Lathyrus sativus LS007 genome assembly and annotation Rbp1.0
Creators
- Edwards, Anne1
- Njaci, Isaac2
- Sarkar, Abhimanyu3
- Jiang, Zhouqian1
- Kaithakottil, Gemy George4
- Moore, Christopher5
- Cheema, Jitender1
- Stevenson, Clare1
- Rejzek, Martin1
- Novak, Petr6
- Vigouroux, Marielle1
- Moore, Jonathan1
- Higgins, Janet4
- Swarbreck, David4
- Martens, Stefan7
- Kim, Colin Y.8
- Weng, Jing-Ke8
- Mundree, Sagadevan2
- Kilian, Benjamin9
- Kumar, Agrawal10
- Loose, Matt5
- Yant, Levi5
- Macas, Jiri6
- Wang, Trevor L.1
- Martin, Cathie1
- Emmrich, Peter M. F.11
- Vickers, Martin1
- Paajanen, Pirita1
- Steuernagel, Burkhard1
- Wouters, Roland1
- 1. John Innes Centre
- 2. Queensland University of Technology
- 3. National Institute of Agricultural Botany
- 4. Earlham Institute
- 5. University of Nottingham
- 6. Biology Centre CAS
- 7. Istituto Agrario di San Michele all'Adige – IASMA
- 8. Whitehead Institute for Biomedical Research
- 9. Global Crop Diversity Trust
- 10. ICARDA
- 11. University of East Anglia
Description
Genome assembly of grass pea (Lathyrus sativus L.) genotype LS007, assembled from PromethION nanopore data and polished using Illumina HiSeq PE data. The assembly was annotated using the mikado-minos pipeline developed by the Earlham Institute. Also included is a separate annotation track for repeat sequences produced using the DANTE pipleline.
For any questions regarding this dataset, contact peter.emmrich@jic.ac.uk
Note: ctg14433 has been manually corrected based on sequenced amplicon data. Files have been updated accordingly.
Assembly files:
Lsativus_LS007_Rbp1.0.7z - compressed complete assembly without scaffolding. The annotation refers to this assembly
Rbp_9 largest HiC scaffolds.7z - compressed fasta file of the largest 9 scaffolds following HiC scaffolding
Lsat_LS007_Rbp_chloroplast.fasta - fasta file of the complete LS007 chloroplast genome
Lsat_LS007_Rbp_mitochondrion.fasta - fasta file of the complete LS007 mitochondrial genome
Annotation tracks:
LATSA3860_EIv1.0.annotation.gff3
DANTE_transposable_element_protein_domains.gff3
Full_length_LTR_retrotransposons.gff3
Repeat_annotation_classI_classII_satellites.gff3
Annotation FASTA files:
LATSA3860_EIv1.0.annotation.gff3.cds.fasta
LATSA3860_EIv1.0.annotation.gff3.cdna.fasta
LATSA3860_EIv1.0.annotation.gff3.pep.fasta
Summaries and statistics:
LATSA3860_EIv1.0.annotation.gff3.final_table.tsv
LATSA3860_EIv1.0.annotation.gff3.mikado_stats.txt
LATSA3860_EIv1.0.annotation.gff3.biotype_conf.summary
LATSA3860_EIv1.0.annotation.gff3.final_table.tsv
LATSA3860_EIv1.0.annotation.gff3.pep.fasta.functional_annotation.tsv
NOT_UPDATED_LATSA3860_EIv1.0.annotation.gff3.metrics.tsv *
Blobtools_passed_contigs.txt - list of all contigs of the assembly that pass the BlobTools filter (Streptophyta, 20-100x coverage, >50 kbp)
*this file has not been updated to reflect the correction to ctg14433
Files
Blobtools_passed_contigs.txt
Files
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