Plant Circular RNA Database

Submit

If you want to submit new circRNAs (published data) in plants to PlantcircBase, please send us (bioinplant@zju.edu.cn) information which are list as following.
    1. Information needed for circRNAs in species which was not collected by PlantcircBase:
        (1) exact number of idenified circRNAs in your species;
        (2) genome version and download links;
        (3) circRNA positions (or circRNA sequences);
        (4) experimental valided circRNAs and divergent primers;
        (5) which bioinformatics tools were used when you identified circRNAs.
    2. Information needed for circRNAs in species which was already collected by PlantcircBase (you must first align your circRNA sequences to genome version which was used by PlantcircBase, and provide us the correspondingly circRNA positions):
        (1) exact number of idenified circRNAs in your species;
        (2) circRNA positions (or circRNA sequences);
        (3) experimental valided circRNAs and divergent primers;
        (4) which bioinformatics tools were used when you identified circRNAs.
    Genome versions used were list as following:
         Arabidpsis thaliana (TAIR10.38), link: ftp://ftp.ensemblgenomes.org/pub/plants/release-38/fasta/arabidopsis_thaliana/
         Camellia sinensis (tea_tree), link: http://www.plantkingdomgdb.com/tea_tree/
         Gossypium arboreum (G.arboreum_BGI-A2_v1.0), link: http://cgp.genomics.org.cn/page/species/inde x.jsp
         Gossypium hirsutum (ghi_v1.1), link: http://mascotton.njau.edu.cn/info/1054/1118.htm
         Glycine max (Glycine_max_v2.0.38), link: ftp://ftp.ensemblgenomes.org/pub/plants/release-38/fasta/glycine_max/
         Gossypium raimondii (Graimondii_221), link: Phytozome V9.0, http://www.phytozome.net
         Hordeum vulgare (Hv_IBSC_PGSB_v2.38), link: ftp://ftp.ensemblgenomes.org/pub/plants/release-38/fasta/hordeum_vulgare/
         Nicotiana benthamiana (Niben.genome.v1.0.1), link: ftp://ftp.solgenomics.net/genomes/Nicotiana_benthamiana/assemblies/
         Oryza sativa (IRGSP-1.0.38), link: ftp://ftp.ensemblgenomes.org/pub/plants/release-38/fasta/oryza_sativa/
         Oryza sativa ssp. indica (ASM465v1.42), link: ftp://ftp.ensemblgenomes.org/pub/plants/release-42/fasta/oryza_indica/
         Pyrus betulifolia (Pyrus_bretschneideri_scaffold), link: http://peargenome.njau.edu.cn/
         Poncirus trifoliata (Citrus_clementina_v1.0), link: https://www.ncbi.nlm.nih.gov/genome/?term=Citrus+clementina
         Solanum lycopersicum (SL2.50.38), link: ftp://ftp.ensemblgenomes.org/pub/plants/release-38/fasta/solanum_lycopersicum/
         Solanum tuberosum (stu_3.0.38), link: ftp://ftp.ensemblgenomes.org/pub/plants/release-38/fasta/solanum_tuberosum/
         Triticum aestivum (TGACv1.38), link: ftp://ftp.ensemblgenomes.org/pub/plants/release-38/fasta/triticum_aestivum/
         Zea mays (AGPv4.38), link: ftp://ftp.ensemblgenomes.org/pub/plants/release-38/fasta/zea_mays/

Manual

Submit

Address

Any questions?

Supported by