Fourmidable A database for ant genomics.


Download FASTA, GFF, VCF, gene ontology files of ant genome data.

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Formicidae

Apidae

Tenthredinidae

Cephidae

Agaonidae

Encyrtidae

Braconidae

Halictidae

Megachilidae

Pteromalidae

Diprionidae

Orussidae

Trichogrammatidae

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Annotations

These include gene coordinates (in a GFF file) and functional annotations (in tab separated txt file). If you don't think you need these, you probably don't.

GFF files that also contain coordinates of EST and homology annotation (to facilitate manual inspection in Apollo) are not publicly available ...

Genome

The following are fasta files of genome scaffolds. This is probably what you want. Each scaffold is a set of one or more contigs joined by sequences of Ns that represent gaps.

Proteins

Also known as "OGS": Official Gene Sets.

Reads/genome/paired/20kb

Paired end Roche 454 reads: 20,000bp insert library.

Reads/genome/paired/8kb

Paired end Roche 454 reads: 8,000bp insert library.

Reads/genome/shotgun

Roche 454 Shotgun data (single-end reads).

Roche 454 reads are also available at Sequence Read Archive for downloads as FASTA and FASTQ (some of these are paired).

2*330bp insert Illumina reads of different lengths available at Sequence Read Archive.

Snp

These include SNP annotations, typically in a VCF file.

Transcripts

These include predicted coding sequence corresponding to the official protein sets above as well as RNA/EST sequences obtained by sequencing and assembly.

CDS predictions corresponding to predicted proteins can also be generated from genome + GFF.