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RNA Scan
Scan an RNA sequence for potential binding sites Click for sample	Please use a FASTA format submission (max 8000 bp)	Species Acyrtosiphon_pisum Aedes_aegypti Agaricus_bisporus Ailuropoda_melanoleuca Allomyces_macrogynus Alternaria_brassicicola Amphimedon_queenslandica Anolis_carolinensis Anopheles_gambiae Apis_mellifera Arabidopsis_lyrata Arabidopsis_thaliana Arthroderma_benhamiae Ashbya_gossypii Aspergillus_carbonarius Aspergillus_clavatus Aspergillus_flavus Aspergillus_fumigatus Aspergillus_nidulans Aspergillus_niger Aspergillus_oryzae Aspergillus_terreus Aureococcus_anophagefferens Babesia_bovis Batrachochytrium_dendrobatidis Bigelowiella_natans Blastomyces_dermatitidis Bombyx_mori Bos_taurus Botrytis_cinerea Brachypodium_distachyon Branchiostoma_floridae Brugia_malayi Caenorhabditis_brenneri Caenorhabditis_briggsae Caenorhabditis_elegans Caenorhabditis_japonica Caenorhabditis_remanei Callithrix_jacchus Candida_albicans Candida_dubliniensis Candida_glabrata Candida_guilliermondii Candida_lusitaniae Candida_parapsilosis Candida_tropicalis Canis_familiaris Cannabis_sativa Capitella_teleta Capsaspora_owczarzaki Cavia_porcellus Chaetomium_globosum Chlamydomonas_reinhardtii Chlorella_NC64A Chlorella_vulgaris Choloepus_hoffmanni Ciona_intestinalis Ciona_savignyi Coccidioides_immitis Coccidioides_posadasii Coccomyxa_C_169 Cochliobolus_heterostrophus_C5 Colletotrichum_graminicola Coprinopsis_cinerea Cryphonectria_parasitica Cryptococcus_neoformans Cryptosporidium_hominis Cryptosporidium_muris Cryptosporidium_parvum Cucumis_sativus Culex_pipiens Culex_quinquefasciatus Cyanidioschyzon_merolae Danio_rerio Daphnia_pulex Dasypus_novemcinctus Debaryomyces_hansenii Dictyostelium_discoideum Dictyostelium_purpureum Dipodomys_ordii Drosophila_ananassae Drosophila_erecta Drosophila_grimshawi Drosophila_melanogaster Drosophila_mojavensis Drosophila_persimilis Drosophila_pseudoobscura Drosophila_sechellia Drosophila_simulans Drosophila_virilis Drosophila_willistoni Drosophila_yakuba Echinops_telfairi Emiliania_huxleyi Encephalitozoon_cuniculi Encephalitozoon_intestinalis Entamoeba_dispar Entamoeba_histolytica Entamoeba_invadens Enterocytozoon_bieneusi Equus_caballus Erinaceus_europaeus Felis_catus Fragilariopsis_cylindrus Fusarium_graminearum Fusarium_oxysporum Fusarium_verticillioides Gallus_gallus Gasterosteus_aculeatus Giardia_lamblia Glycine_max Gorilla_gorilla Guillardia_theta Helobdella_robusta Hemiselmis_andersenii Heterobasidion_annosum Histoplasma_capsulatum Homo_sapiens Hydra_magnipapillata Ixodes_scapularis Kluyveromyces_lactis Kluyveromyces_thermotolerans Kluyveromyces_waltii Laccaria_bicolor Lachancea_kluyveri Leishmania_braziliensis Leishmania_infantum Leishmania_major Leishmania_mexicana Loa_loa Lodderomyces_elongisporus Lottia_gigantea Lotus_japonicus Loxodonta_africana Macaca_mulatta Macropus_eugenii Magnaporthe_oryzae Malassezia_globosa Malus_x_domestica Manihot_esculenta Medicago_truncatula Melampsora_laricis_populina Meleagris_gallopavo Meloidogyne_incognita Microcebus_murinus Micromonas_pusilla Microsporum_canis Microsporum_gypseum Mimulus_guttatus Moniliophthora_perniciosa Monodelphis_domestica Monosiga_brevicollis Mucor_circinelloides Mus_musculus Myceliophthora_thermophila Mycosphaerella_fijiensis Mycosphaerella_graminicola Myotis_lucifugus Naegleria_gruberi Nasonia_vitripennis Nectria_haematococca Nematostella_vectensis Neosartorya_fischeri Neospora_caninum Neurospora_crassa Neurospora_discreta Neurospora_tetrasperma Ochotona_princeps Oikopleura_dioica Ornithorhynchus_anatinus Oryctolagus_cuniculus Oryza_indica Oryza_sativa Oryzias_latipes Ostreococcus_lucimarinus Ostreococcus_RCC809 Ostreococcus_tauri Otolemur_garnettii Pan_troglodytes Paracoccidioides_brasiliensis Paramecium_tetraurelia Pediculus_humanus Penicillium_chrysogenum Penicillium_marneffei Phaeodactylum_tricornutum Phaeosphaeria_nodorum Phanerochaete_chrysosporium Phoenix_dactylifera Phycomyces_blakesleeanus Physcomitrella_patens Phytophthora_capsici Phytophthora_infestans Phytophthora_ramorum Phytophthora_sojae Pichia_pastoris Pichia_stipitis Plasmodium_berghei Plasmodium_chabaudi Plasmodium_falciparum Plasmodium_knowlesi Plasmodium_vivax Plasmodium_yoelii Pleurotus_ostreatus Pneumocystis_carinii Podospora_anserina Polysphondylium_pallidum Pongo_pygmaeus Populus_trichocarpa Postia_placenta Pristionchus_pacificus Procavia_capensis Prunus_persica Pteropus_vampyrus Puccinia_graminis Puccinia_triticina Pyrenophora_tritici_repentis Rattus_norvegicus Rhizopus_oryzae Ricinus_communis RNAcompete_CONSTRUCTS Saccharomyces_bayanus Saccharomyces_castellii Saccharomyces_cerevisiae Saccharomyces_kudriavzevii Saccharomyces_mikatae Saccharomyces_paradoxus Salpingoeca_rosetta Saprolegnia_parasitica Schistosoma_japonicum Schistosoma_mansoni Schizophyllum_commune Schizosaccharomyces_cryophilus Schizosaccharomyces_japonicus Schizosaccharomyces_octosporus Schizosaccharomyces_pombe Sclerotinia_sclerotiorum Selaginella_moellendorfii Serpula_lacrymans Sorex_araneus Sorghum_bicolor Spermophilus_tridecemlineatus Spizellomyces_punctatus Sporobolomyces_roseus Stagonospora_nodorum Strongylocentrotus_purpuratus Sus_scrofa Taeniopygia_guttata Takifugu_rubripes Tarsius_syrichta Tetrahymena_thermophila Tetraodon_nigroviridis Thalassiosira_pseudonana Thecamonas_trahens Theileria_annulata Theileria_parva Thielavia_terrestris Toxoplasma_gondii Tremella_mesenterica Tribolium_castaneum Trichoderma_atroviride Trichoderma_reesei Trichoderma_virens Trichomonas_vaginalis Trichophyton_equinum Trichophyton_rubrum Trichophyton_tonsurans Trichophyton_verrucosum Trichoplax_adhaerens Trypanosoma_brucei Trypanosoma_congolense Trypanosoma_cruzi Trypanosoma_vivax Tuber_melanosporum Tupaia_belangeri Tursiops_truncatus Uncinocarpus_reesii Ustilago_maydis Vanderwaltozyma_polyspora Verticillium_albo_atrum Verticillium_dahliae Vicugna_pacos Vitis_vinifera Volvox_carteri Wuchereria_bancrofti Xenopus_laevis Xenopus_tropicalis Yarrowia_lipolytica Zea_mays Zygosaccharomyces_rouxii Motif model Threshold 7 mers - Escores PWMs - Energy PWMs - LogOdds Scan RBPs in my cart
Protein Scan
Scan an amino acid sequence to predict its binding motif Click for sample
Motif Scan
Compare a given motif to all RBPs in the database Click for PWM, Alignment, IUPAC		Species Scan all species Acyrtosiphon_pisum Aedes_aegypti Agaricus_bisporus Ailuropoda_melanoleuca Allomyces_macrogynus Alternaria_brassicicola Amphimedon_queenslandica Anolis_carolinensis Anopheles_gambiae Apis_mellifera Arabidopsis_lyrata Arabidopsis_thaliana Arthroderma_benhamiae Ashbya_gossypii Aspergillus_carbonarius Aspergillus_clavatus Aspergillus_flavus Aspergillus_fumigatus Aspergillus_nidulans Aspergillus_niger Aspergillus_oryzae Aspergillus_terreus Aureococcus_anophagefferens Babesia_bovis Batrachochytrium_dendrobatidis Bigelowiella_natans Blastomyces_dermatitidis Bombyx_mori Bos_taurus Botrytis_cinerea Brachypodium_distachyon Branchiostoma_floridae Brugia_malayi Caenorhabditis_brenneri Caenorhabditis_briggsae Caenorhabditis_elegans Caenorhabditis_japonica Caenorhabditis_remanei Callithrix_jacchus Candida_albicans Candida_dubliniensis Candida_glabrata Candida_guilliermondii Candida_lusitaniae Candida_parapsilosis Candida_tropicalis Canis_familiaris Cannabis_sativa Capitella_teleta Capsaspora_owczarzaki Cavia_porcellus Chaetomium_globosum Chlamydomonas_reinhardtii Chlorella_NC64A Chlorella_vulgaris Choloepus_hoffmanni Ciona_intestinalis Ciona_savignyi Coccidioides_immitis Coccidioides_posadasii Coccomyxa_C_169 Cochliobolus_heterostrophus_C5 Colletotrichum_graminicola Coprinopsis_cinerea Cryphonectria_parasitica Cryptococcus_neoformans Cryptosporidium_hominis Cryptosporidium_muris Cryptosporidium_parvum Cucumis_sativus Culex_pipiens Culex_quinquefasciatus Cyanidioschyzon_merolae Danio_rerio Daphnia_pulex Dasypus_novemcinctus Debaryomyces_hansenii Dictyostelium_discoideum Dictyostelium_purpureum Dipodomys_ordii Drosophila_ananassae Drosophila_erecta Drosophila_grimshawi Drosophila_melanogaster Drosophila_mojavensis Drosophila_persimilis Drosophila_pseudoobscura Drosophila_sechellia Drosophila_simulans Drosophila_virilis Drosophila_willistoni Drosophila_yakuba Echinops_telfairi Emiliania_huxleyi Encephalitozoon_cuniculi Encephalitozoon_intestinalis Entamoeba_dispar Entamoeba_histolytica Entamoeba_invadens Enterocytozoon_bieneusi Equus_caballus Erinaceus_europaeus Felis_catus Fragilariopsis_cylindrus Fusarium_graminearum Fusarium_oxysporum Fusarium_verticillioides Gallus_gallus Gasterosteus_aculeatus Giardia_lamblia Glycine_max Gorilla_gorilla Guillardia_theta Helobdella_robusta Hemiselmis_andersenii Heterobasidion_annosum Histoplasma_capsulatum Homo_sapiens Hydra_magnipapillata Ixodes_scapularis Kluyveromyces_lactis Kluyveromyces_thermotolerans Kluyveromyces_waltii Laccaria_bicolor Lachancea_kluyveri Leishmania_braziliensis Leishmania_infantum Leishmania_major Leishmania_mexicana Loa_loa Lodderomyces_elongisporus Lottia_gigantea Lotus_japonicus Loxodonta_africana Macaca_mulatta Macropus_eugenii Magnaporthe_oryzae Malassezia_globosa Malus_x_domestica Manihot_esculenta Medicago_truncatula Melampsora_laricis_populina Meleagris_gallopavo Meloidogyne_incognita Microcebus_murinus Micromonas_pusilla Microsporum_canis Microsporum_gypseum Mimulus_guttatus Moniliophthora_perniciosa Monodelphis_domestica Monosiga_brevicollis Mucor_circinelloides Mus_musculus Myceliophthora_thermophila Mycosphaerella_fijiensis Mycosphaerella_graminicola Myotis_lucifugus Naegleria_gruberi Nasonia_vitripennis Nectria_haematococca Nematostella_vectensis Neosartorya_fischeri Neospora_caninum Neurospora_crassa Neurospora_discreta Neurospora_tetrasperma Ochotona_princeps Oikopleura_dioica Ornithorhynchus_anatinus Oryctolagus_cuniculus Oryza_indica Oryza_sativa Oryzias_latipes Ostreococcus_lucimarinus Ostreococcus_RCC809 Ostreococcus_tauri Otolemur_garnettii Pan_troglodytes Paracoccidioides_brasiliensis Paramecium_tetraurelia Pediculus_humanus Penicillium_chrysogenum Penicillium_marneffei Phaeodactylum_tricornutum Phaeosphaeria_nodorum Phanerochaete_chrysosporium Phoenix_dactylifera Phycomyces_blakesleeanus Physcomitrella_patens Phytophthora_capsici Phytophthora_infestans Phytophthora_ramorum Phytophthora_sojae Pichia_pastoris Pichia_stipitis Plasmodium_berghei Plasmodium_chabaudi Plasmodium_falciparum Plasmodium_knowlesi Plasmodium_vivax Plasmodium_yoelii Pleurotus_ostreatus Pneumocystis_carinii Podospora_anserina Polysphondylium_pallidum Pongo_pygmaeus Populus_trichocarpa Postia_placenta Pristionchus_pacificus Procavia_capensis Prunus_persica Pteropus_vampyrus Puccinia_graminis Puccinia_triticina Pyrenophora_tritici_repentis Rattus_norvegicus Rhizopus_oryzae Ricinus_communis RNAcompete_CONSTRUCTS Saccharomyces_bayanus Saccharomyces_castellii Saccharomyces_cerevisiae Saccharomyces_kudriavzevii Saccharomyces_mikatae Saccharomyces_paradoxus Salpingoeca_rosetta Saprolegnia_parasitica Schistosoma_japonicum Schistosoma_mansoni Schizophyllum_commune Schizosaccharomyces_cryophilus Schizosaccharomyces_japonicus Schizosaccharomyces_octosporus Schizosaccharomyces_pombe Sclerotinia_sclerotiorum Selaginella_moellendorfii Serpula_lacrymans Sorex_araneus Sorghum_bicolor Spermophilus_tridecemlineatus Spizellomyces_punctatus Sporobolomyces_roseus Stagonospora_nodorum Strongylocentrotus_purpuratus Sus_scrofa Taeniopygia_guttata Takifugu_rubripes Tarsius_syrichta Tetrahymena_thermophila Tetraodon_nigroviridis Thalassiosira_pseudonana Thecamonas_trahens Theileria_annulata Theileria_parva Thielavia_terrestris Toxoplasma_gondii Tremella_mesenterica Tribolium_castaneum Trichoderma_atroviride Trichoderma_reesei Trichoderma_virens Trichomonas_vaginalis Trichophyton_equinum Trichophyton_rubrum Trichophyton_tonsurans Trichophyton_verrucosum Trichoplax_adhaerens Trypanosoma_brucei Trypanosoma_congolense Trypanosoma_cruzi Trypanosoma_vivax Tuber_melanosporum Tupaia_belangeri Tursiops_truncatus Uncinocarpus_reesii Ustilago_maydis Vanderwaltozyma_polyspora Verticillium_albo_atrum Verticillium_dahliae Vicugna_pacos Vitis_vinifera Volvox_carteri Wuchereria_bancrofti Xenopus_laevis Xenopus_tropicalis Yarrowia_lipolytica Zea_mays Zygosaccharomyces_rouxii 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Last updated: -- Database Build 0.6

Current database contents: 8056 RBP binding motifs(250 from direct experiments), out of a total of 62587 Eukaryotic RBPs from 55 families in 289 species