GC Clamp Check
Check the GC clamp of a primer by counting guanine and cytosine bases among the last five nucleotides.
Description
Check the GC clamp of a primer by counting guanine and cytosine bases among the last five nucleotides.
GC Clamp Check is a focused biology tool that check the GC clamp of a primer by counting guanine and cytosine bases among the last five nucleotides. It calculates locally from the values you enter and exposes the result without changing the source observations.1
When to use GC Clamp Check
Use GC Clamp Check when you need to check the GC clamp of a primer by counting guanine and cytosine bases among the last five nucleotides. Enter Sequence using the definitions and units below so the result can be reproduced.
- Sequence
- A sequence, category, or text value.
How GC Clamp Check calculates the result
The published tool contract uses this rule: Check the GC clamp of a primer by counting guanine and cytosine bases among the last five nucleotides.
- GC clamp ok
- Whether gc clamp ok is true.
- Terminal GC count
- The calculated terminal gc count.
Limitations of GC Clamp Check
The calculation does not propagate measurement uncertainty, sampling error, or biological and chemical variability.
Alternative or Complementary measurements
Retain the original Sequence values and their units alongside the result. 3' GC Clamp Count is useful when you instead need to count guanine and cytosine bases among the last three nucleotides of a primer sequence. Primer GC Percent provides another view by helping you calculate the GC percentage of a primer sequence for clamp design checks.
References
-
Primer (molecular biology) — Wikipedia contributors
Similar or alternative tools
- 3' GC Clamp Count
Count guanine and cytosine bases among the last three nucleotides of a primer sequence.
- Primer GC Percent
Calculate the GC percentage of a primer sequence for clamp design checks.
- Self-Dimer Tm Risk
Screen a primer for self-dimer risk by aligning it with its reverse complement, finding the longest contiguous complementary run, and flagging runs of at least five bases.