Nematostella vectensis

Full NameNematostella vectensis
Common NameStarlet Sea Anemone

Cnidaria – the animal phylum that includes sea anemones, corals, jellyfish, and hydra – occupies a critical position in the tree of life. As the simplest Eumetazoans (animals with a tissue grade of organization) they are the most primitive animals with epithelial cells, neurons, stem cells, complex extra-cellular matrix, muscle fibers, and a fixed axis of symmetry. Ediacaran fossils with Cnidarian affinities are among the most ancient animal relics. As the principal architects and components of coral reefs, anthozoans (corals) are responsible for the maintenance of tremendous marine diversity. The sea anemone Nematostella vectensis, a member of the basal class Anthozoa within Cnidaria, is emerging a model system for the molecular dissection of Cnidarian development, providing key “evo-devo” studies to elucidate the emergence, elaboration, and deployment of the basic complement of genes that underlie the formation of animal body plans.

To help illuminate the evolutionary origins of animals we have sequenced the genome of Nematostella, discovering chromosome-scale macrosynteny shared between sea anemones, sponges, and amphioxus, as well as a lack of obvious TADs and extended HOX and NK gene clusters.


Sea anemone genomes reveal ancestral metazoan chromosomal macrosynteny (2020).
Bob Zimmermann, Sofia M.C. Robb, Grigory Genikhovich, Whitney J. Fropf, Lukas Weilguny, Shuonan He, Shiyuan Chen, Jessica Lovegrove-Walsh, Eric M. Hill, Katerina Ragkousi, Daniela Praher, David Fredman, Yehu Moran, Matthew C. Gibson*, and UlrichTechnau*

bioRxiv 2020.10.30.359448; doi:

Feature Summary
The following features are currently present for this organism
Feature TypeCount
Data & Downloads

Nematostella vectensis NV2 (wein_nvec200_tcsv2) transcriptome

This is our most recent trascriptome. It was created by Juan Daniel Montenegro Cabrera and Bob Zimmerman (2021). It is a combination of the KC Isoseq (kc_nvec200_v1) and a large collection of RNAseq data using Tama + Cupcake + Stringtie2 (TCS) to generate gene models.

Transcripts (NV2) NV2 (NV2t) transcript FASTA
Protein (NV2) NV2 (NV2t) protein FASTA
GFF3 (NV2) NV2 aligned to NVEC200 (NV2g,NV2t)
GTF (NV2) NV2 aligned to NVEC200 (NV2g,NV2t)
GO (NV2) NV2 Gene Ontology Terms (NV2t)
Gene Functional Annotations (EggNog) (NV2) Eggnog of NV2 genes (tab del)
Transcript Functional Annotations (Swissprot top hit) (NV2) Top Swissprot/uniprot hit for NV2 transcripts (tab del)
Transcript Ortholog Annotations (OMA) (NV2) Orthologs (OMA 2.5.0) for NV2 transcripts (tab del)

About the ID format

NV2 dataset identifier
g stands for gene
000001 gene number
000 transcript number: will always be 000 for a gene
.1 version 1
NV2 dataset identifier
t stands for transcript
000001 gene number
001 transcript number
.1 version 1

Nematostella vectensis Isoseq (kc_nvec200_v1) transcriptome

This is a transcriptome created by Shuonan He and Cynthia Shiyuan at SIMR using PacBio IsoSeq

Transcripts (NVE) KC Isoseq (kc_nvec200_v1) transcript FASTA
Protein (NVE) KC Isoseq (kc_nvec200_v1) protein FASTA
CDS (NVE) KC Isoseq (kc_nvec200_v1) CDS FASTA
GFF3 (NVE) KC Isoseq aligned to NVEC200 (kc_nvec200_v1)

Nematostella vectensis NVE (wien_nvec200_v1) transcriptome

This is the Vienna (nve) transcriptome.

Transcripts (NVE) NVE (Wien_Nvec200_v1) transcript FASTA
Protein (NVE) NVE (Wien_Nvec200_v1) protein FASTA
GFF3 (NVE) NVE aligned to NVEC200 (Wien_Nvec200_v1)

See Data Analysis page for a listing of the Analyses performed on Nvec200 genome assembly and gene models. The FASTAs and GFF are also there for download as well as other analysis.