I have problems to find the right place of codons?

30 November 2022 1 3K Report

Hi everyone,

I have a question in the case of, codons and regions in the whole DNA.

I wanted to design a pair of primers that include 167, 198 and 200 codons.

But I couldn't find them in the whole genes. I started from ATG(start codon) and continue to count and reach 167. but something is wrong. To get the right ORF, if I encountered the stop codon, should I continue the counting number of codons, or i should stop and start again from the next ATG?

https://www.ncbi.nlm.nih.gov/nuccore/DQ459314.1?feature=CDS

This link is related to the whole sequence.

Thanks

Wolfgang Schechinger

Basically, yes. It's less tedious however, when you use the available tools, e.g., https://www.ncbi.nlm.nih.gov/orffinder/

Badges
Science topic

More Roxana Nezami's questions See All

How can I measure MMP-1 protein activity or protein level from liver tissue?

Instead of checking only the mRNA level, I want to check the active protein level of MMP-1 in Liver tissue from mice. How can I do that?

03 March 2021 1,763 2 View

Binary Logistic Generalized Linear Mixed model in SPSS. Is it doable?

I want to analyses the proportion of swimming sperm of three species of fish in two salinities. To analyse the proportion of swimming sperm in a Generalized Linear Model, I would use a Binary...

03 March 2021 2,297 3 View

Looking for Materials with high thermal expansion coefficient and high temperature resistance?

03 March 2021 8,272 1 View

Guidelines for survey (question type) analysis?

Hi. Please tell me what guidelines should i need to follow for questionaries' type research work in India. It is not hospital based work, we are conduction basic institutional based qualitative...

03 March 2021 2,037 3 View

What are the values needed for gabor filter's parameter for cifar10 data?

Hi, I implemented a code to gabor filter cifar10 data but the images after being filtered and stacked are not clear like the original images. I think the problem is in the way I am using the...

03 March 2021 6,317 1 View

Can we block unwanted images during the x-ray prediction?

i am try to classify the x-ray images. During classification , can i block unwanted images (except x-ray image).

03 March 2021 7,100 1 View

No title

03 March 2021 5,360 2 View

What techniques can I use to determine the miscibility of polymer blends?

The term miscibility refers to the single-phase state in thermodynamics. I do not mean the compatibility of different components. To determine the miscibility I know several techniques such as...

03 March 2021 4,107 4 View

Sample dilution for quantitative analysis using ELISA?

If the detection range is in ng/ml but the reference range is in ug/ml for a molecule or protein in serum or plasma .how to dilute and what is the initial volume to be taken for quantitative analysis

02 March 2021 7,670 3 View

The procedure compute?

02 March 2021 5,204 3 View

How to calculate the annealing temperature of a primer pair?

I have to amplify a gene and my primers just reached. The Tm for Forward primer is 64.2, and that of reverse primer is 65.5. Can some one suggest how to get the best annealing temperature? Thanks...

01 March 2021 360 7 View

Runs of nucleotides in Sanger sequencing?

I performed site directed mutagenesis, transformation, and then I sent out plasmids for Sanger sequencing and found out that there is extension of DNA just before the stop codon. I am not sure...

27 February 2021 547 3 View

Is it okay to mention you distributed your qualitrics study link through social media sites?

Just want to be clear and know it is okay to say I have distributed the qualitrics link through social media such as Facebook, Instagram and Twitter to ensure my target audience is reached in my...

21 February 2021 5,143 2 View

I can detect my protein but the encoding DNA sequence has stop codons within. Should I ignore the stop codons?

I constructed a synthetic DNA library (scFv, VH-VL orientation) with a 3' reporter and 8x histag. I cloned and expressed this gene following which I performed an ELISA. The ELISA results suggested...

19 February 2021 7,006 5 View

Who are the possible experts I can reach out to regarding the reseach topic: Activated Carbon as Water Filter?

Hi! Me and my team mates are currently new in doing a research study. We do not have any previous experiences in research. And we just wanted to know what type of experts (the field they in) can...

19 February 2021 9,596 4 View

Comsol Maximum number of Newton iterations reached?

Comsol is investigating deformation due to gravity. Gravity is applied to the nanosheets to check for displacement and stress. If I input the Young's modulus of the channel to about 1 [GPa], the...

15 February 2021 6,027 3 View

What parameters of anodizing I should use?

19 January 2021 3,792 3 View

Should I add a promoter upstream of my CRISPR-inserted gene?

Hello, I want to insert a gene into my cells using sgRNA, Cas9, and an HDR template. The gene that I will insert into has its own promoter. Because I will cut the gene downstream of its start...

14 January 2021 1,170 2 View

Can anyone help for the content validity of my psychological test?

Good day! I am in the midst of completing my test development requirement under the Psychological Assessment subject. I was wondering if anyone can help me reach experts or psychology graduates...

14 January 2021 1,536 4 View

Marker Set for 3D Motion Tracking of Upper Arm during Pointing Task?

Does anyone have recommendations of a marker set for 3D motion tracking of the upper arm during a pointing task? Most studies I have come across have focused on reaching. I plan to use Vicon Nexus...

12 January 2021 3,198 1 View