Problem:

You want a list of the genes located within a specific region of the rat genome.

Solution:

The first step is to select the RGD Genes database from the martveiw page.
(Click Here to open Martview in a new window.)

On the filters page we select Map Location by setting the start and stop positions (base pair location), as well as the chromosome they are located. Ensure that the check box is checked for each filter used.

For our example we select the second choice Map Locations in Genome Map 3.4 and enter "165062348" in the Start box and "165075812" in the Stop box; we then select Chromosome 5.

We go to the attribute page by clicking the attribute button on the sdie bar and select RGD ID, Symbol, Name, and UniProt Accession. We then click the Results button.

We receive three rows because one of the two RGD IDS has two UniProt Accessions.

Discussion

The problem here solves a common problem with Quantitative Trait Loci (QTL) analysis, the question of "what genes are in my region?".

There is an option whether to search by association with a region or search within a region. The first search Map Location option will return all gene records that have any part in the region. The second Map Location will only return genes that are completely contained within the region specified. Which Map Location to use is up to you, but they should not be used together. When searching by a region a chromosome location should also be set. Otherwise you will receive genes from the specified region located on ALL chromosomes.