Annotated Gene Models Heterodera Glycines (updated v2)

Downloadable File
Organism: 
Heterodera glycines v2 (Soybean Cyst Nematode (v2))
Program, Pipeline Name or Method Name: 
Ortholog based Manual Annotations
Program, Pipeline or Method version: 
Orthofinder, custom bash scripts
Source Name: 
Baum/Severin Labs
Time Executed: 
10/29/2018
Materials & Methods (Description and/or Program Settings): 
This essentially works by taking the primary isoforms from each species, (B. xylophilus, D. destructor, G. rostochiensis, G. ellingtonae, G. pallida, M. hapla, M. incognita, M. floridensis, M. arenaria, M. javanica, and H. glycines) and running them through orthofinder to find orthologs. This assigns each gene with orthology to an orthogroup. For each H.glycines gene in an orthogroup, the genes for every other species were used to extract annotation information. This information was counted by using exact annotation matches for each gene. Thus for Hetgly.G000012040, a total of 146 gene annotations were found and sorted by most abundant annotation type -- 104-No-Annotation,64-Zinc-finger,-FLYWCH-type,37-MULE-transposase-domain,4-Zinc-finger,-FLYWCH-type- method:InterPro-accession:IPR018289,1-PAZ-domain,1-TSC-22-/-Dip-/-Bun. This information was added to the gff annotation of the genome using the Note= attribute.
Category: