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Fish

Resources include sequences, annotations, and comparative vertebrate genomics for various species of fish.

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DOE Joint Genome Institute Genome PortalDatabase Content

http://genome.jgi-psf.org/

Model Organisms > Fish
Model Organisms > General Resources
Model Organisms > Microbes
Model Organisms > Other Organisms
Model Organisms > Plants

The Joint Genome Institute Genome Portal contains browseable and blastable genome assemblies for several organisms, including Pufferfish, Frog, and Sea squirt.

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ECR BrowserTool Content

http://ecrbrowser.dcode.org/

Model Organisms > Fish
Model Organisms > Fly
Model Organisms > Mouse and Rat
Model Organisms > Other Vertebrates
Sequence Comparison > Analysis of Aligned Sequences

The ECR (Evolutionary Conserved Regions) browser is a web-based tool for visualizing and navigating through whole genome alignments of several vertebrate species. Users can also submit sequences for alignment with one of the genomes represented.

NAR Web Server Issue 2004
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tagsanimals binding sites dna sequence analysis fishes genome genomics humans mice nucleic acid regulatory sequences rats sequence alignment synteny systems integration transcription factors

Ensembl Fugu Genome BrowserDatabase Content

http://www.ensembl.org/Fugu_rubripes/

Model Organisms > Fish

Fugu Ensembl is a joint project between The IMCB and the EMBL - EBI to produce and maintain an automatic annotation of the Fugu Genome.

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tagscomputational biology database management systems dna sequence analysis genetic databases human genome humans systems integration

Ensembl Zebrafish Genome BrowserDatabase Content

http://www.ensembl.org/Danio_rerio/

Model Organisms > Fish

This ensembl website features the zebrafish whole genome shotgun assembly sequence.

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tagscomputational biology database management systems dna sequence analysis genetic databases human genome humans systems integration

IMCB - Fugu Genome ProjectTool Content

http://www.fugu-sg.org/

Model Organisms > Fish

Lots of information on fugu including complete draft sequence, annotations, comparative vertebrate genomics, phylogenies, publications, and information about the fugu genome project; has some very useful tools including annotation tools, an Ensembl mirror, and BLAST.

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tagsanimals base sequence biological evolution computational biology conserved sequence cosmids dna dna sequence analysis dna transposable elements exons factual databases fish proteins fishes gene duplication gene library gene order genetic models genome genomics human genome humans introns japan mammals microsatellite repeats molecular evolution molecular sequence data nucleic acid repetitive sequences open reading frames phylogeny physical chromosome mapping poisonous fishes proteins proteome research satellite dna sequence alignment synteny takifugu vertebrates

TIGR Gene IndicesTool Content

http://compbio.dfci.harvard.edu/tgi/

Expression > cDNA, EST, SAGE
Human Genome > Other Resources
Model Organisms > Fish
Model Organisms > Fly
Model Organisms > General Resources
Model Organisms > Mouse and Rat
Model Organisms > Other Organisms
Model Organisms > Other Vertebrates
Model Organisms > Worm

An analysis of a set of unique, highly accurate virtual transcripts that are represented in the worlds public EST data; can perform a BLAST search against the TIGR unique Gene Indices.

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tagsanimals base sequence database management systems dna expressed sequence tags factual databases genes human genome project humans molecular sequence data nucleic acid sequence homology sequence alignment species specificity

UCSC Fugu Genome Browse GatewayTool Content

http://genome.ucsc.edu/cgi-bin/hgGateway?org=Fugu&db=0&hgsid=27736277

Model Organisms > Fish

Provides a rapid and reliable display of any requested portion of the Fugu genome at any scale, together with dozens of aligned annotation tracks.

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tagsanimals california database management systems genetic databases genomics human genome humans mice

Vega Annotation BrowserTool Content

http://vega.sanger.ac.uk

Human Genome > Annotations
Model Organisms > Fish
Model Organisms > Mouse and Rat
Model Organisms > Other Vertebrates

In collaboration with the genome sequencing centres, Vega attempts to present consistent high-quality curation of finished sequence.

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tagsanimals chromosome mapping dna sequence analysis genetic databases vertebrates

ZFINDatabase Content

http://zfin.org/cgi-bin/webdriver?MIval=aa-ZDB_home.apg

Model Organisms > Fish

The Zebrafish Information Network (ZFIN). ZFIN serves as the zebrafish model organism database.

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Tags associated with subcategory 'Model Organisms/Fish'

humans animals dna sequence analysis genetic databases base sequence human genome computational biology database management systems sequence alignment factual databases molecular sequence data genomics genome open reading frames systems integration genes human genome project transcription factors dna expressed sequence tags mice california nucleic acid sequence homology rats vertebrates takifugu genetic models introns poisonous fishes microsatellite repeats synteny research nucleic acid repetitive sequences species specificity phylogeny physical chromosome mapping proteome proteins fishes nucleic acid regulatory sequences chemical dictionaries bacterial genome gene expression initiator codon probability peptides molecular models bacterial genes archaeal genome amino acid motifs algorithms binding sites amino acid sequence archaeal genes anti-infective agents amino acid sequence homology protein conformation protein databases gene library gene duplication gene order japan satellite dna molecular evolution mammals exons cosmids ubiquitin sequence analysis secondary protein structure chromosome mapping biological evolution fish proteins dna transposable elements conserved sequence