Primers for PCR
This page leads to information on primers for genotyping all Roopenian Lab developed and/or maintained mouse strains, including congenics, transgenics, knockouts and spontaneous mutants.
SSLP markers for mouse:
SSLP information will be provided in Excel and pdf formats. Here is an explanation of the codes used for allelic information and SSLP band strength.
- Chromosome 1
- Chromosome 2
- Chromosome 3
- Chromosome 4
- Chromosome 5
- Chromosome 6
- Chromosome 7
- Chromosome 8
- Chromosome 9 [Excel] [pdf]
- Chromosome 9 only B6 vs BALB congenic typing [Excel] [pdf]
- Chromosome 10
- Chromosome 11
- Chromosome 12
- Chromosome 13
- Chromosome 14
- Chromosome 15
- Chromosome 16
- Chromosome 17
- Chromosome 18
- Chromosome 19
- X Chromosome
- Y Chromosome
- Markers polymorphic between B6 and B10 for the whole genome
Markers for typing transgenes
Markers for typing knockouts/targeted mutations
Markers which require an enzyme digestion to detect polymorphism
Other markers
Reaction Mixture & Thermocycling conditions
Primer Design
Almost all of our primers are designed to have a 60oC annealing temperature. The designing is usually done using Primer Express 2.0 software from Applied Biosystems Inc. Note that while oligos were designed to have a 59-60oC annealing temperature using Primer Express, those same primers typically have a 61-62oC annealing temperature if calculated using Primer3 software.
Primers listed on the links above were purchased and tested. A few of them fail to amplify or give weak signal, but most give usable results. A goal of these data links is to give you as much information as possible about the primers we use. However, information such as strength of the applification band, polymorphisms between strains, etc. may not be available in the first few versions of this website.
