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  www.nothobranchius.info www.nothobranchius.info NFINgb Nothobranchius furzeri Genome Browser  
 

The Nothobranchius furzeri Information Network Genome Browser (NFINgb) provides access to the latest genome assembly and annotation of the short-lived teleost fish Nothobranchius furzeri generated by the Genome Analysis group of the Leibniz Institute on Aging - Fritz Lipmann Institute.

The following genome assemblies are currently maintained in NFINgb:

AssemblyAccessionSequencesTotal lengthN50Access
GRZ Assembly (05/2015)PRJEB5837 (NCBI, ENA)*5,8961.24Gb57.3MbClick here

* Note: The assembly there is named "Nfu_20140520" but is identical with the version listed here (05/2015)

Downloads

Genome sequence, gene and repeat annotation and variation are available for download:

GRZ Assembly (05/2015)

DescriptionFormat
Sequence
Genome sequence, with repeats masked softmasked FASTA, hardmasked FASTA
Protein sequences (gene models 22.09.2015; 59,154 sequences) FASTA
Protein-coding transcript sequences (gene models 22.09.2015; 59,154 sequences) FASTA
CDS sequences (gene models 22.09.2015; 59,154 sequences) FASTA
Independent PacBio BAC assemblies of X and Y allels at the sex determining region (see Supplemental Data S1I) FASTA
Annotation
Dispersed repeats, identified by Repeatmasker GFF3
Tandem repeats, identified by TandemRepeatsFinder GFF3
Models of protein-coding and non-protein-coding genes (22.09.2015; 27,552 genes) GFF3, GTF
Models of protein-coding genes, subset (30.06.2014; 26,141 genes) GFF3, GTF
Models of protein-coding genes, subset (22.04.2014; 23,546 genes) GFF3, GTF
Noncoding elements conserved in N. furzeri, medaka, platyfish, stickleback, tetraodon and zebrafish GFF3
Tab-separated table of protein-coding gene models (22.09.2015) CSV
Gene Ontology ids and terms for protein-coding gene models (22.09.2015) CSV
Variation
Variation and genotypes in GRZ VCF
Variation and genotypes in MZM-0410 VCF
Variation and genotypes in MZM-0403 VCF
Variation and genotypes in MZZW-0701 VCF

Publication

Please cite the following publication if you use data from this browser:
Reichwald, K, et al.: Insights into Sex Chromosome Evolution and Aging from the Genome of a Short-Lived Fish, Cell, Volume 163, Issue 6, 3 December 2015, Pages 1527-1538, ISSN 0092-8674, doi: 10.1016/j.cell.2015.10.071.

Further Links

NFINtb Nothobranchius furzeri Transcriptome Browser
NFINbl Nothobranchius furzeri BLAST server
The Nothobranchius furzeri Information Network website

Contact, Imprint and Disclaimer

If you need help with using this web site or the genome browser, please contact nfinhelp@nothobranchius.info.
Imprint & disclaimer

 
 
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