequences of each chromosome in the organism. For a bacterium containing a single chromosome, a genome project will aim to map the sequence of that chromosome. For the human species, whose genome includes 22 pairs of autosomes and 2 sex chromosomes, a complete genome sequence will involve 46 separate chromosome sequences.
In bioinformatics, BLAST is an algorithm and program for comparing primary biological sequence information, such as the amino-acid sequences of proteins or the nucleotides of DNA and/or RNA sequences. A BLAST search enables a researcher to compare a subject protein or nucleotide sequence with a library or database of sequences, and identify database sequences that resemble the query sequence above a certain threshold. For example, following the discovery of a previously unknown gene in the mouse, a scientist will typically perform a BLAST search of the human genome to see if humans carry a similar gene; BLAST will identify sequences in the human genome that resemble the mouse gene based on similarity of sequence.
Repeated sequences are patterns of nucleic acids that occur in multiple copies throughout the genome. Repetitive DNA was first detected because of its rapid re-association kinetics. In many organisms, a significant fraction of the genomic DNA is highly repetitive, with over two-thirds of the sequence consisting of repetitive elements in humans.
A variable number tandem repeat is a location in a genome where a short nucleotide sequence is organized as a tandem repeat. These can be found on many chromosomes, and often show variations in length among individuals. Each variant acts as an inherited allele, allowing them to be used for personal or parental identification. Their analysis is useful in genetics and biology research, forensics, and DNA fingerprinting.
This is a list of topics in molecular biology. See also index of biochemistry articles.
Brain-specific angiogenesis inhibitor 3 is a protein that in humans is encoded by the BAI3 gene.
Relaxin/insulin-like family peptide receptor 3, also known as RXFP3, is a human G-protein coupled receptor.
TRIO and F-actin-binding protein is a protein that in humans is encoded by the TRIOBP gene.
Forkhead box protein K2 is a protein that in humans is encoded by the FOXK2 gene.
PH domain and leucine rich repeat protein phosphatase-like, also known as PHLPPL, is an enzyme which in humans is encoded by the PHLPPL gene.
Leucine-rich repeat neuronal protein 1 is a protein that in humans is encoded by the LRRN1 gene.
Vesicular inhibitory amino acid transporter is a protein that in humans is encoded by the SLC32A1 gene.
WD repeat-containing protein 37 is a protein that in humans is encoded by the WDR37 gene.
Leucine-rich repeat and calponin homology domain-containing protein 4 is a protein that in humans is encoded by the LRCH4 gene.
Tetratricopeptide repeat protein 25 is a protein that in humans is encoded by the TTC25 gene.
DNA annotation or genome annotation is the process of identifying the locations of genes and all of the coding regions in a genome and determining what those genes do. An annotation is a note added by way of explanation or commentary. Once a genome is sequenced, it needs to be annotated to make sense of it. Genes in eukaryotic genome can be annotated using FINDER.
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