Question: for extension of gene family
0
gravatar for fatimarasool135
10 weeks ago by
fatimarasool1350 wrote:

I am working on one gene family. I want to extend this gene family. suggest me, please, I have to do BLASTX OR BLASTP.?whi

sequence alignment gene genome • 237 views
ADD COMMENTlink modified 10 weeks ago • written 10 weeks ago by fatimarasool1350
1

What do you mean by "extend" the gene family? What kind of data you have?

ADD REPLYlink written 10 weeks ago by h.mon20k

5 genes are present in one gene family ..i want to extant or add more members in gene family.

ADD REPLYlink written 10 weeks ago by fatimarasool1350

..suppose u have a gene name XYZ in one organism. this same gene is present in a closely related organism with the same name as xyz...then how we can differentiate between two sequences.

ADD REPLYlink written 10 weeks ago by fatimarasool1350

.then how we can differentiate between two sequences.

What do you mean by differentiate. If a gene has an essential role its sequence may be fully conserved across species and you would not be able to differentiate the two species based on sequence. That said generally critical residues (e.g. active site, contact points for interactions) would be under selection pressure and other amino acids may/will change some over evolutionary time. That is one way you identify orthologs.

ADD REPLYlink modified 10 weeks ago • written 10 weeks ago by genomax57k

thank you so much to clear my concept. my another question is that.one family had 7 members means 7 genes.iwant to add more genes in this family .then what procedure or alignment analysis I have to do?

ADD REPLYlink written 10 weeks ago by fatimarasool1350

See the links I provided below to find resources at NCBI/Ensembl.

iwant to add more genes in this family

Just because you want something does not mean that it is scientifically correct or practically feasible. Why do you want to do this? What is the scientific basis/hypothesis you are working with?

ADD REPLYlink modified 10 weeks ago • written 10 weeks ago by genomax57k
1
gravatar for rob234king
10 weeks ago by
rob234king560
UK/Harpenden/Rothamsted Research
rob234king560 wrote:

orthomcl all the proteins and see if those you know have additional included in orthomcl. google orthomcl and can use web version or download

ADD COMMENTlink written 10 weeks ago by rob234king560

for the wheat genome, this tool is functional?

ADD REPLYlink written 10 weeks ago by fatimarasool1350

I am going to suggest that you take a look at the precomputed sources of data at Ensembl (I am not sure if wheat genome is included). NCBI has book chapters here that will walk you through the process of identifying orthologs..

ADD REPLYlink written 10 weeks ago by genomax57k
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