Hi List

I have a bunch of ids of the form above. What are these ids and what would be the filter option for mappin these to chromosomal coordinates using biomaRt (if it can be done)?

Looking on Ensembl, VEGA and Google would suggest that these are clone based VEGA gene ids so I tried querying VEGA using 'vega_gene_id' or 'vega_transcript_id' as a filter with no success.

Full list of worrisome ids:

RP11-406A20.1, RP11-34P13.3,  RP11-354P17.1, RP11-392A19.1, RP11-429G19.1, RP11-432I13.2, RP11-74C1.1,  
RP3-410C9.2,   RP3-477H23.1,  RP5-1043L13.1

Current code:
vega_mart <- useMart('vega', dataset='hsapiens_gene_vega')

vega_trans_chr_locs <- getBM(attributes=c('vega_gene_id', 'chromosome_name', 'start_position', 'end_position', 'strand'), filters=c('vega_gene_id'), values=data_in$symbol, mart=vega_mart)


Thanks for any help.

Best

iain

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