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I wanted a list of all the proteins (amino acid sequences) and their corresponding gene sequences of Vibrio cholerae. I tried to search in patric, but the number of amino acid sequences and gene sequences do not match, as they have provided the whole genome. I need to know if there is a database where all the proteins of Vibrio cholerae and their corresponding gene sequences can be obtained in a single file or in a couple of files. Copy pasting 4000-5000 genome and protein sequences individually from the internet seems cumbersome to me.

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You want to go to PATRIC > Data > Download Tool.

From the Taxonomy tree, find Vibrio cholerae, choose Type of annotation as either PATRIC/RefSeq or both, choose the type of file you want (gbk or faa) and download from there.

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  • $\begingroup$ have tried that. the number of gene and protein sequences do not match $\endgroup$ – girl101 Aug 11 '16 at 9:44
  • $\begingroup$ Did you get the genes from PATRIC or NCBI? If the number of genes do not match the genes would be more. Considering that you have non-coding sequences, rRNA and tRNA genes and also hypothetical and predicted sequences. $\endgroup$ – FoldedChromatin Aug 11 '16 at 9:50
  • $\begingroup$ i got it from patric. $\endgroup$ – girl101 Aug 11 '16 at 10:29

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