Question: NCBI gene IDs
1
gravatar for sharma_tina189059
5.0 years ago by
United States
sharma_tina18905950 wrote:

Hi can anyone tell me why I am getting duplicate gene Ids in NCBI...The same gene Id exist several time..what is the reason behind this?

sequence gene • 1.4k views
ADD COMMENTlink modified 4.9 years ago • written 5.0 years ago by sharma_tina18905950

Please supply an example of such ID

ADD REPLYlink written 5.0 years ago by roy.granit830

did you map against the proper organism?

ADD REPLYlink modified 5.0 years ago • written 5.0 years ago by A3.8k

You need to explain what you are doing more precisely, when you say "getting" and "exist". Getting from where and how?

ADD REPLYlink written 5.0 years ago by Neilfws48k
2
gravatar for matt.newman
5.0 years ago by
matt.newman150
United States
matt.newman150 wrote:

We've found there are some genes that have the same name, but on different chromosomes.  Not sure if this is what you are referring to or not....

ADD COMMENTlink written 5.0 years ago by matt.newman150
1

Post examples please.

ADD REPLYlink written 5.0 years ago by genomax85k
1

Please write here the gene ID number

ADD REPLYlink written 5.0 years ago by roy.granit830
1

http://www.ncbi.nlm.nih.gov/gene/3581

Found on both X and Y chromosomes.

Another one: http://www.ncbi.nlm.nih.gov/gene/653440

I thought we found some others previously, but those are the quick ones I could dig up.  We have a tool for building custom gene model (transcript libraries) in our Array Suite package, and we had to build in some special logic for some counting algorithms. 

ADD REPLYlink written 5.0 years ago by matt.newman150
1

I think these genes have their origin in the evolution of the Y chromosome. There is an interesting video on this site that explains the process: http://www.hhmi.org/biointeractive/evolution-y-chromosome

Some other genes around WASH6P are present on both X and Y chromosomes.

ADD REPLYlink written 5.0 years ago by genomax85k
1

Interesting, I was not aware of this. I recommend users read the Gene FAQ. It includes a section named "Multiple chromosomal locations", although what they describe there relates to annotation merges rather than the example of Gene 3581.

ADD REPLYlink written 5.0 years ago by Neilfws48k

yes..u were right..thanku

ADD REPLYlink written 4.9 years ago by sharma_tina18905950
0
gravatar for sharma_tina189059
4.9 years ago by
United States
sharma_tina18905950 wrote:

i got the answer guys...the same genes were present on chromosome and plasmids that z y ncbi mentioned same gene ids several times

ADD COMMENTlink written 4.9 years ago by sharma_tina18905950
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