FcircSEC: An R Package for Full Length circRNA Sequence Extraction and Classification

Table 1

Genome versions across species.

Species/database name	Genome/annotation version	Web links
circbase and circRNAdb (human)	hg19	http://hgdownload.soe.ucsc.edu/downloads.html#human; http://202.195.183.4:8000/circrnadb/resources.php
Arabidopsis thaliana	TAIR10.38	ftp://ftp.ensemblgenomes.org/pub/plants/release-38/
Poncirus trifoliata	Citrus_clementina_v1.0	https://ftp.ncbi.nih.gov/genomes/refseq/plant/Citrus_clementina/
Glycine max	Glycine_max_v2.0.38	ftp://ftp.ensemblgenomes.org/pub/plants/release-38/
Gossypium arboreum	Gossypium_arboreum_v1.0	https://ftp.ncbi.nih.gov/genomes/refseq/plant/Gossypium_arboreum/
Gossypium hirsutum	NBI_Gossypium_hirsutum_v1.1	https://www.cottongen.org/data/download/genome_NBI_AD1/
Gossypium raimondii	Graimondii_221	ftp://ftp.jgi-psf.org/pub/compgen/phytozome/v9.0/Graimondii/
Hordeum vulgare	Hv_IBSC_PGSB_v2.38	ftp://ftp.ensemblgenomes.org/pub/plants/release-38/
Oryza sativa	IRGSP-1.0.38	ftp://ftp.ensemblgenomes.org/pub/plants/release-38/
Solanum lycopersicum	SL2.50.38	ftp://ftp.ensemblgenomes.org/pub/plants/release-38/
Solanum tuberosum	SolTub_3.0.38	ftp://ftp.ensemblgenomes.org/pub/plants/release-38/
Triticum aestivum	IWGSC1.0+popseq.29	ftp://ftp.ensemblgenomes.org/pub/plants/release-29
Zea mays	AGPv4.38	ftp://ftp.ensemblgenomes.org/pub/plants/release-38/