Journal
PLOS ONE
Volume 10, Issue 6, Pages -Publisher
PUBLIC LIBRARY SCIENCE
DOI: 10.1371/journal.pone.0124375
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Funding
- National Science Foundation [Crosscut-EF-0850237, 1054631]
- Kentucky Infrastructure for Biomedical Research Excellence award (KY-INBRE) from the National Institutes of Health [5P20RR016481-09]
- Lourie Foundation
- Gluck Equine Research Center, University of Kentucky
- KY IDeA Networks of Biomedical Research Excellence (Cooper PI) NIH/NIGMS [5P20GM103436-13]
- Direct For Computer & Info Scie & Enginr
- Div Of Information & Intelligent Systems [1054631] Funding Source: National Science Foundation
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Current gene annotation of the horse genome is largely derived from in silico predictions and cross-species alignments. Only a small number of genes are annotated based on equine EST and mRNA sequences. To expand the number of equine genes annotated from equine experimental evidence, we sequenced mRNA from a pool of forty-three different tissues. From these, we derived the structures of 68,594 transcripts. In addition, we identified 301,829 positions with SNPs or small indels within these transcripts relative to EquCab2. Interestingly, 780 variants extend the open reading frame of the transcript and appear to be small errors in the equine reference genome, since they are also identified as homozygous variants by genomic DNA resequencing of the reference horse. Taken together, we provide a resource of equine mRNA structures and protein coding variants that will enhance equine and cross-species transcriptional and genomic comparisons.
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