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Barley

File Name Version Date Source Pubmed ID #Sequences #Bases
Barley Agilent Array - Transcript data from HarvEST assembly 35 Jan 2012 25617470 21415278 22935196 46,848 40.06 Mbp
Description: Transcript data from HarvEST assembly 35, two RNAseq experiments (Kohl et al., 2012; Thiel et al., 2012), and a full-length cDNA collection (Matsumoto et al., 2011) were assembled to 46,114 unique barley contigs. Unambiguous 60bp oligomer probes were derived using eArray (Agilent Technologies, Santa Clara, USA). For a detailed description see Kohl et al., 2015. Microarray design is available at EMBL-EBI ArrayExpress, accession A-MTAB-530. Best hits from BLASTx similarity searches against UniRef90, and high-confidence (HC) genes of the barley genome (2012) are included in the header.
Barley BAC Assemblies v1.0, IBSC_v2 Jun 2015 26801048 850,266 11.3 Gbp
Barley Illumina BAC Contigs Jun 2015 26801048 2,183 277.16 Mbp
Barley cv. 'Golden Promise' CDS v1 42,464 45.11 Mbp
Barley cv. 'Golden Promise' pseudomolecules v1 8 4.13 Gbp
454BacContigs Morex IBSC_v1 IBSC_v1 Jan 2012 23075845 86,251 512.64 Mbp
Description: Mira assemblies for 4,095 barley BAC Clones. BACs were barcoded and sequenced in pools using either Roche 454 GS FLX or FLX Titanium Platform.
Barley full-length cDNAs derived from 12 clone libraries IBSC_v1 May 2011 21415278 28,622 47.57 Mbp
Barley Morex HC cds IBSC_v1 IBSC_v1 Mar 2012 26,159 31.89 Mbp
Barley Morex LC cds IBSC_v1 IBSC_v1 Mar 2012 53,220 17.0 Mbp
Barley Morex Pseudomolecule Contigs v1.0, IBSC_v2 Aug 2015 464,895 4.79 Gbp
Barley Morex Pseudomolecules Aug 2015 8 4.83 Gbp
IPK barley ESTs 206,633 106.72 Mbp
Description: EST sequences of IPK barley cDNA clones (see https://apex.ipk-gatersleben.de/apex/f?p=CREST)
Barley Morex Exome Capture Regions 10x Apr 2018 23889683 168,097 48.36 Mbp
Description: Sequence fragments at least 20bp in size from Morex WGS contigs that had at least 10x coverage in captured samples from 13 barley cultivars.
Barley Morex Exome Capture Regions 5x Apr 2018 23889683 207,448 67.7 Mbp
Description: Sequence fragments at least 20bp in size from Morex WGS contigs that had at least 5x coverage in captured samples from 13 barley cultivars.
Barley Morex assembly_WGS IBSC_v1 IBSC_v1 Oct 2012 23075845 2,670,738 1.87 Gbp
Description: Assembly from Whole Genome Shotgun sequencing of barley, cultivar Morex. Illumina Paired End 500 and Mate Pair 2500, total sequencing depth ~55x.
BacEndSequences IBSC_v1 IBSC_v1 May 2012 23075845 571,814 373.55 Mbp
Description: Sanger sequenced ends of 304,523 barley BAC Clones.
Barley Genomic -start at 1st exon end of last exon- HC Genes Morex v1.0, IBSC_v2 v1.0, IBSC_v2 26801048 39,734 38.49 Mbp
Barley Genomic -start at 1st exon end of last exon- LC Genes Morex v1.0, BSC_v2 v1.0, IBSC_v2 28447635 28448065 41,545 16.16 Mbp
Barley Pseudomolecules Masked Morex v1.0, IBSC_v2 v1.0, IBSC_v2 Apr 2016 28447635 28448065 8 4.34 Gbp
Barley CDS LC Morex v1.0, IBSC_v2 v1.0, IBSC_v2 28447635 28448065 40,819 92.98 Mbp
Barley pseudomolecules Contigs Masked Morex v1.0, IBSC_v2 v1.0, IBSC_v2 28447635 28448065 464,895 4.79 Gbp
Barley pseudomolecules Masked Morex v1.0, IBSC_v2 v1.0, IBSC_v2 28447635 28448065 8 4.83 Gbp
Barley representative Transcripts HC v1.0, IBSC_v2 28447635 28448065 39,734 59.56 Mbp
Barley representative Transcripts LC v1.0, IBSC_v2 28447635 28448065 41,949 39.77 Mbp
Barley Pseudomolecules Morex v2.0 2019 v2.0 Jul 2019 e!DAL-PGP 31849336 8 4.34 Gbp
Barley cv. Morex all CDS v2.0 Aug 2019 e!DAL-PGP 31849336 63,658 57.08 Mbp
Barley Morex HC CDS v1.0, IBSC_v2 May 2016 39,734 38.49 Mbp
Description: Genomic [start at 1st exon end of last exon] HC Genes (May 2016)
Barley Morex LC CDS v1.0, IBSC_v2 May 2016 41,545 16.16 Mbp
Description: Genomic [start at 1st exon end of last exon] LC Genes (May 2016)
Barley CDS HC Morex v1.0, IBSC_v2 v1.0, IBSC_v2 May 2016 39,734 238.84 Mbp
Barley CDS LC Morex v1.0, IBSC_v2 v1.0, IBSC_v2 May 2016 40,819 92.98 Mbp
Barley Pseudomolecule Contigs masked Morex v1.0, IBSC_v2 v1.0, IBSC_v2 Apr 2016 464,895 4.79 Gbp
Barley Pseudomolecules masked Morex v1.0, IBSC_v2 v1.0, IBSC_v2 Apr 2016 8 4.83 Gbp
Barley representative Transcripts HC v1.0, IBSC_v2 May 2016 39,734 59.56 Mbp
Barley representative Transcripts LC v1.0, IBSC_v2 May 2016 41,949 39.77 Mbp
Barley pseudomolecules Morex v3.0 V3 Jul 2020 e!DAL-PGP 8 4.23 Gbp
Description: Chromosomes 1H-7H. Unplaced scaffolds are merged into an additional artifical pseudomolecule 'chrUn'.
Barley all CDS Morex v3.0 V3 Jul 2020 e!DAL-PGP 83,990 71.84 Mbp
Barley pseudomolecules 1-7H and unplaced scaffolds Morex v3.0 V3 Jul 2020 ENA 290 4.23 Gbp
Description: In comparison to assembly 'morex_v3' this version of the Barley cv. Morex V3 consists of pseudomolecules 1H-7H. Artificial chromosomes 'chrUn' is represented by a set of unplaced scaffolds.
Barley Barke assembly_WGS Oct 2012 23075845 2,742,077 2.02 Gbp
Description: Assembly from Whole Genome Shotgun sequencing of barley, cultivar Barke. Illumina Paired End 500, sequencing depth ~30x.
Barley Bowman assembly_WGS Oct 2012 ENA 23075845 2,077,901 1.78 Gbp
Description: Assembly from Whole Genome Shotgun sequencing of barley, cultivar Bowman. Illumina Paired End 500, sequencing depth ~35x.

Barley proteins

File Name Version Date Source Pubmed ID #Sequences #Bases
Barley HC Proteins IBSC_v1 IBSC_1 Mar 2012 23075845 23998490 26,159 10.63 Mbp
Description: Barley gene annotations derived from the Morex 55x WGS sequence.In general, this gene set is a combination of RNA-seq-derived and barley flCDNAs-derived predictions. Per gene locus, only one representative gene model was selected (in case of alternative transcripts structures).Gene models were filtered for high-confidence (HC) and low-confidence (LC) predictions based on sequence homology to other angiosperm proteins (OrthoMCL and BLAST used). Both sets contain POPSEQ anchoring information and Blast2GO annotations. WARNING - This gene set is likely to be incomplete with respect to the barley full gene complement and many genes may be truncated (not full length) due to the WGS assembly sequence structure!
Barley LC Proteins IBSC_v1 IBSC_v1 Mar 2012 23075845 23998490 53,220 5.67 Mbp
Description: Barley gene annotations derived from the Morex 55x WGS sequence.In general, this gene set is a combination of RNA-seq-derived and barley flCDNAs-derived predictions. Per gene locus, only one representative gene model was selected (in case of alternative transcripts structures).Gene models were filtered for high-confidence (HC) and low-confidence (LC) predictions based on sequence homology to other angiosperm proteins (OrthoMCL and BLAST used). Both sets contain POPSEQ anchoring information and Blast2GO annotations. WARNING - This gene set is likely to be incomplete with respect to the barley full gene complement and many genes may be truncated (not full length) due to the WGS assembly sequence structure!
Barley HC Proteins Morex v1.0, IBSC_v2 v1.0, IBSC_v2 May 2016 26801048 39,734 12.83 Mbp
Barley LC Proteins Morex v1.0, IBSC_v2 v1.0, IBSC_v2 May 2016 26801048 41,545 5.39 Mbp
Morex v2.0 proteins v2.0 Aug 2019 e!DAL-PGP 31849336 63,658 19.03 Mbp
Description: Morex proteins, both HC and LC
Barley HC Proteins Morex V3 V3 Jul 2020 e!DAL-PGP 37,963 15.03 Mbp
Barley LC Proteins Morex V3 V3 Jul 2020 e!DAL-PGP 45,698 8.87 Mbp
Barley all Proteins Morex V3 V3 Jul 2020 e!DAL-PGP 83,661 23.9 Mbp

Barley pan-genome

File Name Version Date Source Pubmed ID #Sequences #Bases
Barley accession HOR 8148 pseudomolecules v1 May 2021 ENA 33239781 20,454 4.34 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 8148 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley accession HOR 8148 CDS from gene projection Mar 2020 33239781 45,026 47.58 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) accession HOR 8148 derived from gene projection.
Barley cultivar 'Akashinriki' pseudomolecules v1 Dec 2019 ENA 33239781 39,950 4.37 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) cultivar 'Akashinriki' constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley cultivar 'Akashinriki' CDS from gene projection Mar 2020 33239781 44,446 46.79 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) cultivar Akashinriki derived from gene projection.
Barley genotype B1K_04_12_FT11 pseudomolecules v1 Dec 2019 ENA 33239781 22,357 4.27 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) genotype B1K_04_12_FT11 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley genotype B1K_04_12_FT11 CDS from gene projection Mar 2020 33239781 44,566 47.32 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) genotype B1K_04_12_FT11 derived from gene projection.
Barley cultivar 'Barke' pseudomolecules v1 Dec 2019 ENA 33239781 22,261 4.2 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) cultivar 'Barke' constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley cultivar 'Barke' CDS from denovo gene prediction Mar 2020 33239781 51,037 48.98 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) cultivar Barke derived from denovo gene prediction.
Barley cultivar 'Chiba' pseudomolecules v1 Dec 2019 ENA 33239781 50,067 4.28 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) cultivar 'Chiba' constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley cultivar 'Du Li Huang' pseudomolecules v1 Dec 2019 ENA 33239781 47,929 4.68 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) cultivar 'Du Li Huang' constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley cultivar 'Golden Promise' pseudomolecules v1 Apr 2020 ENA 52,651 4.06 Gbp
Description: Assembly version v1.0 (originally published by the James Hutton Institute) comprising chromosomes 1H to 7H and yet unplaced scaffolds.
Barley accession HOR 10350 pseudomolecules v1 Dec 2019 ENA 33239781 22,115 4.21 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 10350 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley accession HOR 10350 CDS from denovo gene prediction Mar 2020 33239781 31,454 38.48 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) accession HOR 10350 derived from denovo gene prediction.
Barley accession HOR 13821 pseudomolecules v1 Dec 2019 ENA 33239781 37,025 4.36 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 10350 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley accession HOR 13821 CDS from gene projection Mar 2020 33239781 44,714 47.36 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) accession HOR 13821 derived from gene projection.
Barley accession HOR 13942 pseudomolecules v1 Dec 2019 ENA 33239781 42,596 4.47 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 13821 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley accession HOR 13942 CDS from gene projection Mar 2020 33239781 44,718 47.14 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) accession HOR 13942 derived from gene projection.
Barley accession HOR 21599 pseudomolecules v1 Dec 2019 ENA 33239781 35,732 4.48 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 13942 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley accession HOR 21599 CDS from gene projection Mar 2020 33239781 44,456 47.13 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) accession HOR 21599 derived from gene projection.
Barley accession HOR 3081 pseudomolecules v1 Dec 2019 ENA 33239781 20,204 4.33 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 21599 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley accession HOR 3081 CDS from gene projection Mar 2020 33239781 45,146 47.85 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) accession HOR 3081 derived from gene projection.
Barley accession HOR 3365 pseudomolecules v1 Dec 2019 ENA 33239781 322,406 4.84 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 3081 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley accession HOR 3365 CDS from gene projection Mar 2020 33239781 47,588 48.26 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) accession HOR 3365 derived from gene projection.
Barley accession HOR 7552 pseudomolecules v1 Dec 2019 ENA 33239781 24,111 4.36 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 7552 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley accession HOR 7552 CDS from gene projection Mar 2020 33239781 44,641 47.25 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) accession HOR 7552 derived from gene projection.
Barley accession HOR 9043 pseudomolecules v1 Dec 2019 ENA 33239781 36,153 4.4 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 9043 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley accession HOR 9043 CDS from gene projection Mar 2020 33239781 45,028 47.61 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) accession HOR 9043 derived from gene projection.
Barley cultivar 'Hockett' pseudomolecules v1 Dec 2019 ENA 33239781 28,709 4.33 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) accession HOR 3365 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley cultivar 'Hockett' CDS from gene projection Mar 2020 33239781 46,450 49.49 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) cultivar Hockett derived from gene projection.
Barley cultivar 'Igri' pseudomolecules v1 Dec 2019 ENA 33239781 21,911 4.33 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) cultivar 'Igri' constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley cultivar 'Igri' CDS from gene projection Mar 2020 33239781 45,213 47.89 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) cultivar Igri derived from gene projection.
Barley cultivar 'Morex' CDS from denovo gene prediction Mar 2020 33239781 63,658 57.08 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) cultivar Morex derived from denovo gene prediction.
Barley genotype OUN_333_BCC_747 pseudomolecules v1 Dec 2019 ENA 33239781 39,314 4.53 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) genotype OUN_333_BCC_747 constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley genotype OUN_333_BCC_747 CDS from gene projection Mar 2020 33239781 44,699 47.27 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) genotype OUN_333_BCC_747 derived from gene projection.
Barley cultivar 'RGT Planet' pseudomolecules v1 Dec 2019 ENA 33239781 20,793 4.34 Gbp
Description: Genome sequence assembly barley (Hordeum vulgare ssp. vulgare) cultivar 'RGT Planet' constructed with the TRITEX pipeline. Assembly contains chromosomes 1-7H and additional unplaced scaffolds.
Barley cultivar 'RGT Planet' CDS from gene projection Mar 2020 33239781 45,413 48.05 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) cultivar RGT_Planet derived from gene projection.
Barley genotype ZDM01467 CDS from gene projection Mar 2020 33239781 44,746 47.1 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) genotype ZDM01467 derived from gene projection.
Barley genotype ZDM02064 CDS from gene projection Mar 2020 33239781 45,050 47.77 Mbp
Description: CDS feature of barley (Hordeum vulgare ssp. vulgare) genotype ZDM02064 derived from gene projection.

Barley pan-genome proteins

File Name Version Date Source Pubmed ID #Sequences #Bases
Barley accession HOR 8148 proteins v1 Mar 2020 e!DAL-PGP 33239781 45,026 15.86 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley cultivar 'Akashinriki' proteins v1 Mar 2020 e!DAL-PGP 33239781 44,446 15.6 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley genotype B1K_04_12_FT11 proteins v1 Mar 2020 e!DAL-PGP 33239781 44,566 15.77 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley cultivar 'Barke' protein sequences from denovo gene prediction v1 e!DAL-PGP 33239781 51,037 16.32 Mbp
Barley cultivar 'Golden Promise' proteins Apr 2021 42,464 15.04 Mbp
Barley accession HOR 10350 protein sequences from denovo gene prediction v1 Mar 2019 33239781 50,312 16.38 Mbp
Barley accession HOR 13821 proteins, internal IDs version! Mar 2020 e!DAL-PGP 33239781 44,714 15.79 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley accession HOR 13942 proteins, internal IDs version! v1 Mar 2020 e!DAL-PGP 33239781 44,718 15.71 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley accession HOR 21599 proteins v1 Mar 2020 e!DAL-PGP 33239781 44,456 15.71 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley accession HOR 3081 proteins v1 Mar 2020 e!DAL-PGP 33239781 45,146 15.95 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley accession HOR 3365 proteins Mar 2020 e!DAL-PGP 33239781 47,588 16.09 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley accession HOR 7552 proteins v1 Mar 2020 e!DAL-PGP 33239781 44,641 15.75 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley accession HOR 9043 proteins v1 Mar 2020 e!DAL-PGP 33239781 45,028 15.87 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley cultivar 'Hockett' proteins v1 Mar 2020 e!DAL-PGP 33239781 46,450 16.5 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley cultivar 'Igri' proteins v1 Mar 2020 e!DAL-PGP 33239781 45,213 15.96 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including self-projections).
Barley cultivar 'Morex' protein sequences from denovo gene prediction v1 Feb 2019 e!DAL-PGP 33239781 63,658 19.03 Mbp
Barley genotype OUN_333_BCC_747 proteins v1 Mar 2020 e!DAL-PGP 33239781 44,699 15.76 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).
Barley cultivar 'RGT Planet' proteins v1 Mar 2020 e!DAL-PGP 33239781 45,413 16.02 Mbp
Description: Protein-coding gene models were predicted for twenty genotypes by gene projection with de novo gene models of three genotypes (including “self-projections”).

Brassica

File Name Version Date Source Pubmed ID #Sequences #Bases
Brassica napus Darmor-bzh v10 pseudomolecule assembly v10 Jul 2020 ENA 33319912 237 923.8 Mbp
Description: The combination of long-reads and long-range information to produce genome assemblies is now accepted as a common standard. This strategy not only allow to access the gene catalogue of a given species but also reveals the architecture and organisation of chromosomes, including complex regions like telomeres and centromeres. The Brassica genus is not exempt and many assemblies based on long reads are now available. The reference genome for Brassica napus, Darmor-bzh, which was published in 2014, has been produced using short-reads and its contiguity was extremely low if compared to current assemblies of the Brassica genus. Here, we report the new long-reads assembly of Darmor-bzh genome (Brassica napus) generated by combining long-reads sequencing data, optical and genetic maps.
Brassica napus Darmor-bzh v10 chr 237 923.8 Mbp

Oats

File Name Version Date Source Pubmed ID #Sequences #Bases
Avena atlantica CC7277 v1 pseudomolecules v1 ENA 2,195 3.69 Gbp
Avena eriantha BYU132 v1 pseudomolecules v1 ENA 2,652 3.78 Gbp
Avena insularis BYU209 v1 pseudomolecules v1 ENA 6,537 14.18 Gbp
Description: Genome sequence assembly (pseudomolecules) and structural annotation (both protein coding genes and TEs/repeats) of tetraploid (4x) Avena insularis (BYU209).
Avena insularis BYU209 v1 all CDS v1 e!DAL-PGP 136,548 132.54 Mbp
Avena insularis BYU209 v1 CDS HC v1 e!DAL-PGP 64,550 83.71 Mbp
Avena insularis BYU209 v1 CDS LC v1 e!DAL-PGP 71,998 48.83 Mbp
Avena longiglumis CN58138 v1 pseudomolecules v1 ENA 890 7.4 Gbp
Description: Genome sequence assembly (pseudomolecules) and structural annotation (both protein coding genes and TEs/repeats) of diploid (2x) Avena longiglumis (CN58138).
Avena longiglumis CN58138 v1.cds v1 e!DAL-PGP 85,326 84.84 Mbp
Avena longiglumis CN58138 v1 CDS HC v1 e!DAL-PGP 42,564 54.92 Mbp
Avena longiglumis CN58138 v1 CDS LC v1 e!DAL-PGP 42,762 29.92 Mbp
Avena sativa cv. Sang v1.1 all CDS v1,1 e!DAL-PGP 174,318 170.83 Mbp
Avena sativa cv. Sang v1 pseudomolecules v1 ENA 22 11.01 Gbp
Description: This data release contains the genome sequence assembly (pseudomolecules) and structural annotation (both protein coding genes and TEs/repeats) of hexaploid (6x) Avena sativa (cv. Sang) from the PanOat project.
Avena sativa cv. Sang v1.1 CDS HC v1,1 e!DAL-PGP 94,976 123.17 Mbp
Description: Structural annotation (both protein coding genes and TEs/repeats) of hexaploid (6x) Avena sativa (cv. Sang). Sang version 1.0 and 1.1 gene annotation differences - both annotation versions refer to the same genome assembly sequence (included with this release) and only differ in the addition of manually curated gene models (e.g. for the prolamin gene family) in release version 1.1. Gene identifiers have been kept stable between the two annotation versions wherever possible (that means, some genes may have been removed, merged or added in v1.1).
Avena sativa cv. Sang v1.1 CDS LC v1,1 e!DAL-PGP 79,342 47.66 Mbp
Description: Structural annotation (both protein coding genes and TEs/repeats) of hexaploid (6x) Avena sativa (cv. Sang). Sang version 1.0 and 1.1 gene annotation differences - both annotation versions refer to the same genome assembly sequence (included with this release) and only differ in the addition of manually curated gene models (e.g. for the prolamin gene family) in release version 1.1. Gene identifiers have been kept stable between the two annotation versions wherever possible (that means, some genes may have been removed, merged or added in v1.1).

Oats proteins

File Name Version Date Source Pubmed ID #Sequences #Bases
Avena insularis BYU209 v1 proteins HC v1 64,549 27.9 Mbp
Avena insularis BYU209 v1 proteins LC v1 44,250 9.06 Mbp
Avena insularis BYU209 v1 proteins v1 108,799 36.97 Mbp
Avena longiglumis CN58138 v1 proteins HC v1 42,562 18.3 Mbp
Avena longiglumis CN58138 v1 proteins LC v1 21,870 4.72 Mbp
Avena longiglumis CN58138 v1 proteins v1 64,432 23.02 Mbp
Avena sativa cv. Sang v1.1 proteins HC v1 94,967 41.06 Mbp
Avena sativa cv. Sang v1.1 proteins LC v1 78,756 15.74 Mbp
Avena sativa cv. Sang v1.1 proteins v1 173,723 56.8 Mbp
Avena sativa cv. Sang v1 proteins HC v1 94,954 41.05 Mbp
Avena sativa cv. Sang v1 proteins LC v1 78,753 15.74 Mbp
Avena sativa cv. Sang v1 proteins v1 173,707 56.79 Mbp

Rye

File Name Version Date Source Pubmed ID #Sequences #Bases
Secale cereale Lo7 - HC gene models v1 Feb 2019 e!DAL-PGP 33737754 34,441 44.18 Mbp
Secale cereale Lo7 - LC gene models v1 Feb 2019 e!DAL-PGP 33737754 22,781 14.49 Mbp
Secale cereale Lo7 - all gene models v1 Feb 2019 e!DAL-PGP 33737754 57,222 58.67 Mbp
Secale cereale Lo7 - pseudomolecules v1 Dec 2018 ENA 33737754 8 6.74 Gbp
RNA-seq contigs v1 Jun 2016 21951788 138,339 54.46 Mbp
Description: Reference for SNP discovery.
RNA-seq contigs v1 - transcriptome reference 21951788 115,400 56.6 Mbp
Description: This data was published in the year 2011 by the RYE-Express consortium and is described in Haseneyer et al. (2011). It is comprised by two FASTA references 'RYE-Express_Sce_Assembly02.fasta.gz' and 'RYE-Express_Sce_Assembly03.fasta.gz'.
RYE-SELECT Lo7 WGS contigs version 2 v2 Dec 2016 e!DAL-PGP 27888547 154,707 1.68 Gbp
Description: The WGS Scaffolds of inbred line Lo7. This data was published in the year 2016 by the RYE-Select consortium and is described in Bauer et al. (2016). It is comprised by a WGS reference 'Secale_cereale_Lo7_v2.dna.genome.fa.gz'.
RYE-SELECT Lo7 gene models version 3 v3 Mar 2016 27,784 25.85 Mbp
Description: The gene models of inbred line Lo7. This data was published in the year 2016 by the RYE-Select consortium and is described in Bauer et al. (2016).
Trinity assembly 0B Dec 2012 107,534 103.39 Mbp
Description: All RNASeq contigs from rye with 0Bs. Dataset for research of B-chromosomes.
Trinity assembly 4B Dec 2012 141,311 147.26 Mbp
Description: All RNASeq contigs from Rye with 4Bs. Dataset for research of B-chromosomes.
Anth 4B Trinity Jun 2014 81,209 97.54 Mbp
Description: Dataset for research of B-chromosomes
TrSc 4B Trinity Jun 2014 87,987 112.18 Mbp
Description: Dataset for research of B-chromosomes
Rye Bchromosome contigs Jan 2011 75,827 26.06 Mbp
Description: Assembly results computed at the HMGU for the dataset - All Reads from sorted Rye B chromosomes

Rye proteins

File Name Version Date Source Pubmed ID #Sequences #Bases
Secale cereale Lo7 - HC proteins v1 Feb 2019 33737754 34,441 14.73 Mbp
Secale cereale Lo7 - LC proteins v1 Feb 2019 33737754 22,781 4.83 Mbp
Secale cereale Lo7 - all proteins v1 Feb 2019 33737754 57,222 19.56 Mbp
RYE-SELECT Lo7 gene models version 3 v3 Mar 2016 27,784 8.62 Mbp

Wheat

File Name Version Date Source Pubmed ID #Sequences #Bases
Wheat cv. 'Chinese Spring' Pseudomolecules iwgsc_refseq_v1.0 Oct 2016 22 14.55 Gbp
Wheat cv. 'Chinese Spring' HC and LC transcripts iwgsc_refseq_v1.0 May 2017 269,583 276.62 Mbp
Wild emmer 'Zavitan' v2 Dec 2015 ENA 28684525 15 10.51 Gbp
Description: Tetraploid wild emmer cv. 'Zavitan' pseudomolecules (Dec 2015)

Wheat pan-genome

File Name Version Date Source Pubmed ID #Sequences #Bases
Arina Lrfor Pseudomolecules v3.0 Aug 2018 ENA 33239791 135,719 14.65 Gbp
Description: Triticum aestivum cv. 'Arina Lrfor' pseudomolecules and unlocalised scaffolds
Wheat cv. 'Arina Lrfor' gene projection CDS v3.0 33239791 120,967 139.5 Mbp
Wheat cv. 'Cadenza' scaffolds v1.1 1,065,576 14.08 Gbp
Wheat cv. 'Clair' scaffolds v1.1 1,216,421 14.3 Gbp
Wheat cv. 'Jagger' Pseudomolecules v1.1 May 2018 ENA 33239791 138,393 14.54 Gbp
Wheat cv. 'Jagger' gene projection CDS v1.1 33239791 119,461 138.31 Mbp
Wheat cv. 'Julius' Pseudomolecules v1.0, MAGIC3 Aug 2017 ENA 33239791 98,541 14.39 Gbp
Wheat cv. 'Julius' gene projection CDS v1.0, MAGIC3 33239791 119,135 138.05 Mbp
Wheat cv. 'Lancer' Pseudomolecules v1.0 Nov 2018 ENA 33239791 119,569 14.28 Gbp
Wheat cv. 'Longreach Lancer' gene projection CDS v1.0 33239791 120,045 138.8 Mbp
Wheat cv. 'CDC Landmark' Pseudomolecules v1.0 Aug 2017 ENA 33239791 106,140 14.43 Gbp
Wheat cv. 'CDC Landmark' gene projection CDS v1.0 33239791 119,027 138.24 Mbp
Wheat cv. 'Mace' Pseudomolecules v1.0 Nov 2018 ENA 33239791 119,606 14.35 Gbp
Wheat cv. 'Mace' gene projection CDS v1.0 Jul 2019 33239791 119,772 138.75 Mbp
Wheat cv. 'Norin61' Pseudomolecules v1.1 Mar 2019 ENA 33239791 21,465 14.91 Gbp
Wheat cv. 'Norin61' gene projection CDS v1.1 33239791 118,734 138.08 Mbp
Wheat cv. 'Paragon' scaffolds v1.1 1,254,002 14.44 Gbp
Wheat cv. 'Robigus' scaffolds v1.1 1,079 455.67 Mbp
Wheat cv. 'SY Mattis' Pseudomolecules v1 Oct 2018 ENA 33239791 705,997 14.88 Gbp
Wheat cv. 'Chinese spring' gene projection CDS v1 33239791 123,075 142.1 Mbp
Triticum spelta accession PI:190962 Pseudomolecules v1.0 May 2019 ENA 33239791 145,069 14.44 Gbp
Triticum spelta accession PI:190962 gene projection CDS v1.0 33239791 120,104 138.71 Mbp
Wheat cv. 'CDC Stanley' Pseudomolecules v1.2 Sep 2018 ENA 33239791 104,381 14.46 Gbp
Wheat cv. 'CDC Stanley' gene projection CDS v1.2 33239791 119,377 138.5 Mbp
Wheat cv. 'Weebill 1' Scaffolds v1 1,411,939 14.2 Gbp

Wheat pan-genome proteins

File Name Version Date Source Pubmed ID #Sequences #Bases
Wheat cv. 'Arina Lrfor' gene projection proteins v3.0 33239791 120,967 46.5 Mbp
Wheat cv. 'Jagger' gene projection proteins v1.1 33239791 119,461 46.1 Mbp
Wheat cv. 'Julius' gene projection proteins v1.0 33239791 119,135 46.01 Mbp
Wheat cv. 'Longreach Lancer' gene projection proteins v1.0 33239791 120,045 46.26 Mbp
Wheat cv. 'CDC Landmark' gene projection proteins v1.0 33239791 119,027 46.08 Mbp
Wheat cv. 'Mace' gene projection proteins v1.0 33239791 119,772 46.25 Mbp
Wheat cv. 'Norin61' gene projection proteins v1.1 33239791 118,734 46.02 Mbp
Wheat cv. 'Chinese spring' gene projection proteins v1.0 33239791 123,075 47.37 Mbp
Triticum spelta accession PI:190962 gene projection proteins v1.0 33239791 120,104 46.23 Mbp
Wheat cv. 'CDC Stanley' gene projection proteins v1.2 33239791 119,377 46.16 Mbp