[ensembl-dev] Entrez-Ensembl mapping

[Premanand Achuthan]

Hi All

Might be a naive question.  When I look in biomart (Ensembl 61+Homo 
sapiens), I don't see the entrez id for ensembl gene (ENSG00000178980). 
Also could not see cross reference to entrez under External references 
section in gene page for this gene(SEPW1).

Biomart output:
Ensembl Gene ID 	Ensembl Transcript ID 	EntrezGene ID
ENSG00000178980 
<http://www.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000178980> 
	ENST00000509570 
<http://www.ensembl.org/Homo_sapiens/Transcript/Summary?db=core;t=ENST00000509570> 
	
ENSG00000178980 
<http://www.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000178980> 
	ENST00000396715 
<http://www.ensembl.org/Homo_sapiens/Transcript/Summary?db=core;t=ENST00000396715> 
	


But I could see the mapping entrez id (6415) in 'gene2ensembl' file 
downloaded from NCBI (ftp://ftp.ncbi.nih.gov/gene/DATA/)

grep 'ENSG00000178980' gene2ensembl
9606    6415    ENSG00000178980    NM_003009.2    ENST00000509570    
NP_003000.1    ENSP00000422644

Wondering why biomart/ensembl is missing this entrez mapping for some 
genes.  (Pls Note: This gene is an example)

Thanks
Prem







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