General Information

ZFIN Data Reports from: 1 Sep 2014

Warranty Disclaimer and Copyright Notice  
ZFIN data reports are updated every day of the week at 10:10pm PST with the exception of the externally hosted files. The format for each file is described below. All files use tab as the field delimiter. The 'Download File' link will display the file in your browser. Click the download button to save the file onto your local system (includes timestamp and header info). If you choose to link to a ZFIN data page from your web site, append the ZFIN ID to the URL
for the 'shha' gene. Please direct questions or requests for additional data to ZFIN.
View Archive Files
Category Download File Download
w Header
Column Headers File Size Number of Records
Anatomical Ontologies Zebrafish Anatomy Term
206 KB 2,884
Zebrafish Anatomy Term Relationships
170 KB 5,456
Zebrafish Anatomy Term Synonyms
140 KB 2,661
Zebrafish Development Stage Terms
315 KB 13,380
Zebrafish Stage Series
2 KB 45
Antibody Data Antibodies
129 KB 1,616
Antibody Expressions in wild-type
280 KB 5,038
Fish Fish Components
10 MB 63,718
Gene Expression Expression data for wildtype fish
25 MB 158,735
Expression Environment Description
581 KB 9,169
Expression Experiment-Figure
15 MB 266,542
Zebrafish Gene Expression by Stage and Anatomy Term
24 MB 257,340
ZFIN Antibody Expression Assay Records
1 MB 8,359
ZFIN Genes with Expression Assay Records
9 MB 78,733
Genetic Marker Relationships Genetic Marker Relationships
9 MB 94,976
Genetic Markers Genetic Marker
9 MB 148,348
Previous ZFIN IDs
(includes former and current ZFIN IDs for merged data)
1 MB 33,203
SNP Data
135 MB 2,370,287
Genomic Feature Data All Genomic Features
4 MB 39,722
Construct Components
1 MB 8,503
Genomic Features and their affected genes
(alleles, deficiencies, translocations)
2 MB 25,116
Transgenic Insertions
2 MB 27,158
Genotype Data Genotype Backgrounds
438 KB 7,392
Genotype Features
3 MB 22,098
Genotype Features (removed or displaced genes)
20 KB 215
Genotype-Publication relation
1 MB 34,917
Image Data Image-Figure translations
Note: Images are not provided due to copyright restrictions
4 MB 91,139
Knockdown Reagent Data CRISPR
8 KB 60
1 MB 6,901
24 KB 181
Mapping Data Mapping Data from the 6 Zebrafish Mapping Panels
1 MB 26,654
Orthology Data Drosophila and Zebrafish Orthology
5 KB 59
Human and Zebrafish Orthology
1 MB 15,247
Mouse and Zebrafish Orthology
1 MB 12,549
Phenotypic Zebrafish genes with Human Orthology
115 KB 2,718
Phenotype Data Genotype-Figure relation
821 KB 22,345
Genotypes with Phenotypes
12 MB 86,371
Genotypes with Phenotypes
18 MB 83,549
Phenotype Environment Description
608 KB 10,064
Phenotype for Zebrafish genes with fin phenotype
258 KB 1,031
Phenotype for Zebrafish genes with Human Orthology
4 MB 37,279
Phenotype of Zebrafish Genes
16 MB 67,852
Previous Names Previous Names
9 MB 131,654
Publications Gene-Publication relation
18 MB 330,636
ZFIN Bibliography
4 MB 17,063
ZFIN Marker IDs / UniProtKB IDs to ZFIN Pub IDs & PubMed IDs
4 MB 66,527
ZFIN Publication IDs: ZFIN IDs to PubMed IDs
551 KB 21,198
Sequence Coordinates Assembly: Ensembl
8 MB 56,754
Complete Assembly Clones: Ensembl
3 MB 33,167
Transgenic Insertion: ENSEMBL
2 MB 15,223
ZFIN Genes with Antibodies: Ensembl
62 KB 583
ZFIN Genes with Expression: Ensembl
1 MB 9,715
ZFIN Genes with Phenotype: Ensembl
265 KB 2,453
ZFIN Genes: Ensembl
3 MB 21,392
ZFIN Morpholinos: Ensembl
530 KB 4,530
Sequence Data Transcripts
4 MB 48,358
ZFIN Gene IDs indirectly and directly associated with Sequence Accessions via cDNA & EST
4 MB 94,010
ZFIN Gene IDs indirectly associated with Sequence Accessions via cDNA & EST
1 MB 41,497
ZFIN Marker associations to Ensembl IDs
(Only associations with 1:1 relationships between ZFIN marker IDs and Ensembl IDs are stored in ZFIN. All associations can be obtained using BioMart
1 MB 19,705
ZFIN Marker associations to GenBank sequence data
5 MB 119,763
ZFIN Marker associations to GenPept protein data
2 MB 44,665
ZFIN Marker associations to InterPro protein data
128 MB 2,691,158
ZFIN Marker associations to NCBI Gene data
994 KB 21,430
ZFIN Marker associations to RefSeq sequence data
3 MB 62,206
ZFIN Marker associations to Sanger Vega data
2 MB 35,114
ZFIN Marker associations to UniGene sequence data
918 KB 20,442
ZFIN Marker associations to UniProt protein data
2 MB 49,367
Wildtype Lines Wildtype Lines
1006 bytes 29
ZFIN Identifiers ZFIN Identifiers
18 MB 217,997

Externally Hosted Files:

The 'File Name'-links point to the latest version. To obtain previous versions you have to check the archive of the external source.
Category Description External Source File Name Update Frequency Format / Header
Gene Ontology Data Gene Ontology (GO) Annotations of Zebrafish Markers
(see also GO Annotation File format at the Gene Ontology Consortium) gene_association.zfin.gz weekly
Anatomical Ontologies Zebrafish Anatomical Ontology in OBO Format Obofoundry zebrafish_anatomy.obo monthly OBO file format