Summary
Resource Type
Organism
Abbreviation
J. regia
Genus
Juglans
Species
regia
Common Name
English Walnut
Description

Order: Fagales
Family: Juglandaceae
Chromosome Number: 2n=32
Draft Genome Sequence
David Neale and Charles Langley (UC Davis) worked with the California Walnut Board to sequence the walnut genome, currently released as v1.0. A manuscript is expected soon. Links:

Genetic and Physical Map
Luo MC, You FM, Li P, Wang JR, Zhu T, Dandekar AM, Leslie CA, Aradhya M, McGuire PE, Dvorak J. Synteny analysis in Rosids with a walnut physical map reveals slow genome evolution in long-lived woody perennials. BMC genomics. 2015 Sep 17;16(1):1.

Cross Reference
Reference Genome
NameProgramDate Constructed
de novo English Walnut(Juglans regia)Newbler(Roche)May 2nd, 2017
Draft reference genomes for six Juglans species and Pterocarya stenopteraTrinity, MUMmer, SamtoolsJun 14th, 2018
JBrowse

The English Walnut (Juglans regia) Jbrowse instance corresponds to the v 1.0 reference genome assembly. The Black Walnut (Juglans nigra) variants track were generated using GMAP.

Total J. nigra mrna contigs Contigs mapped to J. regia >90% identity >90% coverage
78,834 74,984 68,235 62,387

Go to JBrowse

Analysis Details
Provides detailed information on the programs used to assemble and annotate the data.
NameProgramDate Constructed
English Walnut (blastx against sprot)blastxJan 19th, 2017
Interpro Analysis of (Juglans regia)InterProScanJan 19th, 2017
de novo English Walnut(Juglans regia)Newbler(Roche)May 2nd, 2017
Draft reference genomes for six Juglans species and Pterocarya stenopteraTrinity, MUMmer, SamtoolsJun 14th, 2018
Ontology Browser

A vocabulary is always identified by its short name and sometimes it may offer multiple sub-vocabularies with different names. Both are listed below.

Click the + icon (if present) to expand the tree. If the full ontology or the term heirarchy is not loaded into this site, then the tree will consist of all terms at the same level. For some vocabularies, only a subset of terms are loaded