Question : Gene synonyms which do not correspond to the same genomic location
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R. Avellino
Dec 13, 2016, 10:54:36 AM12/13/16
to gen...@soe.ucsc.edu, I.P. Touw, P.A. Olofsen
To whom it may concern,
As stated by NCBI, the gene ZSCAN1 has other synonyms including MZF-1 and ZNF915. However, ZSCAN1 and MZF-1 are located on different genomic locations.
Kindly, I would like to ask you for help and whether there is any explanation for this, if any.
I will thank you in advance.
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With kind regards, |
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Roberto Avellino |
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PhD Candidate |
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Hematology |
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P.O. Box 21455, 3001 AL Rotterdam, The Netherlands |
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Visiting address: Wytemaweg 80, 3015 CN Rotterdam, The Netherlands |
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Email r.ave...@erasmusmc.nl | Telephone +31 10 704 38 36 |
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Cath Tyner
Dec 19, 2016, 1:19:13 PM12/19/16
to R. Avellino, gen...@soe.ucsc.edu, I.P. Touw, P.A. Olofsen
Hello Roberto,
Thank for using the UCSC Genome Browser and for submitting your question regarding ZSCAN1 and MZF-1 being located on different genomic locations, even though they are synonyms.
In my answer below, I have assumed that your organism of interest is human, but please respond if this is not the case. In short, I found that these records have been withdrawn
I first went to the NCBI site and searched for MZF-1. You can click on "Status" and filter for only "Discontinued" and "Replaced." Here I can see that MZF-1 is in my filtered list.
LOC94628
ID: 94628
similar to ZINC FINGER PROTEIN 42 (MYELOID ZINC FINGER 1) (MZF-1) (H. sapiens) [Homo sapiens (human)]
*This record has been withdrawn (May 2005) by NCBI because the model on which it was based was not predicted in a later annotation.*
Thank for using the UCSC Genome Browser and for submitting your question regarding ZSCAN1 and MZF-1 being located on different genomic locations, even though they are synonyms.
In my answer below, I have assumed that your organism of interest is human, but please respond if this is not the case. In short, I found that these records have been withdrawn
.
I have outlined my steps below:I first went to the NCBI site and searched for MZF-1. You can click on "Status" and filter for only "Discontinued" and "Replaced." Here I can see that MZF-1 is in my filtered list.
LOC94628
ID: 94628
similar to ZINC FINGER PROTEIN 42 (MYELOID ZINC FINGER 1) (MZF-1) (H. sapiens) [Homo sapiens (human)]
*This record has been withdrawn (May 2005) by NCBI because the model on which it was based was not predicted in a later annotation.*
https://www.ncbi.nlm.nih.gov/gene/94628
I then looked in the UCSC Genome Browser. Searching for MZF-1, I get this mRNA search result:
M58297 - Human zinc finger protein 42 (MZF-1) mRNA, complete cds.
chr19:58,561,931-58,564,613
I then looked in the UCSC Genome Browser. Searching for MZF-1, I get this mRNA search result:
M58297 - Human zinc finger protein 42 (MZF-1) mRNA, complete cds.
chr19:58,561,931-58,564,613
Clicking into the details page, this mRNA is transcribed from gene ZNF42, which was also discontinued May 2005:
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