Species / Fishes / Zebrafish

Zebrafish

Danio rerio
Fishes
5.5 yrs
Max Lifespan
500 mg
Adult Weight
SP084
Species ID
13
Tissues
📊Statistics 🧬Analysis
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Species Overview

A small freshwater cyprinid (family Danionidae) native to South Asia (India, Bangladesh, Nepal, Myanmar). Adults measure 3–5 cm and weigh <1 g. They have a fusiform body with five distinctive horizontal blue-and-silver stripes running from head to tail, giving them their name. They are one of the most important vertebrate model organisms in biology. Their advantages include: (1) transparent embryos allowing live imaging of development; (2) rapid external development (embryogenesis in ~24 hours); (3) high fecundity (200–300 eggs per female per week); (4) short generation time (~3 months); (5) genetic tractability (mutagenesis, transgenics, CRISPR); (6) extensive genomic resources (genome sequenced 2013, 2n=50, ~26,000 genes, ~70% with human orthologs). They are used in genetics, developmental biology, neuroscience, drug screening, toxicology, cancer, cardiovascular disease, and regenerative medicine (they can regenerate heart, fins, retina, and brain). They inhabit shallow, slow-flowing streams and rice paddies. Omnivorous: insects, zooplankton, and algae. Lifespan: 3–5 years. Thousands of mutant and transgenic lines exist. IUCN: Least Concern.
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Integrated UMAP Atlas & Gene Explorer

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UMAP Atlas Not Available
The UMAP atlas data for Zebrafish is not yet available.
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View by System

Biological System Atlas
9Systems
Cardiovascular system
Cardiovascular system
ID: sys03
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Digestive system
Digestive system
ID: sys05
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Immune system
Immune system
ID: sys02
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Motor system
Motor system
ID: sys08
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Nervous system
Nervous system
ID: sys01
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Reproductive system
Reproductive system
ID: sys06
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Respiratory system
Respiratory system
ID: sys04
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Sensory system
Sensory system
ID: sys10
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Urinary system
Urinary system
ID: sys09
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View by Tissue

Tissue-Level Cell Distribution
13Tissues
Heart
Heart
ID: sys03tis03System: Cardiovascular system
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Kidney
Kidney
ID: sys09tis01System: Urinary system
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Liver
Liver
ID: sys05tis01System: Digestive system
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Ovary
Ovary
ID: sys06tis06System: Reproductive system
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PBMC
PBMC
ID: sys02tis03System: Immune system
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Retina and pigment epithelium
Retina and pigment epithelium
ID: sys01tis19System: Nervous system
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Skeletal muscle
Skeletal muscle
ID: sys08tis01System: Motor system
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Skin
Skin
ID: sys10tis02System: Sensory system
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Spleen
Spleen
ID: sys02tis04System: Immune system
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Testis
Testis
ID: sys06tis01System: Reproductive system
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Tissue 5
Tissue 5
ID: sys04tis05
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Tissue 5
Tissue 5
ID: sys08tis05
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Whole brain
Whole brain
ID: sys01tis16System: Nervous system
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View by Cell Type

Cellular Composition Explorer
39Cell Types
Acinar cells
Acinar cells
Abbr: AcinarMajor: Epithelial cell…
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Adipocytes
Adipocytes
Abbr: AdipoMajor: Stromal cells
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Astrocytes
Astrocytes
Abbr: AstroMajor: Neural cells
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B cells
B cells
Abbr: BMajor: Immune cells
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Cardiomyocytes
Cardiomyocytes
Abbr: CardioMajor: Muscle cells
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Cone cells
Cone cells
Abbr: ConeMajor: Neural cells
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Dendritic cells
Dendritic cells
Abbr: DCMajor: Immune cells
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Endothelial cells
Endothelial cells
Abbr: EndoMajor: Endothelial cel…
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Enterocytes
Enterocytes
Abbr: EnteroMajor: Epithelial cell…
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Epithelial cells
Epithelial cells
Abbr: EpiMajor: Epithelial cell…
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Erythroid cells
Erythroid cells
Abbr: EryMajor: Immune cells
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Fibroblasts
Fibroblasts
Abbr: FibroMajor: Stromal cells
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Goblet cells
Goblet cells
Abbr: GobletMajor: Epithelial cell…
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Granulosa cells
Granulosa cells
Abbr: GranulosaMajor: Stromal cells
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Hematopoietic stem and progenitor cells
Hematopoietic stem and progenitor cells
Abbr: HSPCMajor: Immune cells
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Hepatocytes
Hepatocytes
Abbr: HepMajor: Epithelial cell…
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Homeostatic chondrocytes
Homeostatic chondrocytes
Abbr: HomCMajor: Stromal cells
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Intercalated cells
Intercalated cells
Abbr: ICMajor: Epithelial cell…
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Keratinocytes
Keratinocytes
Abbr: KCMajor: Epithelial cell…
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Kupffer cells
Kupffer cells
Abbr: KupfferMajor: Immune cells
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Macrophages
Macrophages
Abbr: MacroMajor: Immune cells
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Major001CT002B
Major001CT002B
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Major002CT002B
Major002CT002B
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Major006CT003A
Major006CT003A
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Mast cells
Mast cells
Abbr: MastMajor: Immune cells
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Melanocytes
Melanocytes
Abbr: MelanocyteMajor: Epithelial cell…
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Microglia
Microglia
Abbr: MicrogliaMajor: Immune cells
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Monocytes
Monocytes
Abbr: MonoMajor: Immune cells
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Muller cells
Muller cells
Abbr: MullerMajor: Neural cells
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Natural killer cells
Natural killer cells
Abbr: NKMajor: Immune cells
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Oligodendrocytes
Oligodendrocytes
Abbr: OligoMajor: Neural cells
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Other stromal cells
Other stromal cells
Abbr: StromalXMajor: Stromal cells
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Pancreas islet cells
Pancreas islet cells
Abbr: IsletMajor: Epithelial cell…
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Proximal tubule cells
Proximal tubule cells
Abbr: PTMajor: Epithelial cell…
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Retinal pigmentary epithelial cells
Retinal pigmentary epithelial cells
Abbr: RPEMajor: Epithelial cell…
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Rod cells
Rod cells
Abbr: RodMajor: Neural cells
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Spermatocytes
Spermatocytes
Abbr: SpermatocyteMajor: Germ cells
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Spermatogonia
Spermatogonia
Abbr: SpermatogoniaMajor: Germ cells
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T cells
T cells
Abbr: TMajor: Immune cells
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View Datasets

Species-Related Single-Cell Datasets
21Datasets
DataID ↕ Latin Name ↕ Folder ID ↕ Tissue ↕ Title ↕ Detail QC Analysis
Data0105 Danio rerio Danio_rerio_34660600_2021_Rank002 Brain Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0104 Danio rerio Danio_rerio_34660600_2021_Rank001 Blood Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0107 Danio rerio Danio_rerio_34660600_2021_Rank004 Eye Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0117 Danio rerio Danio_rerio_34660600_2021_Rank014 Spleen Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0109 Danio rerio Danio_rerio_34660600_2021_Rank006 Heart Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0108 Danio rerio Danio_rerio_34660600_2021_Rank005 Gill Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0112 Danio rerio Danio_rerio_34660600_2021_Rank009 Liver Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0119 Danio rerio Danio_rerio_34660600_2021_Rank016 Testis Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0115 Danio rerio Danio_rerio_34660600_2021_Rank012 Ovary Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0114 Danio rerio Danio_rerio_34660600_2021_Rank011 Muscle Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0106 Danio rerio Danio_rerio_34660600_2021_Rank003 Caudal fin Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0111 Danio rerio Danio_rerio_34660600_2021_Rank008 Kidney Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0116 Danio rerio Danio_rerio_34660600_2021_Rank013 Skin Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0110 Danio rerio Danio_rerio_34660600_2021_Rank007 Intestine&Pancreas Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0113 Danio rerio Danio_rerio_34660600_2021_Rank010 Mergeall Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0118 Danio rerio Danio_rerio_34660600_2021_Rank015 Swim bladder Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0120 Danio rerio Danio_rerio_34660600_2021_Rank017 Z24h Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data0121 Danio rerio Danio_rerio_34660600_2021_Rank018 Z72h Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution. QC Analysis
Data1189 Danio rerio Danio_rerio_31835035_2019_Rank0001 Brain Cross-Species Single-Cell Analysis Reveals Divergence of the Primate Microglia Program QC Analysis
Data1190 Danio rerio Danio_rerio_34824389_2022_Rank0001 Brain Gene family evolution underlies cell-type diversification in the hypothalamus of teleosts QC Analysis
Data1410 Danio rerio BS0000114;BS0000118 Brain Cross-Species Single-Cell Analysis Reveals Divergence of the Primate Microglia Program;Gene family evolution underlies cell-type diversification in the hypothalamus of teleosts QC Analysis

📄 Overview

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