RF00004	Gene; snRNA; splicing;	U2 spliceosomal RNA
RF00008	Gene; ribozyme;	Hammerhead ribozyme (type III)
RF00024	Gene;	Vertebrate telomerase RNA
RF00028	Intron;	Group I catalytic intron
RF00029	Intron;	Group II catalytic intron
RF00032	Cis-reg;	Histone 3' UTR stem-loop
RF00036	Cis-reg;	HIV Rev response element
RF00041	Cis-reg;	Enteroviral 3' UTR element
RF00044	Gene;	Bacteriophage pRNA
RF00048	Cis-reg;	Enterovirus cis-acting replication element
RF00061	Cis-reg; IRES;	Hepatitis C virus internal ribosome entry site
RF00094	Gene; ribozyme;	Hepatitis delta virus ribozyme
RF00102	Gene;	VA RNA
RF00106	Gene; antisense;	RNAI
RF00164	Cis-reg;	Coronavirus 3' stem-loop II-like motif (s2m)
RF00165	Cis-reg;	Coronavirus 3' UTR pseudoknot
RF00170	Gene;	Retron msr RNA
RF00171	Cis-reg;	Tombusvirus 5' UTR
RF00173	Gene; ribozyme;	Hairpin ribozyme
RF00175	Cis-reg;	Human immunodeficiency virus type 1 dimerisation initiation site
RF00176	Cis-reg;	Tombusvirus 3' UTR region IV
RF00182	Cis-reg;	Coronavirus packaging signal
RF00184	Cis-reg;	Potato virus X cis-acting regulatory element
RF00185	Cis-reg;	Flavivirus 3' UTR cis-acting replication element (CRE)
RF00192	Cis-reg;	Bovine leukaemia virus RNA packaging signal
RF00193	Cis-reg;	Citrus tristeza virus replication signal
RF00194	Cis-reg;	Rubella virus 3' cis-acting element
RF00196	Cis-reg;	Alfalfa mosaic virus RNA 1 5' UTR stem-loop
RF00209	Cis-reg; IRES;	Pestivirus internal ribosome entry site (IRES)
RF00210	Cis-reg; IRES;	Aphthovirus internal ribosome entry site (IRES)
RF00214	Cis-reg;	Retrovirus direct repeat 1 (dr1)
RF00215	Cis-reg;	Tombus virus defective interfering (DI) RNA region 3
RF00220	Cis-reg;	Human rhinovirus internal cis-acting regulatory element (CRE)
RF00225	Cis-reg; IRES;	Tobamovirus internal ribosome entry site (IRES)
RF00228	Cis-reg; IRES;	Hepatitis A virus internal ribosome entry site (IRES)
RF00229	Cis-reg; IRES;	Picornavirus internal ribosome entry site (IRES)
RF00233	Cis-reg;	Tymovirus/Pomovirus/Furovirus tRNA-like 3' UTR element
RF00250	Gene; miRNA;	Trans-activation response element (TAR)
RF00252	Cis-reg;	Alfalfa mosaic virus coat protein binding (CPB) RNA
RF00260	Cis-reg;	Hepatitis C virus (HCV) cis-acting replication element (CRE)
RF00262	Gene; antisense;	sar RNA
RF00290	Cis-reg;	Bamboo mosaic potexvirus (BaMV) cis-regulatory element
RF00363	Gene; miRNA;	mir-BART1 microRNA precursor family
RF00364	Gene; miRNA;	mir-BART2 microRNA precursor family
RF00365	Gene; miRNA;	mir-BHRF1-1 microRNA precursor family
RF00366	Gene; miRNA;	mir-BHRF1-2 microRNA precursor family
RF00367	Gene; miRNA;	mir-BHRF1-3 microRNA precursor family
RF00374	Cis-reg;	Gammaretrovirus core encapsidation signal
RF00375	Cis-reg;	HIV primer binding site (PBS)
RF00376	Cis-reg;	HIV gag stem loop 3 (GSL3)
RF00384	Cis-reg;	Poxvirus AX element late mRNA cis-regulatory element
RF00385	Cis-reg;	Infectious bronchitis virus D-RNA
RF00386	Cis-reg;	Enterovirus 5' cloverleaf cis-acting replication element
RF00389	Cis-reg;	Bamboo mosaic virus satellite RNA cis-regulatory element
RF00390	Cis-reg;	UPSK RNA
RF00434	Cis-reg;	Luteovirus cap-independent translation element (BTE)
RF00448	Cis-reg; IRES;	Epstein-Barr virus nuclear antigen (EBNA) IRES
RF00453	Cis-reg;	Cardiovirus cis-acting replication element (CRE)
RF00458	Cis-reg; IRES;	Cripavirus internal ribosome entry site (IRES)
RF00459	Cis-reg;	Mason-Pfizer monkey virus packaging signal
RF00465	Cis-reg;	Japanese encephalitis virus (JEV) hairpin structure
RF00467	Cis-reg;	Rous sarcoma virus (RSV) primer binding site (PBS)
RF00468	Cis-reg;	Hepatitis C virus stem-loop VII
RF00469	Cis-reg;	Hepatitis C stem-loop IV
RF00470	Cis-reg;	Togavirus 5' plus strand cis-regulatory element
RF00480	Cis-reg; frameshift_element;	HIV Ribosomal frameshift signal
RF00481	Cis-reg;	Hepatitis C virus 3'X element
RF00496	Cis-reg;	Coronavirus SL-III cis-acting replication element (CRE)
RF00498	Cis-reg; leader;	Equine arteritis virus leader TRS hairpin (LTH)
RF00499	Cis-reg;	Human parechovirus 1 (HPeV1) cis regulatory element (CRE)
RF00500	Cis-reg;	Turnip crinkle virus (TCV) repressor of minus strand synthesis H5
RF00501	Cis-reg;	Rotavirus cis-acting replication element (CRE)
RF00502	Cis-reg;	Turnip crinkle virus (TCV) core promoter hairpin (Pr)
RF00507	Cis-reg; frameshift_element;	Coronavirus frameshifting stimulation element
RF00510	Cis-reg;	Tombusvirus internal replication element (IRE)
RF00511	Cis-reg; IRES;	Kaposi's sarcoma-associated herpesvirus internal ribosome entry site
RF00524	Cis-reg;	R2 RNA element
RF00525	Cis-reg;	Flavivirus DB element
RF00550	Cis-reg;	Hepatitis E virus cis-reactive element
RF00617	Cis-reg;	flavivirus capsid hairpin cHP
RF00620	Cis-reg;	Hepatitis C alternative reading frame stem-loop
RF00863	Gene; miRNA;	microRNA mir-BART17
RF00864	Gene; miRNA;	microRNA mir-BART20
RF00866	Gene; miRNA;	microRNA mir-BART3
RF00867	Gene; miRNA;	microRNA mir-BART5
RF00868	Gene; miRNA;	microRNA mir-BART15
RF00869	Gene; miRNA;	microRNA mir-BART7
RF00874	Gene; miRNA;	microRNA mir-BART12
RF01009	Gene; miRNA;	microRNA mir-M7
RF01047	Cis-reg;	HBV RNA encapsidation signal epsilon
RF01051	Cis-reg;	Cyclic di-GMP-I riboswitch
RF01072	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01073	Cis-reg;	Gag/pol translational readthrough site
RF01074	Cis-reg; frameshift_element;	Putative RNA-dependent RNA polymerase ribosomal frameshift site
RF01075	Cis-reg;	Pseudoknot of tRNA-like structure
RF01076	Cis-reg; frameshift_element;	Polymerase ribosomal frameshift site
RF01077	Cis-reg;	Pseudoknot of tRNA-like structure
RF01078	Cis-reg;	3'-terminal pseudoknot in PYVV
RF01079	Cis-reg; frameshift_element;	Putative RNA-dependent RNA polymerase ribosomal frameshift site
RF01080	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01081	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01082	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01083	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01084	Cis-reg;	Pseudoknot of tRNA-like structure
RF01085	Cis-reg;	Pseudoknot of tRNA-like structure
RF01088	Cis-reg;	Pseudoknot of tRNA-like structure
RF01091	Cis-reg;	3'-terminal pseudoknot in SPCSV
RF01092	Cis-reg;	Gag/pol translational readthrough site
RF01094	Cis-reg; frameshift_element;	Polymerase ribosomal frameshift site
RF01095	Cis-reg;	3'-terminal pseudoknot of CuYV/BPYV
RF01096	Cis-reg;	HepA virus 3'-terminal pseudoknot
RF01097	Cis-reg; frameshift_element;	Gag/pro ribosomal frameshift site
RF01098	Cis-reg; frameshift_element;	Gag/pro ribosomal frameshift site
RF01099	Cis-reg;	Pseudoknot of influenza A virus gene
RF01100	Cis-reg;	3'-terminal pseudoknot in BYV
RF01101	Cis-reg;	Pseudoknot of tRNA-like structure
RF01102	Cis-reg; leader;	5'-leader pseudoknot of TEV/CVMV
RF01103	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01104	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01105	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01106	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01107	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01108	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01109	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01111	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01113	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01114	Cis-reg;	Pseudoknot of upstream pseudoknot domain (UPD) of the 3'UTR
RF01313	Cis-reg;	Avian HBV RNA encapsidation signal epsilon
RF01380	Cis-reg;	Human immunodeficiency virus type 1 major splice donor
RF01381	Cis-reg;	HIV-1 stem-loop 3 Psi packaging signal
RF01382	Cis-reg;	HIV-1 stem-loop 4 packaging signal
RF01386	Gene; sRNA;	isrB Hfq binding RNA
RF01394	Gene; sRNA;	isrK Hfq binding RNA
RF01412	Gene; sRNA;	BsrG
RF01415	Cis-reg;	Flavivirus 3'UTR stem loop IV
RF01417	Cis-reg;	Retroviral 3'UTR stability element
RF01418	Cis-reg;	HIV pol-1 stem loop
RF01453	Cis-reg;	3'TE-DR1 translation enhancer element
RF01454	Cis-reg;	5'UTR enhancer element
RF01458	Gene; antisense;	Listeria snRNA rli23
RF01466	Gene; sRNA;	Listeria sRNA rli34
RF01479	Gene; sRNA;	Listeria sRNA rli48
RF01486	Cis-reg;	Listeria sRNA rli62
RF01492	Gene; sRNA;	Listeria sRNA rli28
RF01497	Cis-reg;	ALIL pseudoknot
RF01508	Cis-reg;	Barley yellow dwarf virus 5'UTR
RF01516	Gene; snRNA; snoRNA; CD-box;	Human herpesvirus 1 small nucleolar RNA
RF01668	Gene; sRNA;	Pseudomonas sRNA P10
RF01695	Gene; antisense;	C4 antisense RNA
RF01704	Cis-reg;	Downstream peptide RNA
RF01717	Cis-reg;	PhotoRC-II RNA
RF01739	Cis-reg; riboswitch;	Glutamine riboswitch
RF01745	Cis-reg;	manA RNA
RF01761	Cis-reg;	wcaG RNA
RF01768	Cis-reg; frameshift_element;	ribosomal frameshift site
RF01785	Cis-reg; frameshift_element;	ribosomal frameshift site
RF01789	Gene; sRNA;	Epstein-Barr virus EBER1
RF01790	Cis-reg; frameshift_element;	ribosomal frameshift site
RF01792	Cis-reg; frameshift_element;	ribosomal frameshift site
RF01794	Gene; antitoxin;	sok antitoxin (CssrC)
RF01802	Gene; snRNA;	Herpesvirus saimiri U RNA1/RNA2
RF01804	Cis-reg; thermoregulator;	Lambda phage CIII thermoregulator element
RF01828	Gene; sRNA;	Small pathogenicity island RNA D
RF01833	Cis-reg; frameshift_element;	ribosomal frameshift site
RF01834	Cis-reg; frameshift_element;	ribosomal frameshift site
RF01835	Cis-reg; frameshift_element;	ribosomal frameshift site
RF01836	Cis-reg; frameshift_element;	ribosomal frameshift site
RF01837	Cis-reg; frameshift_element;	togavirus ribosomal frameshift element
RF01838	Cis-reg; frameshift_element;	sobemovirus ribosomal frameshift elemental
RF01839	Cis-reg; frameshift_element;	eastern equine encephalitis ribosomal frameshift element
RF01840	Cis-reg; frameshift_element;	ribosomal frameshift element
RF01841	Cis-reg; frameshift_element;	venezuelan equine encephalitis virus ribosomal frameshift element
RF01940	Gene; miRNA;	microRNA hvt-mir-H9
RF02004	Intron;	Group II catalytic intron D1-D4-5
RF02012	Intron;	Group II catalytic intron D1-D4-7
RF02032	Gene;	Giant, ornate, lake- and Lactobacillales-derived (GOLLD) RNA
RF02033	Gene;	HNH endonuclease-associated RNA and ORF (HEARO) RNA
RF02076	Gene; sRNA;	Gammaproteobacterial sRNA STnc100
RF02111	Gene;	IS009
RF02221	Gene; sRNA;	sRNA-Xcc1
RF02276	Gene; ribozyme;	Hammerhead ribozyme (type II)
RF02340	Cis-reg;	Dengue virus SLA
RF02359	Cis-reg;	Bacteriophage MS2 operator hairpin
RF02415	Gene; sRNA;	Listeria sRNA rliG
RF02416	Cis-reg;	Turnip crinkle virus 3'UTR
RF02435	Gene; sRNA;	Streptococcus sRNA SpF41
RF02455	Cis-reg;	Dianthovirus RNA2 cap-independent translation element
RF02456	Cis-reg;	Dianthovirus RNA2 3'UTR stem loops
RF02457	Cis-reg;	Tombusvirus 3' cap-independent translation element
RF02458	Cis-reg;	Aureusvirus cap-independent translation element
RF02459	Cis-reg;	Necrovirus cap-independent translation element
RF02460	Cis-reg;	Satellite tobacco necrosis virus cap-independent translation element
RF02461	Cis-reg;	Blackcurrant reversion virus cap-independent translation element
RF02521	Cis-reg;	Pea enation mosaic virus-2 cap-independent translation element
RF02522	Cis-reg;	Pea enation mosaic virus-2 cap-independent translation element
RF02532	Cis-reg;	Murine norovirus 3'UTR
RF02533	Cis-reg;	Hepatitis A virus (HAV) cis-acting replication element (CRE)
RF02534	Cis-reg;	Norovirus cis-acting replication element (CRE)
RF02536	Cis-reg;	Avian encephalitis virus (AEV) cis-acting replication element (CRE)
RF02549	Cis-reg;	Pseudoknot PSK3
RF02577	Gene; sRNA;	S. aureus tsr24 small RNA
RF02585	Cis-reg;	Hepatitis C virus RNA packaging signal
RF02586	Cis-reg;	Hepatitis C virus RNA packaging signal 733
RF02587	Cis-reg;	Hepatitis C virus RNA packaging signal 4629
RF02588	Cis-reg;	Hepatitis C virus RNA packaging signal 6067
RF02589	Gene; sRNA;	S. pyogenes small RNA 779816
RF02595	Gene;	Epstein-Barr virus stable intronic sequence RNA 1
RF02598	Gene;	Epstein-Barr virus stable intronic sequence RNA 2
RF02626	Gene; sRNA;	Wolbachia sRNA 59
RF02658	Cis-reg; IRES;	Rhopalosiphum padi virus 5'UTR internal ribosome entry site
RF02672	Gene; sRNA;	Small pathogenicity island RNA X
RF02679	Gene; ribozyme;	Pistol ribozyme
RF02702	Gene; sRNA;	Anti GcvB sRNA
RF02703	Gene; sRNA;	Anti stx2 sRNA
RF02712	Gene; sRNA;	Epstein-Barr virus EBER2
RF02743	Gene; antisense;	Saccharopolyspora sRNA 389
RF02816	Cis-reg;	Hepatitis B virus post-transcriptional regulatory element 1151-1410
RF02838	Gene; sRNA;	Enterococcus sRNA 55
RF02848	Gene; sRNA;	Enterococcus sRNA B11
RF02855	Gene; antisense;	Yersinia sRNA 251
RF02892	Gene; antisense;	Bacillus SR6 antitoxin
RF02897	Gene; sRNA;	Staphylococcus sRNA 808
RF02900	Gene; sRNA;	Aggregatibacter sRNA 82
RF02910	Cis-reg;	Coronavirus 5' stem-loops 1-2
RF02911	Cis-reg;	Baculoviridae Nucleocapsid Assembly essential Element
RF02921	Gene; sRNA;	RT-14 RNA
RF02924	Gene; sRNA;	skipping-rope RNA
RF02931	Gene; sRNA;	Bacilli-1 RNA
RF02944	Gene; sRNA;	c4-2 RNA
RF02996	Gene; sRNA;	int-alpA RNA
RF03003	Cis-reg;	GP20-b RNA
RF03010	Gene; sRNA;	mcrA RNA
RF03021	Gene; sRNA;	RT-18 RNA
RF03022	Gene; sRNA;	RT-10 RNA
RF03044	Gene; sRNA;	Proteo-phage-1 RNA
RF03064	Gene; sRNA;	RAGATH-18 RNA
RF03075	Gene; sRNA;	DUF3800-VIII RNA
RF03085	Gene; sRNA;	abiF RNA
RF03087	Gene; sRNA;	ROOL RNA
