Annotation of the Protein Coding Regions of the Equine Genome
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 mR...
Saved in:
Published in | PloS one Vol. 10; no. 6; p. e0124375 |
---|---|
Main Authors | , , , , , , |
Format | Journal Article |
Language | English |
Published |
United States
Public Library of Science
24.06.2015
Public Library of Science (PLoS) |
Subjects | |
Online Access | Get full text |
Cover
Loading…
Summary: | 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. |
---|---|
Bibliography: | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 Conceived and designed the experiments: MSH JNM. Performed the experiments: SJC JNM. Analyzed the data: MSH TSK ZZ. Contributed reagents/materials/analysis tools: JL LO. Wrote the paper: MSH JNM. Critical revision of manuscript: TSK ZZ SJC JL LO. Competing Interests: The authors have declared that no competing interests exist. Current address: Department of Human Genetics, KU Leuven, Leuven, Belgium |
ISSN: | 1932-6203 1932-6203 |
DOI: | 10.1371/journal.pone.0124375 |