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Oryza sativa

Asian cultivated rice

taxon 4530

Indigenous / local names

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Sequence records

genome (fasta)

mirrored

Origin: hub

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First synced: 8/26/2026 · Last updated: 8/26/2026

Source: NCBI GCA_936158435.1 · View at source ↗

Sequencing: HiSeq X · Supernova2 · 63x coverage

publiccc0AFDSI-SEQ-131

GoaT: Scaffold assembly · 0.31 Gb · scaffold N50 14,575 · BUSCO 94.7% complete · View at source ↗

Publicly accessible — no request needed.

genome (fasta)

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Origin: hub

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First synced: 9/1/2026 · Last updated: 9/1/2026

Source: NCBI GCA_900609685.1 · View at source ↗

Sequencing: Illumina · SPAdes 3.11.1 · 102x coverage

publiccc0AFDSI-SEQ-804

GoaT: Chromosome assembly · 0.49 Gb · scaffold N50 29,704,550 · 12 chromosomes · View at source ↗

Publicly accessible — no request needed.

genome (fasta)

mirrored

Origin: hub

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First synced: 9/1/2026 · Last updated: 9/1/2026

Source: NCBI GCA_900609755.1 · View at source ↗

Sequencing: Illumina · SPAdes 3.11.1 · 90x coverage

publiccc0AFDSI-SEQ-805

GoaT: Chromosome assembly · 0.49 Gb · scaffold N50 29,704,550 · 12 chromosomes · View at source ↗

Publicly accessible — no request needed.

genome (fasta)

mirrored

Origin: hub

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First synced: 9/1/2026 · Last updated: 9/1/2026

Source: NCBI GCA_900609765.1 · View at source ↗

Sequencing: Illumina · SPAdes 3.11.1 · 178x coverage

publiccc0AFDSI-SEQ-806

GoaT: Chromosome assembly · 0.49 Gb · scaffold N50 29,704,550 · 12 chromosomes · View at source ↗

Publicly accessible — no request needed.

genome (fasta)

mirrored

Origin: hub

0 downloads

First synced: 9/1/2026 · Last updated: 9/1/2026

Source: NCBI GCA_900609795.1 · View at source ↗

Sequencing: Illumina · SPAdes 3.11.1 · 111x coverage

publiccc0AFDSI-SEQ-807

GoaT: Chromosome assembly · 0.49 Gb · scaffold N50 29,704,550 · 12 chromosomes · View at source ↗

Publicly accessible — no request needed.

genome (fasta)

mirrored

Origin: hub

0 downloads

First synced: 9/1/2026 · Last updated: 9/1/2026

Source: NCBI GCA_900609805.1 · View at source ↗

Sequencing: Illumina · SPAdes 3.11.1 · 111x coverage

publiccc0AFDSI-SEQ-808

GoaT: Chromosome assembly · 0.49 Gb · scaffold N50 29,704,550 · 12 chromosomes · View at source ↗

Publicly accessible — no request needed.

genome (fasta)

mirrored

Origin: hub

0 downloads

First synced: 9/1/2026 · Last updated: 9/1/2026

Source: NCBI GCA_900609935.1 · View at source ↗

Sequencing: Illumina · SPAdes 3.11.1 · 78x coverage

publiccc0AFDSI-SEQ-809

GoaT: Chromosome assembly · 0.49 Gb · scaffold N50 29,704,550 · 12 chromosomes · View at source ↗

Publicly accessible — no request needed.

genome (fasta)

mirrored

Origin: hub

0 downloads

First synced: 9/1/2026 · Last updated: 9/1/2026

Source: NCBI GCA_900609955.1 · View at source ↗

Sequencing: Illumina · SPAdes 3.11.1 · 86x coverage

publiccc0AFDSI-SEQ-810

GoaT: Chromosome assembly · 0.49 Gb · scaffold N50 29,704,550 · 12 chromosomes · View at source ↗

Publicly accessible — no request needed.

transcriptome (fasta)

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First synced: 9/3/2026 · Last updated: 9/3/2026

Source: NCBI PX307890.1 · View at source ↗

Released: 2026-07-08

publiccc0AFDSI-SEQ-1030

Publicly accessible — no request needed.

No AlphaFold DB proteome found for this species.

Proteomics (external sources)

PRIDE — project-level reference (metadata only; no per-protein identifications are available via PRIDE's public API)

Proteomics Data of dsRNA-treated rice leaves (PXD081287) ↗AFDSI-PROJREF-232

Phage depolymerase modulates virulence and biofilm in hypervirulent Klebsiella pneumoniae by CPS-mediated suppression of type 3 fimbriae (PXD080233) ↗AFDSI-PROJREF-233

LC-MSMS analysis of crocus sativus at different floral developmental stage. (PXD076029) ↗AFDSI-PROJREF-234

Label-Free Quantification of Nuclear Proteins in Six Plant Species (PXD074734) ↗AFDSI-PROJREF-235

Proteomic Insights into Rice Protein Palmitoylation and Its Role in Cytosolic Translation (PXD073446) ↗AFDSI-PROJREF-236

H2S‑mediated protein persulfidation regulates redox metabolic flux underlying salt stress resilience in rice (PXD072089) ↗AFDSI-PROJREF-237

H2S‑mediated protein persulfidation regulates redox metabolic flux underlying salt stress resilience in rice (PXD072035) ↗AFDSI-PROJREF-238

Co-immunoprecipitation coupled with mass for OsMADS2 in rice (PXD071875) ↗AFDSI-PROJREF-239

Proteomic profiling of rice (Oryza sativa Nipponbare) roots during compatible interaction with the root-knot nematode Meloidogyne graminicola (PXD071707) ↗AFDSI-PROJREF-240

Identification of potential Rsf1 promoter-interacting proteins in rice (Oryza sativa Nipponbare) roots during nematode infection (PXD071646) ↗AFDSI-PROJREF-241

Chemical Profiles (external sources)

ChEMBL rows are compounds active against a protein target from this organism — not confirmed as compounds the species itself produces, unlike ANPDB's.

ChEMBL: CHEMBL344364 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 1.0 cmAFDSI-METABOLOMICS-430

ChEMBL: CHEMBL334618 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 2.0 cmAFDSI-METABOLOMICS-431

ChEMBL: CHEMBL335304 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 2.7 cmAFDSI-METABOLOMICS-432

ChEMBL: CHEMBL433668 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 2.1 cmAFDSI-METABOLOMICS-433

ChEMBL: CHEMBL335030 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 2.4 cmAFDSI-METABOLOMICS-434

ChEMBL: CHEMBL132752 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 2.7 cmAFDSI-METABOLOMICS-435

ChEMBL: CHEMBL135386 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 1.2 cmAFDSI-METABOLOMICS-436

ChEMBL: CHEMBL135202 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 2.6 cmAFDSI-METABOLOMICS-437

ChEMBL: CHEMBL134985 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 2.7 cmAFDSI-METABOLOMICS-438

ChEMBL: CHEMBL138177 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Rice stem length 1.4 cmAFDSI-METABOLOMICS-439

ChEMBL: PROTOCATECHUIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; ID50 0.42 uM/mlAFDSI-METABOLOMICS-440

ChEMBL: METHYL PROTOCATECHUATE (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; ID50 0.28 uM/mlAFDSI-METABOLOMICS-441

ChEMBL: VERATRIC ACID METHYL ESTER (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition %AFDSI-METABOLOMICS-442

ChEMBL: VERATRIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition %AFDSI-METABOLOMICS-443

ChEMBL: ISOVANILLIC ACID METHYL ESTER (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition %AFDSI-METABOLOMICS-444

ChEMBL: ISOVANILLIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition %AFDSI-METABOLOMICS-445

ChEMBL: METHYL VANILLATE (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition %AFDSI-METABOLOMICS-446

ChEMBL: VANILLIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Inhibition %AFDSI-METABOLOMICS-447

ChEMBL: (3,5-DICHLOROPHENYLAMINO)METHYLENEDIPHOSPHONIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 33000.0 nMAFDSI-METABOLOMICS-448

ChEMBL: (4-HYDROXYPHENETHYLAMINO)METHYLENEDIPHOSPHONIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 4470000.0 nMAFDSI-METABOLOMICS-449

ChEMBL: 3-(DIPHOSPHONOMETHYLAMINO)BENZOIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 1800000.0 nMAFDSI-METABOLOMICS-450

ChEMBL: (3-NITROPHENYLAMINO)METHYLENEDIPHOSPHONIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 738000.0 nMAFDSI-METABOLOMICS-451

ChEMBL: 2-(DIPHOSPHONOMETHYLAMINO)NICOTINIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 334000.0 nMAFDSI-METABOLOMICS-452

ChEMBL: (P-TOLYLAMINO)METHYLENEDIPHOSPHONIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 170000.0 nMAFDSI-METABOLOMICS-453

ChEMBL: (CYCLOHEXYLAMINO)METHYLENEDIPHOSPHONIC ACID (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 1110000.0 nMAFDSI-METABOLOMICS-454

ChEMBL: CHEMBL2251373 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 64000.0 nMAFDSI-METABOLOMICS-455

ChEMBL: CHEMBL291736 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; IC50 243000.0 nMAFDSI-METABOLOMICS-456

ChEMBL: CHEMBL2286642 (View at source ↗) — Target organism (ChEMBL) — not confirmed as a compound this species produces; Drug uptake 2.0 ppmAFDSI-METABOLOMICS-457

Metabolic Profiles (external sources)

MetaboLights: Quantitative 1H NMR metabolome profiling of Thai Jasmine rice (Oryza sativa) reveals primary metabolic response during brown planthopper infestation (View at source ↗)AFDSI-METABPROF-60

MetaboLights: Metabolic responses of rice cultivars with different tolerance to combined heat and drought stress under field conditions (View at source ↗)AFDSI-METABPROF-61

MetaboLights: Effects of biodegradable Film Mulching on Yield, Grain Quality, and Soil Metabolic Characteristics of Water-Saving and Drought-Resistant Rice (View at source ↗)AFDSI-METABPROF-62

MetaboLights: Plant elicitor peptide signalling confers rice resistance to piercing-sucking insect herbivores and pathogens (View at source ↗)AFDSI-METABPROF-63

MetaboLights: Metabolite profiling of the fermentation process of yamahai-ginjo-shikomi Japanese sake (View at source ↗)AFDSI-METABPROF-64

MetaboLights: Metabolome-based prediction of yield heterosis contributes to the breeding of elite rice (View at source ↗)AFDSI-METABPROF-192

MetaboLights: Multitrait engineering of Hassawi red rice for sustainable cultivation (View at source ↗)AFDSI-METABPROF-182

MetaboLights: Root exudate metabolomics of PpPEPC1b-overexpressing rice under phosphate deficiency (View at source ↗)AFDSI-METABPROF-183

Cellular & Molecular Imaging (external sources)

BioImage Archive: (View on source archive ↗)AFDSI-CELL-557

BioImage Archive: SeedGerm-VIG Image Series (View on source archive ↗)AFDSI-CELL-558

BioImage Archive: Spatial distribution of three ARGONAUTEs regulates the anther phasiRNA pathway (View on source archive ↗)AFDSI-CELL-556

BioImage Archive: ZEP1 orchestrates template choice and crossover pathways to ensure meiotic genome integrity in rice (View on source archive ↗)AFDSI-CELL-1265

Geographic range (Africa)

46,572 real GBIF-recorded occurrences across Africa — see this species on GBIF ↗.

This reflects real occurrence records submitted to GBIF, not a comprehensive range map — sampling effort varies significantly by country and region, so an absence here doesn't mean the species isn't present.