Genomic mapping

Species with genomic mapping

Genomic mapping is available for the following 43 species:

Species Assembly
Anopheles gambiae African malaria mosquito AgamP4
Bos taurus cattle ARS-UCD1.2
Plasmodium falciparum ASM276v2
Schizosaccharomyces pombe ASM294v2
Drosophila melanogaster fruit fly BDGP6.32
Gallus gallus chicken bGalGal1.mat.broiler.GRCg7b
Dictyostelium discoideum dicty_2.7
Felis catus domestic cat Felis_catus_9.0
Homo sapiens human GRCh38.p13
Mus musculus mouse GRCm39
Danio rerio zebrafish GRCz11
Macaca mulatta Macaque Mmul_10
Rattus norvegicus Norway rat mRatBN7.2
Pan troglodytes chimpanzee Pan_tro_3.0
Saccharomyces cerevisiae baker's yeast R64-1-1
Anoplophora glabripennis Agla_1.0
Bombyx mori silkworm ASM15162v1
Crassostrea gigas Pacific oyster oyster_v9
Schistosoma mansoni blood fluke ASM23792v2
Bombus impatiens BIMP_2.0
Pristionchus pacificus El_Paco
Aegilops tauschii Tausch's goatgrass ASM34733v1
Dendroctonus ponderosae mountain pine beetle DendPond_male_1.0
Brassica rapa field mustard IVFCAASv1
Danaus plexippus monarch butterfly Dpv3
Acyrthosiphon pisum pea aphid Acyr_2.0
Triticum urartu red wild einkorn wheat ASM34745v1
Vitis vinifera wine grape 12X
Glossina fuscipes GfusI1
Gallus gallus chicken GRCg6a
Salmo salar Atlantic salmon ICSASG_v2
Melopsittacus undulatus Budgie Melopsittacus_undulatus_6.3
Oncorhynchus mykiss rainbow trout Omyk_1.0
Dicentrarchus labrax European seabass seabass_V1.0
Solenopsis invicta red fire ant Si_gnH
Sarcoptes scabiei SscaA1
Camarhynchus parvulus small tree finch STF_HiC
Teleopsis dalmanni Tel_dalmanni_2A_v1.0
Corvus moneduloides New Caledonian crow UO_Cmon_1.0
Xenopus tropicalis tropical clawed frog Xenopus_tropicalis_v9.1
Arabidopsis thaliana thale-cress TAIR10
Xenopus tropicalis tropical clawed frog UCB_Xtro_10.0
Caenorhabditis elegans C.elegans WBcel235

About genomic mapping

RNAcentral imports genome locations from Ensembl, LNCipedia, miRBase, and other Expert Databases. In addition, sequences are mapped to the reference genomes downloaded from Ensembl and Ensembl Genomes using blat.

Data access

RNAcentral sequences can be viewed in their genomic context using a light-weight genome browser powered by Genoverse. External links are provided to the fully-featured genome browsers such as Ensembl, Ensembl Genomes, and UCSC genome browser.

The genomic coordinates of the RNAcentral entries can be downloaded in BED format from the FTP site or through the REST API.

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