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Pipeline publication

[…] Rodents have a largely expanded V1R repertoire with over 100 genes, whereas dogs have 8 and humans have no V1Rs []. The dog also has 14 Taste2 receptors for bitter taste []. The non-sensory GPCRs have not previously been studied in dog., In this study we provide the subset of the non-olfactory GPCRs in the dog genome. We have made comprehensive searches for dog GPCR genes, put extensive efforts in manually correcting coding sequences and performed detailed phylogenetic analyses. Furthermore, we provide a comparison between the GPCR repertoires in human, dog, mouse and rat., We performed a comprehensive search for non-olfactory GPCR genes in the dog genome. A start dataset was produced from BLASTN searches in the Genbank non-redundant database. This contained 325 full-length GPCRs and 5 pseudogenes. Around 13% of these needed manual curation because they had an incorrect composition of exons. TBLASTN and BLAT searches in the dog genome assembly completed the analysis. A total number of 353 full-length sequences, 18 incomplete sequences and 13 pseudogenes were retrieved. A full-length dog GPCR gene has been defined as one that contains an intact transmembrane domain. The incomplete GPCR gene sequences are missing exons or parts thereof because they reside in genomic regions that have not been sequenced. It is also possible that whole GPCR genes are missing in the dog genome assembly and these can be very difficult to distinguish from those that do not exist in this species unless the specific genomic region is carefully analysed. The gene sequences of MAS1, NPY2R, GPR52 and GPR37L1 were found […]

Pipeline specifications

Software tools BLASTN, TBLASTN, BLAT
Organisms Mus musculus, Canis lupus familiaris, Rattus norvegicus, Homo sapiens