GeneList | About

GeneList makes it easy to navigate research resources for each gene in a list

Paste a list of gene identifiers and get every gene back with links to the resources below, for 170 genomes. Nothing about your searches is saved.

Literature and identifiers

Structure and pathways

Expression and disease

Model organism databases appear on the genomes they cover:

The VEuPathDB sites — VectorBase, FungiDB, PlasmoDB, TriTrypDB, ToxoDB, CryptoDB, TrichDB, AmoebaDB and GiardiaDB — now ask for a free account before they will show a gene page.

Searching

Type or paste identifiers into the Input panel, one per line, then press Update. The Example button below the box fills it with up to ten random protein-coding genes if you would like something to try.

You can search by:

Gene symbols — CCNE1. Retired symbols and synonyms are resolved where they are known: 68,094 for human, and 28,837 community gene names across seventeen further genomes — among them Medicago truncatula, Arabidopsis, rainbow trout, Streptomyces coelicolor and Vibrio cholerae — whose genes are otherwise stored under their identifiers alone. lsr2 finds SCO3375; redD finds SCO5877.
Ensembl, UniProt or Entrez identifiers — ENSG00000105173, P24864.
Gene Ontology terms — GO:0006281 returns every gene annotated with the term.
Genomic coordinates — chr1:10000-5000000 returns the protein-coding genes that fall entirely within that range on the selected genome's assembly. Non-coding genes in the window are not returned: this example spans 224 genes, of which 78 are protein-coding.

Anything typed into Search Addition is added to the PubMed, Google Scholar and OpenAlex searches. Entering TP53 with cancer alongside it links to the literature for both together.

Genomes

The species picker takes either name — rat and Rattus norvegicus are the same genome — and the filter box matches on common name, scientific name or assembly. Most gene annotations come from Ensembl BioMart; the bacteria, viruses and cotton come from Ensembl Bacteria and NCBI instead, as Data quality sets out. Each genome names the assembly its coordinates are on.

The list is also published at /genomes.json, which is what the R and Python packages read.

Your results

Each gene comes back as a panel of links. Expand one with the on its right to see everything above for that gene, and collapse it again with the . A resource with no identifier for that gene is shown in red rather than left out, so the columns stay in the same order for every gene.

The menu at the top right of the results panel () will download the list as a CSV of symbols and Ensembl, Entrez and UniProt identifiers, build a printable PDF report, or send the whole list on to Reactome, g:Profiler, GeneMANIA, Complex Portal or Perplexity AI.

From R and Python

Both packages take a vector or list of identifiers and open it here.

GeneList for R — gene_list(genes, genome = "mouse")
GeneList for Python — genelist.gene_list(genes, genome="mouse")

Linking to a list

A search is a URL, so a list can be linked to directly, with an optional genome and search term:

https://www.gene-list.com/search/TRP53,KRAS,KIT?genome=mouse&search_term=Cancer

The dataset

Every count below is generated from the same database a search reads, September 2026 snapshot. Per-genome numbers, assemblies and the files themselves are on the Downloads page.

170genomes

4,016,971gene records

66.2MGO annotations

32,979GO terms

Composition of the 4,016,971 gene records, in legend order: 75.9% protein-coding, 9.3% long non-coding, 11.4% small ncRNA, 2.8% pseudogene, 0.6% other — **Figure 1.** What the 4,016,971 gene records are: just over three-quarters protein-coding, with small non-coding RNA and long non-coding genes the largest of the remaining classes. Classes group the source biotypes, Ensembl's or NCBI's; pseudogene gathers every pseudogene biotype, and other includes the records their source publishes with none. SVG

Figure 2. The 170 genomes: gene counts, coloured by the classes of Figure 1; composition as a share of each genome; and the share of protein-coding genes carrying at least one GO annotation. The axolotl is the largest genome at 135,668 genes and hepatitis B virus the smallest at 4. Genomes are ordered by gene count within each group. SVG

Data quality

Gene records are retrieved per genome from Ensembl BioMart — the main mart for the vertebrates, the division marts for plants, metazoa, fungi and protists — or, for most of the bacteria and viruses and a few eukaryotes, from Ensembl Bacteria and NCBI, whose annotations carry the locus tags their communities use. That is RefSeq, except where RefSeq has renamed those tags and the GenBank annotation keeps them. Gene Ontology annotations come from the combined per-organism GMT files published by g:Profiler where its files match the genome version here; the rest load theirs from Ensembl BioMart or from UniProt's GO annotations, and E. coli's come from the GO Consortium's EcoCyc release. Across the 170 genomes that is close to 4.0 million gene records and 66 million GO annotations over more than 32,000 terms. The assembly each genome's coordinates refer to is named on the Downloads page.

Two things are worth knowing about what those records contain. Just under half carry no description, because most sources write one only for the genes they have curated: human, mouse and the other model organisms are close to complete, while nearly every wheat and rice record has none. Where a genome's own source publishes no description for any of its genes, the protein name from UniProt stands in — Chlamydomonas reinhardtii had none at all and now has one on 96% of its records. And where a source publishes no gene symbol, which is the majority of records in 98 of the genomes, the identifier is the display label; for fourteen of those genomes the community names that do exist are loaded as synonyms, so the gene answers to both.

Four rules are applied on import:

Identity is the stable identifier, not the symbol. Records are keyed on the stable identifier — the Ensembl gene id, or the community locus tag for the genomes imported from NCBI — so a symbol revised between releases does not produce a second record.
The primary assembly takes precedence. Where a gene is annotated on both the primary assembly and an alternative haplotype or patch contig, the primary assembly's coordinates and UniProt accession are the ones retained. Genes annotated only on an alternative contig are kept rather than discarded with the duplicates.
A missing symbol falls back to the identifier. Where a genome publishes no symbol, which is the majority of records in 98 of the genomes — most of the plants and nearly every bacterium and archaeon, but also many of the insects, protists and fungi, and a few vertebrates — that identifier is used as the display label so that the record is still findable. It is a label, not an assertion of nomenclature.
GO annotations are matched on gene identifier and retained only where the identifier resolves against that genome's gene table. An import in which fewer than half the file's genes resolve is refused rather than partially loaded, that being what a file built on a different assembly looks like.

Currency and reproducibility. This is a snapshot rather than a mirror. Each genome reflects the source release current at the time it was imported — an Ensembl release for most, an NCBI assembly for the bacteria, viruses and cotton; releases are not pinned, and the genomes were not all imported together, so the collection is not a single coherent release. Identifiers are retired and reassigned between releases, so a list resolved here today may resolve differently later. For work that must be reproducible, take the gene table and GMT for the genomes you used and keep them with the result; for work that must be current, go to the sources named above directly. Either way the primary sources are the ones to cite.

Coverage. All but 2 of the 170 genomes have GO annotations loaded: Red-eared slider and Iberian ribbed newt have none, because what their sources publish is too sparse to key against the gene table — the ribbed newt has 137,856 UniProt entries and a gene name on 197 of them. Most come from g:Profiler's per-organism files; where g:Profiler does not cover an organism, or builds its file on a different genome version, the annotations come from Ensembl BioMart, from UniProt's GO annotations (the viruses, the bacteria other than E. coli, and cotton), or from the GO Consortium's EcoCyc release (E. coli). Annotation depth follows those files rather than any re-derivation here, so the semantics of a term's gene set are the source's. Not every resource covers every species, and one that covers a species may hold nothing for a particular gene: a red cell on a gene panel means the identifier that resource needs is absent for that gene, not that the gene is uncharacterised.

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