Rfam 8.1 : Browse Rfam families (Janelia)

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Name	Accession	No.seed	Av.len(seed)	Av.%id(seed)	No.full	Av.len(full)	Av.%id(full)	Type	Description
5S_rRNA	RF00001	602	116	57	12117	116	61	Gene; rRNA;	5S ribosomal RNA
5_8S_rRNA	RF00002	63	152	68	84358	153	78	Gene; rRNA;	5.8S ribosomal RNA
U1	RF00003	100	162	63	857	161	68	Gene; snRNA; splicing;	U1 spliceosomal RNA
U2	RF00004	77	184	64	551	177	62	Gene; snRNA; splicing;	U2 spliceosomal RNA
tRNA	RF00005	1088	73	44	85463	72	45	Gene; tRNA;	tRNA
Vault	RF00006	11	101	71	22	103	75	Gene;	Vault RNA
U12	RF00007	8	161	66	21	160	67	Gene; snRNA; splicing;	U12 minor spliceosomal RNA
Hammerhead_3	RF00008	84	55	67	252	54	77	Gene; ribozyme;	Hammerhead ribozyme (type III)
RNaseP_nuc	RF00009	59	299	36	110	298	43	Gene; ribozyme;	Nuclear RNase P
RNaseP_bact_a	RF00010	49	372	53	473	310	60	Gene; ribozyme;	Bacterial RNase P class A
RNaseP_bact_b	RF00011	31	367	60	164	369	68	Gene; ribozyme;	Bacterial RNase P class B
U3	RF00012	20	209	50	257	208	56	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA U3
6S	RF00013	77	181	42	172	182	43	Gene;	6S / SsrS RNA
DsrA	RF00014	4	85	89	16	85	93	Gene; sRNA;	DsrA RNA
U4	RF00015	30	135	60	270	137	64	Gene; snRNA; splicing;	U4 spliceosomal RNA
SNORD14	RF00016	18	110	66	218	108	64	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD14
SRP_euk_arch	RF00017	50	296	46	433	292	40	Gene;	Eukaryotic type signal recognition particle RNA
CsrB	RF00018	7	357	60	43	359	54	Gene; sRNA;	CsrB/RsmB RNA family
Y	RF00019	16	94	64	1278	101	67	Gene;	Y RNA
U5	RF00020	33	119	59	273	117	61	Gene; snRNA; splicing;	U5 spliceosomal RNA
Spot_42	RF00021	6	117	84	27	117	90	Gene; sRNA;	Spot 42 RNA
GcvB	RF00022	17	141	66	29	140	64	Gene;	GcvB RNA
tmRNA	RF00023	178	364	41	350	351	45	Gene;	tmRNA
Telomerase-vert	RF00024	37	444	55	60	430	58	Gene;	Vertebrate telomerase RNA
Telomerase-cil	RF00025	24	181	50	22	179	51	Gene;	Ciliate telomerase RNA
U6	RF00026	53	104	78	2599	105	77	Gene; snRNA; splicing;	U6 spliceosomal RNA
let-7	RF00027	14	80	68	94	82	73	Gene; miRNA;	let-7 microRNA precursor
Intron_gpI	RF00028	30	322	34	20085	397	53	Intron;	Group I catalytic intron
Intron_gpII	RF00029	114	86	52	8189	77	54	Intron;	Group II catalytic intron
RNase_MRP	RF00030	27	270	49	45	264	51	Gene; ribozyme;	RNase MRP
SECIS	RF00031	63	64	41	299	64	44	Cis-reg;	Selenocysteine insertion sequence
Histone3	RF00032	64	26	77	1046	26	78	Cis-reg;	Histone 3' UTR stem-loop
MicF	RF00033	8	92	80	24	91	82	Gene; antisense;	MicF RNA
RprA	RF00034	7	109	74	19	108	81	Gene; sRNA;	RprA RNA
OxyS	RF00035	5	109	90	18	106	93	Gene; sRNA;	OxyS RNA
RRE	RF00036	65	337	97	3972	311	87	Cis-reg;	HIV Rev response element
IRE	RF00037	39	28	61	318	29	62	Cis-reg;	Iron response element
PrfA	RF00038	11	131	87	130	130	96	Cis-reg; thermoregulator;	PrfA thermoregulator UTR
DicF	RF00039	6	51	73	29	52	74	Gene; antisense;	DicF RNA
rne5	RF00040	9	342	66	25	336	76	Cis-reg;	RNase E 5' UTR element
Entero_OriR	RF00041	60	121	87	96	119	87	Cis-reg;	Enteroviral 3' UTR element
CopA	RF00042	17	90	83	42	90	84	Gene; antisense;	CopA-like RNA
Plasmid_R1162	RF00043	3	73	72	9	73	68	Gene; antisense;	R1162-like plasmid antisense RNA
Phage_pRNA	RF00044	3	244	98	5	215	76	Gene;	Bacteriophage pRNA
SNORA73	RF00045	23	214	74	71	207	71	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA73 family
snoR30	RF00046	6	95	87	30	95	89	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R30/Z108
mir-2	RF00047	9	70	67	25	70	71	Gene; miRNA;	mir-2 microRNA precursor
Entero_CRE	RF00048	56	61	82	262	61	81	Cis-reg;	Enterovirus cis-acting replication element
SNORD36	RF00049	20	74	63	129	78	67	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD36
FMN	RF00050	34	137	67	183	144	65	Cis-reg; riboswitch;	FMN riboswitch (RFN element)
mir-17	RF00051	54	81	70	63	82	69	Gene; miRNA;	mir-17 microRNA precursor family
lin-4	RF00052	9	69	69	39	70	74	Gene; miRNA;	lin-4 microRNA precursor
mir-7	RF00053	6	88	67	29	88	73	Gene; miRNA;	mir-7 microRNA precursor
SNORD25	RF00054	8	80	62	39	81	67	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD25
SNORD96	RF00055	9	87	60	39	90	66	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD96 family
SNORA71	RF00056	15	131	75	37	128	71	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA71
RyhB	RF00057	13	82	74	41	83	72	Gene; sRNA;	RyhB RNA
HgcF	RF00058	3	168	96	5	168	89	Gene;	HgcF RNA
TPP	RF00059	174	109	52	496	109	52	Cis-reg; riboswitch;	TPP riboswitch (THI element)
HgcE	RF00060	3	132	88	5	130	81	Gene;	HgcE RNA
IRES_HCV	RF00061	821	260	90	3410	210	90	Cis-reg; IRES;	Hepatitis C virus internal ribosome entry site
HgcC	RF00062	4	135	62	38	166	60	Gene;	HgcC family RNA
SscA	RF00063	4	96	87	6	96	75	Gene;	SscA RNA
HgcG	RF00064	2	275	81	6	239	76	Gene;	HgcG RNA
snoR9	RF00065	3	127	87	5	127	84	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snoR9
U7	RF00066	24	48	69	353	49	69	Gene; snRNA;	U7 small nuclear RNA
SNORD15	RF00067	18	124	60	49	113	64	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD15
SNORD21	RF00068	5	92	71	12	89	66	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD21
SNORD24	RF00069	14	77	71	102	81	73	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD24
SNORD29	RF00070	10	73	75	19	75	70	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD29
SNORD73	RF00071	4	68	79	15	68	84	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD73
SNORA75	RF00072	6	135	71	23	130	73	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA75
mir-156	RF00073	10	89	71	47	93	68	Gene; miRNA;	mir-156 microRNA precursor
mir-29	RF00074	10	67	74	53	67	80	Gene; miRNA;	mir-29 microRNA precursor
mir-166	RF00075	30	122	57	63	123	57	Gene; miRNA;	mir-166 microRNA precursor
mir-181	RF00076	4	75	80	25	75	83	Gene; miRNA;	mir-181 microRNA precursor
SraB	RF00077	3	168	85	14	168	90	Gene; sRNA;	SraB RNA
SraD	RF00078	3	75	85	25	75	87	Gene; sRNA;	SraD RNA
SraE_OmrA_OmrB	RF00079	4	88	77	30	86	82	Gene; sRNA;	SraE_OmrA_OmrB family RNA
yybP-ykoY	RF00080	50	124	44	142	124	45	Cis-reg;	yybP-ykoY leader
SraH	RF00081	2	109	64	19	108	79	Gene; sRNA;	SraH RNA
SraG	RF00082	5	172	72	26	173	82	Gene; sRNA;	SraG RNA
SraJ	RF00083	4	173	96	16	173	91	Gene; sRNA;	SraJ RNA
CsrC	RF00084	4	254	71	18	254	78	Gene; sRNA;	CsrC RNA family
SNORD28	RF00085	4	79	69	8	77	73	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD28
SNORD27	RF00086	11	76	68	28	77	69	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD27
SNORD26	RF00087	4	73	75	8	74	83	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD26
SNORD30	RF00088	3	70	76	10	70	79	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD30
SNORD31	RF00089	4	67	80	12	69	80	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD31
SNORA74	RF00090	3	198	83	9	197	76	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA74
SNORA62	RF00091	10	152	82	26	148	71	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA62/SNORA6 family
SNORA63	RF00092	8	128	80	37	126	71	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA63
SNORD18	RF00093	16	74	68	70	76	60	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD18
HDV_ribozyme	RF00094	15	89	91	82	88	96	Gene; ribozyme;	Hepatitis delta virus ribozyme
snoPyro_CD	RF00095	25	56	60	60	56	58	Gene; snRNA; snoRNA; CD-box;	Pyrococcus C/D box small nucleolar RNA
U8	RF00096	6	134	67	38	133	62	Gene; snRNA; snoRNA; CD-box;	U8 small nucleolar RNA
snoR71	RF00097	21	107	90	370	106	78	Gene; snRNA; snoRNA; CD-box;	Plant small nucleolar RNA R71
HACA_sno_Snake	RF00098	22	140	93	55	140	90	Gene; snRNA; snoRNA; HACA-box;	Snake H/ACA box small nucleolar RNA
SNORD22	RF00099	3	125	80	9	125	84	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD22
7SK	RF00100	6	328	96	171	317	71	Gene;	7SK RNA
SraC_RyeA	RF00101	4	251	72	19	242	76	Gene; sRNA;	SraC/RyeA RNA
VA	RF00102	54	161	67	157	158	69	Gene;	VA RNA
mir-1	RF00103	7	77	70	27	76	71	Gene; miRNA;	mir-1 microRNA precursor family
mir-10	RF00104	11	74	58	73	73	68	Gene; miRNA;	mir-10 microRNA precursor family
SNORD115	RF00105	23	80	92	133	81	90	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD115
RNAI	RF00106	10	102	75	138	103	72	Gene; antisense;	RNAI
FinP	RF00107	6	77	90	15	77	91	Gene;	FinP
SNORD116	RF00108	7	90	86	85	92	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD116
Vimentin3	RF00109	19	68	74	45	66	82	Cis-reg;	Vimentin 3' UTR protein-binding region
RybB	RF00110	3	79	79	19	79	89	Gene; sRNA;	RybB RNA
RyeB	RF00111	4	100	95	19	97	91	Gene; sRNA;	RyeB RNA
RyeE	RF00112	2	85	61	22	84	80	Gene; sRNA;	RyeE RNA
QUAD	RF00113	14	148	75	50	146	77	Gene; sRNA;	QUAD RNA
S15	RF00114	47	117	66	51	117	64	Cis-reg; leader;	Ribosomal S15 leader
IS061	RF00115	6	180	92	9	180	93	Gene; sRNA;	IS061 RNA
C0465	RF00116	2	78	99	10	77	100	Gene; sRNA;	C0465 RNA
C0719	RF00117	2	222	99	7	210	99	Gene; sRNA;	C0719 RNA
rydB	RF00118	2	67	91	13	67	96	Gene; sRNA;	rydB RNA
C0299	RF00119	2	79	97	11	79	98	Gene; sRNA;	C0299 RNA
C0343	RF00120	2	75	79	14	75	88	Gene; sRNA;	C0343 RNA
MicC	RF00121	5	121	79	15	121	86	Gene; sRNA;	MicC RNA
GadY	RF00122	2	114	100	8	114	100	Gene; sRNA;	GadY
IS102	RF00124	7	205	90	13	202	91	Gene; sRNA;	IS102 RNA
IS128	RF00125	2	209	100	5	209	99	Gene; sRNA;	IS128 RNA
ryfA	RF00126	4	299	83	13	301	85	Gene; sRNA;	ryfA RNA
t44	RF00127	7	162	77	27	145	72	Gene; sRNA;	t44 RNA
tke1	RF00128	4	149	95	18	153	87	Gene; sRNA;	tke1 RNA
mir-103	RF00129	5	78	87	29	78	85	Gene; miRNA;	mir-103/107 microRNA precursor
mir-192	RF00130	4	107	70	12	106	74	Gene; miRNA;	mir-192/215 microRNA precursor
mir-30	RF00131	4	71	82	21	70	83	Gene; miRNA;	mir-30 microRNA precursor
snoR24	RF00132	12	92	81	45	92	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R24
snoZ195	RF00133	17	83	72	43	85	66	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z195/SNORD33 family
snoZ196	RF00134	23	82	68	35	83	71	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z196/R39/R59 family
snoZ223	RF00135	5	94	83	35	90	82	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z223
SNORD81	RF00136	3	76	90	19	76	82	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD81
SNORD83	RF00137	7	76	84	56	76	85	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD83
SNORD16	RF00138	5	98	80	11	98	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD16
SNORA72	RF00139	7	137	83	17	136	82	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA72
Alpha_RBS	RF00140	15	109	71	44	109	69	Cis-reg;	Alpha operon ribosome binding site
snoZ118	RF00142	7	103	83	42	103	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z118/Z121/Z120
mir-6	RF00143	3	77	73	9	77	80	Gene; miRNA;	mir-6 microRNA precursor
mir-199	RF00144	3	100	81	18	99	88	Gene; miRNA;	mir-199 microRNA precursor
snoZ105	RF00145	5	70	74	17	69	78	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z105
SNORD34	RF00147	9	77	71	34	79	67	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD34
snoZ103	RF00149	9	98	76	42	98	78	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z103
SNORD42	RF00150	7	65	72	14	64	76	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD42
SNORD58	RF00151	3	64	85	20	65	82	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD58
SNORD79	RF00152	6	85	88	9	74	83	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD79
SNORD62	RF00153	3	86	90	8	85	94	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD62
SNORD63	RF00154	2	69	85	3	68	90	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD63
SNORA66	RF00155	3	133	98	8	132	86	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA66
SNORA70	RF00156	13	135	87	90	130	71	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA70
SNORD55	RF00157	4	79	93	15	78	77	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD55/SNORD39
SNORD82	RF00158	3	70	89	10	69	88	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD82
snoZ168	RF00159	6	82	83	18	82	87	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z168/Z174
snoZ159	RF00160	10	89	81	37	87	76	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z159/U59
nos_TCE	RF00161	3	63	89	16	63	90	Cis-reg;	Nanos 3' UTR translation control element
SAM	RF00162	48	110	67	298	110	66	Cis-reg; riboswitch;	SAM riboswitch (S box leader)
Hammerhead_1	RF00163	75	65	61	62	47	71	Gene; ribozyme;	Hammerhead ribozyme (type I)
s2m	RF00164	38	42	78	302	43	80	Cis-reg;	Coronavirus 3' stem-loop II-like motif (s2m)
Corona_pk3	RF00165	14	62	68	85	62	70	Cis-reg;	Coronavirus 3' UTR pseudoknot
PrrB_RsmZ	RF00166	12	157	75	17	157	76	Gene; sRNA;	PrrB/RsmZ RNA family
Purine	RF00167	22	99	54	122	102	56	Cis-reg; riboswitch;	Purine riboswitch
Lysine	RF00168	43	182	48	112	182	49	Cis-reg; riboswitch;	Lysine riboswitch
SRP_bact	RF00169	62	94	51	285	98	50	Gene;	Bacterial signal recognition particle RNA
msr	RF00170	8	70	54	12	71	58	Gene;	Retron msr RNA
Tombus_5	RF00171	9	161	75	40	108	58	Cis-reg;	Tombusvirus 5' UTR
CAESAR	RF00172	9	79	78	41	78	83	Cis-reg;	ctgf/hcs24 CAESAR
Hairpin	RF00173	3	51	78	5	51	82	Gene; ribozyme;	Hairpin ribozyme
Cobalamin	RF00174	128	205	47	306	204	47	Cis-reg; riboswitch;	Cobalamin riboswitch
Retroviral_psi	RF00175	173	117	91	1364	105	84	Cis-reg;	Retroviral Psi packaging element
Tombus_3_IV	RF00176	18	91	93	77	64	95	Cis-reg;	Tombusvirus 3' UTR region IV
SSU_rRNA_5	RF00177	358	477	47	343	487	49	Gene; rRNA;	Small subunit ribosomal RNA, 5' domain
mir-24	RF00178	3	67	80	21	67	86	Gene; miRNA;	mir-24 microRNA precursor family
GAIT	RF00179	8	70	99	11	71	96	Cis-reg;	GAIT element
REN-SRE	RF00180	13	36	89	30	37	90	Cis-reg;	Renin stability regulatory element (REN-SRE)
SNORD113	RF00181	59	74	67	81	75	65	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD113/SNORD114 family
Corona_package	RF00182	15	129	84	23	129	82	Cis-reg;	Coronavirus packaging signal
G-CSF_SLDE	RF00183	6	93	100	19	94	86	Cis-reg;	G-CSF factor stem-loop destabilising element (SLDE)
PVX_3	RF00184	3	54	95	21	54	97	Cis-reg;	Potato virus X cis-acting regulatory element
Flavi_CRE	RF00185	84	94	65	303	95	69	Cis-reg;	Flavivirus 3' UTR cis-acting replication element (CRE)
SNORD101	RF00186	3	73	100	6	73	89	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD101
SNORD102	RF00187	2	72	100	4	71	94	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD102
SNORD103	RF00188	3	90	95	5	89	96	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD103
SNORD95	RF00189	5	67	96	12	68	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD95
SNORA16	RF00190	3	133	81	14	133	78	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA16B/SNORA16A family
SNORA57	RF00191	3	148	93	10	145	84	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA57
BLV_package	RF00192	5	55	96	5	55	96	Cis-reg;	Bovine leukaemia virus RNA packaging signal
CTV_rep_sig	RF00193	9	273	98	24	258	91	Cis-reg;	Citrus tristeza virus replication signal
Rubella_3	RF00194	25	66	95	93	63	97	Cis-reg;	Rubella virus 3' cis-acting element
RsmY	RF00195	4	122	78	9	121	83	Gene; sRNA;	RsmY RNA family
AMV_RNA1_SL	RF00196	4	35	95	8	35	96	Cis-reg;	Alfalfa mosaic virus RNA 1 5' UTR stem-loop
RbcL_stabil	RF00197	3	45	95	25	45	68	Cis-reg;	rbcL 5' UTR RNA stabilising element
SL1	RF00198	32	103	85	98	103	74	Gene;	SL1 RNA
SL2	RF00199	32	110	76	37	109	73	Gene;	SL2 RNA
snoZ199	RF00200	17	82	81	38	83	79	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z199
snoZ278	RF00201	7	114	94	19	114	94	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z278
snoR66	RF00202	6	74	87	35	73	89	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R66
snoR160	RF00203	9	79	73	21	78	77	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R160
snoR12	RF00204	9	83	79	66	80	83	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R12
snoR41	RF00205	7	94	88	15	95	84	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R41
U54	RF00206	22	81	69	45	80	70	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA U54
K10_TLS	RF00207	3	44	100	6	44	100	Cis-reg;	K10 transport/localisation element (TLS)
snoR72	RF00208	4	87	97	10	87	98	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R72
IRES_Pesti	RF00209	25	275	88	997	249	80	Cis-reg; IRES;	Pestivirus internal ribosome entry site (IRES)
IRES_Aptho	RF00210	92	461	82	188	461	72	Cis-reg; IRES;	Aphthovirus internal ribosome entry site (IRES)
SNORD35	RF00211	8	88	72	17	88	77	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD35
SNORD38	RF00212	7	68	80	23	69	76	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD38
snoR38	RF00213	19	85	58	50	84	58	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R38
Retro_dr1	RF00214	26	90	89	124	89	86	Cis-reg;	Retrovirus direct repeat 1 (dr1)
Tombus_3_III	RF00215	28	69	79	66	69	79	Cis-reg;	Tombus virus defective interfering (DI) RNA region 3
IRES_c-myc	RF00216	23	302	98	54	296	80	Cis-reg; IRES;	c-myc internal ribosome entry site (IRES)
SNORD20	RF00217	4	80	99	6	80	100	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD20
SNORD46	RF00218	9	89	69	27	87	71	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD46
SNORD32	RF00219	4	81	91	21	82	90	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD32
Rhino_CRE	RF00220	12	86	81	60	85	72	Cis-reg;	Human rhinovirus internal cis-acting regulatory element (CRE)
SNORD43	RF00221	7	76	62	19	85	62	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD43
IRES_Bag1	RF00222	4	370	99	15	349	86	Cis-reg; IRES;	Bag-1 internal ribosome entry site (IRES)
IRES_Bip	RF00223	4	244	100	10	236	75	Cis-reg; IRES;	bip internal ribosome entry site (IRES)
IRES_FGF2	RF00224	3	497	99	9	435	95	Cis-reg; IRES;	FGF-2 internal ribosome entry site (IRES)
IRES_Tobamo	RF00225	7	151	87	11	152	87	Cis-reg; IRES;	Tobamovirus internal ribosome entry site (IRES)
IRES_n-myc	RF00226	6	323	72	29	269	58	Cis-reg; IRES;	n-myc internal ribosome entry site (IRES)
FIE3	RF00227	5	67	65	10	65	78	Cis-reg;	FIE3 (ftz instability element 3') element
IRES_HepA	RF00228	23	571	96	137	389	95	Cis-reg; IRES;	Hepatitis A virus internal ribosome entry site (IRES)
IRES_Picorna	RF00229	208	251	85	1512	205	80	Cis-reg; IRES;	Picornavirus internal ribosome entry site (IRES)
T-box	RF00230	103	225	42	722	224	46	Cis-reg;	T-box leader
SCARNA13	RF00231	3	274	87	7	273	86	Gene; snRNA; snoRNA; scaRNA;	Small Cajal body specific RNA 13
Spi-1	RF00232	5	164	91	10	165	90	Cis-reg;	Spi-1 (PU.1) 5' UTR regulatory element
Tymo_tRNA-like	RF00233	28	82	68	82	78	65	Cis-reg;	Tymovirus/Pomovirus tRNA-like 3' UTR element
glmS	RF00234	11	182	55	44	186	60	Cis-reg; riboswitch;	glmS glucosamine-6-phosphate activated ribozyme
Plasmid_RNAIII	RF00235	7	129	94	9	130	95	Gene;	Plasmid RNAIII
ctRNA_pGA1	RF00236	15	77	73	21	78	71	Gene; antisense;	ctRNA
mir-9	RF00237	5	62	80	34	61	85	Gene; miRNA;	mir-9/mir-79 microRNA precursor family
ctRNA_pND324	RF00238	48	85	72	52	85	71	Gene; antisense;	ctRNA
mir-124	RF00239	6	81	73	25	80	85	Gene; miRNA;	mir-124 microRNA precursor family
RNA-OUT	RF00240	4	69	85	172	70	96	Gene;	RNA-OUT
mir-8	RF00241	9	77	65	24	77	64	Gene; miRNA;	mir-8/mir-141/mir-200 microRNA precursor family
ctRNA_pT181	RF00242	16	96	79	21	95	77	Gene; antisense;	ctRNA
traJ_5	RF00243	6	108	86	15	108	88	Cis-reg;	traJ 5' UTR
mir-26	RF00244	5	72	74	24	73	80	Gene; miRNA;	mir-26 microRNA precursor family
mir-19	RF00245	3	75	76	43	75	82	Gene; miRNA;	mir-19 microRNA precursor family
mir-135	RF00246	5	90	72	22	90	76	Gene; miRNA;	mir-135 microRNA precursor family
mir-160	RF00247	7	94	66	33	94	65	Gene; miRNA;	mir-160 microRNA precursor family
mir-148	RF00248	5	86	72	9	86	71	Gene; miRNA;	mir-148/mir-152 microRNA precursor family
mir-46	RF00249	4	76	69	8	76	78	Gene; miRNA;	mir-46/mir-47/mir-281 microRNA precursor family
TAR	RF00250	426	56	89	2004	56	91	Cis-reg;	Trans-activation response element (TAR)
mir-219	RF00251	7	71	82	31	72	80	Gene; miRNA;	mir-219 microRNA precursor family
Alfamo_CPB	RF00252	18	182	89	23	159	90	Cis-reg;	Alfalfa mosaic virus coat protein binding (CPB) RNA
mir-101	RF00253	4	75	85	20	75	89	Gene; miRNA;	mir-101 microRNA precursor family
mir-16	RF00254	12	80	73	37	80	76	Gene; miRNA;	mir-16 microRNA precursor family
mir-218	RF00255	3	96	77	23	96	79	Gene; miRNA;	mir-218 microRNA precursor family
mir-196	RF00256	14	90	73	45	91	74	Gene; miRNA;	mir-196 microRNA precursor family
mir-194	RF00257	4	84	73	13	85	79	Gene; miRNA;	mir-194 microRNA precursor family
mir-130	RF00258	3	82	74	15	82	73	Gene; miRNA;	mir-130 microRNA precursor family
IFN_gamma	RF00259	5	168	90	13	160	85	Cis-reg;	Interferon gamma 5' UTR regulatory element
HepC_CRE	RF00260	52	51	87	348	51	87	Cis-reg;	Hepatitis C virus (HCV) cis-acting replication element (CRE)
IRES_L-myc	RF00261	3	219	94	5	220	95	Cis-reg; IRES;	L-myc internal ribosome entry site (IRES)
sar	RF00262	4	68	91	7	65	88	Gene; antisense;	sar RNA
SNORA68	RF00263	4	131	84	12	127	77	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA68
SNORA64	RF00264	9	133	71	17	132	69	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA64/SNORA10 family
SNORA69	RF00265	3	128	91	9	132	77	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA69
snoZ17	RF00266	4	72	82	8	71	79	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z17
snoR64	RF00267	11	94	67	24	94	70	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R64/Z200 family
snoZ7	RF00268	3	78	94	9	80	82	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snoZ7/snoR77
SNORD61	RF00270	3	72	92	6	71	87	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD61
SNORD60	RF00271	3	78	83	9	81	87	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD60
SNORA67	RF00272	10	141	81	21	139	73	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA67
SNORD59	RF00273	4	70	79	11	72	83	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD59
SNORD57	RF00274	3	67	87	5	69	89	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD57
SNORD56	RF00275	7	70	80	14	70	83	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD56
SNORD52	RF00276	4	66	86	19	66	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD52
SNORD49	RF00277	4	71	75	10	68	74	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD49
SNORD50	RF00278	6	71	81	12	70	83	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD50
SNORD45	RF00279	11	74	79	18	75	80	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD45
SNORD51	RF00280	3	75	85	4	75	88	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD51
SNORD47	RF00281	3	73	90	11	74	88	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD47
SNORD48	RF00282	3	63	87	13	63	92	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD48
SCARNA18	RF00283	4	78	90	18	80	87	Gene; snRNA; snoRNA; scaRNA;	small Cajal body-specific RNA 18
SNORD74	RF00284	4	80	88	19	76	77	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD74
snoZ6	RF00285	3	91	93	18	86	78	Gene; snRNA; snoRNA; CD-box;	Z6 small nucleolar RNA
SCARNA8	RF00286	3	126	90	5	128	81	Gene; snRNA; snoRNA; scaRNA;	Small Cajal body specific RNA 8
SNORD44	RF00287	3	60	87	5	60	92	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD44
snoZ30	RF00288	4	96	92	12	97	84	Gene; snRNA; snoRNA; CD-box;	Z30 small nucleolar RNA
SNORND104	RF00289	3	70	86	5	70	87	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD104
BaMV_CRE	RF00290	4	140	99	14	140	100	Cis-reg;	Bamboo mosaic potexvirus (BaMV) cis-regulatory element
snoR639	RF00291	3	136	100	6	138	100	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA snoR639/H1
snoTBR5	RF00292	3	90	76	5	90	80	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA TBR5
snoM1	RF00293	3	99	89	8	99	91	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA snoM1
snoTBR17	RF00294	5	284	85	8	270	76	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA TBR17
snoTBR7	RF00295	6	75	85	9	74	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA TBR7
snoR16	RF00296	17	86	78	18	84	77	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R16
snoZ221	RF00300	3	113	96	7	112	96	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z221
snoZ256	RF00301	5	93	83	10	94	76	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z256
SNORA65	RF00302	8	125	84	9	123	82	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA65
snoR86	RF00303	3	125	88	3	125	88	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA snoR86
snoZ279	RF00304	3	111	92	7	111	94	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z279
snoZ248	RF00305	4	137	98	10	137	98	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z248
snoZ178	RF00306	4	152	100	6	152	100	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z178
snoR98	RF00307	4	108	86	5	110	88	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA snoR98
snosnR60_Z15	RF00309	23	93	63	43	93	64	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR60/Z15/Z230/Z193/J17
snoZ165	RF00310	3	89	94	8	90	95	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z165
snoZ188	RF00311	7	120	74	20	119	77	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z188
snoZ206	RF00312	3	131	93	12	130	89	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z206
snoZ173	RF00313	3	106	99	5	106	100	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z173
snoZ182	RF00314	4	89	96	9	88	96	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z182
snoJ33	RF00315	3	79	79	24	80	68	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA J33
snoR43	RF00316	16	72	87	20	73	83	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R43
snoZ163	RF00317	7	89	82	15	88	84	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z163/Z177 family
snoZ175	RF00318	3	81	99	5	81	100	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z175
SNORA23	RF00319	5	182	93	7	182	83	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA23
snoZ185	RF00320	2	85	98	8	84	92	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z185
snoZ247	RF00321	8	136	82	32	137	70	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z247
SNORA31	RF00322	5	125	85	8	127	88	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA31
snoR79	RF00323	4	64	99	9	63	96	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R79
snoMBII-202	RF00324	5	76	96	11	78	80	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA MBII-202
SNORD53	RF00325	3	74	92	8	76	82	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD53
snoZ155	RF00326	8	77	79	14	78	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z155
snoZ194	RF00327	3	106	99	7	106	99	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z194
snoZ161_228	RF00328	7	89	79	15	92	83	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z161/Z228
snoZ162	RF00329	3	87	89	7	88	90	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z162
snoZ43	RF00330	4	99	88	13	99	82	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z43
snoZ169	RF00331	3	69	87	8	66	89	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z169
snoZ266	RF00332	4	86	86	22	87	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z266
snoZ157	RF00333	10	97	75	26	97	73	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z157/R69/R10
SNORA3	RF00334	6	128	74	31	128	71	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA3/SNORA45 family
snoZ13_snr52	RF00335	4	97	74	10	95	75	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z13/snr52
snoJ26	RF00336	5	149	95	18	146	91	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA J26
snoZ112	RF00337	3	181	96	29	182	91	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z112
snoR53	RF00338	3	89	94	3	89	94	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR53
snoR60	RF00339	3	74	82	26	73	84	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snoR60
SNORA36	RF00340	6	128	85	25	131	80	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA36 family
snoZ39	RF00341	5	61	88	8	61	88	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z39
snoZ40	RF00342	5	72	94	11	73	89	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z40
snoZ122	RF00343	3	86	81	16	84	75	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z122
snoZ267	RF00344	5	72	81	12	73	78	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z267
snoR1	RF00345	7	94	76	20	95	79	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snoR1
SNORD85	RF00347	3	64	90	4	65	93	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD85
snoR9_plant	RF00348	7	129	82	32	126	76	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snoR9
snoR11	RF00349	5	91	86	19	91	85	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R11/Z151
snoZ152	RF00350	4	100	78	12	98	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z152/R70/R12/
snoR20	RF00351	3	91	90	4	91	92	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R20
snoR21	RF00352	4	82	87	8	82	89	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R21
snoR31_Z110_Z27	RF00353	8	94	67	35	95	86	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snoR31/Z110/Z27
snoR28	RF00355	4	74	97	11	74	94	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snoR28
snoR32_R81	RF00356	6	95	83	8	95	85	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R32/R81/Z41
snoR44_J54	RF00357	19	95	70	39	97	70	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R44/J54/Z268 family
snoZ101	RF00358	3	98	98	18	94	72	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z101
snoZ102_R77	RF00359	4	85	85	11	86	89	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z102/R77
snoZ107_R87	RF00360	6	117	85	38	112	81	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z107/R87
snoZ119	RF00361	3	96	94	12	97	94	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z119
Pospi_RY	RF00362	16	79	92	175	77	89	Cis-reg;	Pospiviroid RY motif stem loop
mir-BART1	RF00363	3	70	90	4	70	93	Gene; miRNA;	mir-BART1 microRNA precursor family
mir-BART2	RF00364	8	61	93	14	60	93	Gene; miRNA;	mir-BART2 microRNA precursor family
mir-BHRF1-1	RF00365	3	66	95	6	66	97	Gene; miRNA;	mir-BHRF1-1 microRNA precursor family
mir-BHRF1-2	RF00366	4	65	82	9	65	90	Gene; miRNA;	mir-BHRF1-2 microRNA precursor family
mir-BHRF1-3	RF00367	3	65	100	6	65	100	Gene; miRNA;	mir-BHRF1-3 microRNA precursor family
sroB	RF00368	4	78	87	17	81	87	Gene; sRNA;	sroB RNA
sroC	RF00369	4	162	81	14	162	86	Gene; sRNA;	sroC RNA
sroD	RF00370	3	86	93	17	86	95	Gene; sRNA;	sroD RNA
sroE	RF00371	3	91	93	14	89	95	Gene; sRNA;	sroE RNA
sroH	RF00372	4	160	99	7	160	100	Gene; sRNA;	sroH RNA
RNaseP_arch	RF00373	34	308	52	97	263	64	Gene; ribozyme;	Archaeal RNase P
Gammaretro_CES	RF00374	23	100	89	141	101	92	Cis-reg;	Gammaretrovirus core encapsidation signal
HIV_PBS	RF00375	388	99	93	1609	94	79	Cis-reg;	HIV primer binding site (PBS)
HIV_GSL3	RF00376	1403	84	88	6923	81	87	Cis-reg;	HIV gag stem loop 3 (GSL3)
snoU6-53	RF00377	4	105	82	8	106	83	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA U6-53/MBII-28
Qrr	RF00378	6	108	82	25	103	79	Gene; sRNA;	Qrr RNA
ydaO-yuaA	RF00379	25	143	58	80	155	55	Cis-reg;	ydaO/yuaA leader
ykoK	RF00380	36	167	59	57	168	61	Cis-reg;	ykoK leader
Antizyme_FSE	RF00381	13	57	84	53	57	87	Cis-reg; frameshift_element;	Antizyme RNA frameshifting stimulation element
DnaX	RF00382	3	65	72	20	65	85	Cis-reg; frameshift_element;	DnaX ribosomal frameshifting element
IS1222_FSE	RF00383	6	117	93	13	117	95	Cis-reg; frameshift_element;	Insertion sequence IS1222 ribosomal frameshifting element
Pox_AX_element	RF00384	7	62	93	22	62	96	Cis-reg;	Poxvirus AX element late mRNA cis-regulatory element
IBV_D-RNA	RF00385	10	41	94	41	41	96	Cis-reg;	Infectious bronchitis virus D-RNA
Entero_5_CRE	RF00386	160	89	83	287	88	84	Cis-reg;	Enterovirus 5' cloverleaf cis-acting replication element
IRES_FGF1	RF00387	6	165	87	10	166	84	Cis-reg; IRES;	FGF-1 internal ribosome entry site (IRES)
QaRNA	RF00388	5	103	70	7	103	73	Gene; antisense;	Qa RNA
satBaMV_CRE	RF00389	42	158	93	74	157	94	Cis-reg;	Bamboo mosaic virus satellite RNA cis-regulatory element
UPSK	RF00390	4	23	93	25	23	97	Cis-reg;	UPSK RNA
RtT	RF00391	16	170	75	91	169	67	Cis-reg;	RtT RNA
SNORA5	RF00392	6	134	75	12	131	75	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA5
SNORA8	RF00393	5	139	90	14	135	86	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA8
SNORA4	RF00394	7	140	76	13	138	76	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA4
SNORA13	RF00396	3	132	87	8	132	87	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA13
SNORA14	RF00397	3	134	93	6	134	92	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA14
SNORA15	RF00398	4	127	87	9	128	84	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA15
SNORA24	RF00399	5	129	89	17	125	74	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA24
SNORA28	RF00400	3	124	95	3	124	95	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA28
SNORA20	RF00401	17	129	87	34	128	88	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA20
SNORA25	RF00402	9	126	83	29	128	74	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA25
SNORA41	RF00403	6	128	89	8	129	88	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA41
SNORA46	RF00404	3	134	84	8	125	82	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA46
SNORA44	RF00405	6	126	85	17	127	81	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA44
SNORA42	RF00406	21	134	79	46	133	77	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA42/SNORA80 family
SNORA50	RF00407	3	135	98	4	135	98	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA50
SNORA1	RF00408	6	133	85	11	132	87	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA1
SNORA7	RF00409	8	138	84	45	137	70	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA7
SNORA2	RF00410	18	135	75	27	134	72	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA2/SNORA34 family
SNORA9	RF00411	6	132	89	14	130	87	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA9
SNORA21	RF00412	5	133	88	13	133	86	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA21
SNORA19	RF00413	4	111	93	9	121	91	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA19
SNORA22	RF00414	5	135	90	6	135	91	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA22
SNORA30	RF00415	11	129	73	14	129	72	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA30/SNORA37 family
SNORA43	RF00416	7	136	79	20	135	72	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA43
SNORA56	RF00417	4	130	96	7	129	98	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA56
SNORA58	RF00418	4	133	84	7	134	86	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA58
SNORA52	RF00419	4	134	80	9	135	75	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA52
SNORA61	RF00420	4	129	81	15	128	77	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA61
SNORA32	RF00421	9	121	84	33	116	78	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA32
SCARNA24	RF00422	3	132	84	7	133	84	Gene; snRNA; snoRNA; scaRNA;	Small Cajal body specific RNA 24
SCARNA4	RF00423	3	126	86	12	127	87	Gene; snRNA; snoRNA; scaRNA;	Small Cajal body specific RNA 4
SCARNA16	RF00424	6	186	87	9	182	81	Gene; snRNA; snoRNA; scaRNA;	Small Cajal body specific RNA 16
SNORA18	RF00425	6	129	84	19	126	79	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA18
SCARNA15	RF00426	3	126	91	8	124	96	Gene; snRNA; snoRNA; scaRNA;	Small Cajal body specific RNA 15
SCARNA23	RF00427	3	126	90	4	126	92	Gene; snRNA; snoRNA; scaRNA;	Small Cajal body specific RNA 23
SNORA38	RF00428	5	131	86	26	132	84	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA38
SNORA29	RF00429	3	134	85	10	137	81	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA29
SNORA54	RF00430	5	127	60	10	126	74	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA54
SNORA55	RF00431	3	132	89	14	126	84	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA55
SNORA51	RF00432	9	132	82	35	131	74	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA51
Hsp90_CRE	RF00433	4	152	97	7	152	98	Cis-reg; thermoregulator;	Hsp90 cis-regulatory element
BTE	RF00434	17	101	71	32	101	73	Cis-reg;	Luteovirus cap-independent translation element (BTE)
ROSE	RF00435	13	101	59	20	94	64	Cis-reg; thermoregulator;	Repression of heat shock gene expression (ROSE) element
UnaL2	RF00436	30	54	77	5255	54	78	Cis-reg;	UnaL2 LINE 3' element
HLE	RF00437	4	131	98	20	130	88	Cis-reg;	Hairy RNA localisation element (HLE)
SNORA33	RF00438	5	124	83	11	125	77	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA33
SNORD87	RF00439	4	77	96	7	81	93	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD87
SNORD37	RF00440	7	63	81	11	64	78	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA SNORD37
snoZ242	RF00441	4	197	87	11	191	82	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA Z242
ykkC-yxkD	RF00442	11	105	60	35	106	62	Cis-reg;	ykkC-yxkD leader
SNORA27	RF00443	3	128	90	11	127	87	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA SNORA27
PrrF	RF00444	5	149	86	14	148	84	Gene; sRNA;	PrrF RNA
mir-399	RF00445	13	113	59	41	113	57	Gene; miRNA;	mir-399 microRNA precursor family
mir-133	RF00446	9	88	75	27	88	82	Gene; miRNA;	mir-133 microRNA precursor family
IRES_Kv1_4	RF00447	6	256	89	9	255	91	Cis-reg; IRES;	Voltage-gated potassium-channel Kv1.4 IRES
IRES_EBNA	RF00448	4	212	81	14	214	65	Cis-reg; IRES;	Epstein-Barr virus nuclear antigen (EBNA) IRES
IRES_HIF1	RF00449	7	272	84	12	270	84	Cis-reg; IRES;	HIF-1 alpha IRES
snoR105_108	RF00450	7	103	78	7	103	78	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA R105/R108
mir-395	RF00451	21	102	64	107	99	64	Gene; miRNA;	mir-395 microRNA precursor family
mir-172	RF00452	8	114	62	19	113	66	Gene; miRNA;	mir-172 microRNA precursor family
Cardiovirus_CRE	RF00453	12	33	82	30	33	85	Cis-reg;	Cardiovirus cis-acting replication element (CRE)
p27_CRE	RF00454	4	57	91	9	58	92	Cis-reg;	p27 cis-regulatory element
mir-15	RF00455	4	85	69	29	85	80	Gene; miRNA;	mir-15 microRNA precursor family
mir-34	RF00456	18	87	74	20	87	71	Gene; miRNA;	mir-34 microRNA precursor family
IRES_mnt	RF00457	4	203	97	7	203	97	Cis-reg; IRES;	Mnt IRES
IRES_Cripavirus	RF00458	7	198	54	8	198	56	Cis-reg; IRES;	Cripavirus internal ribosome entry site (IRES)
MPMV_package	RF00459	4	277	84	14	274	80	Cis-reg;	Mason-Pfizer monkey virus packaging signal
U1A_PIE	RF00460	8	74	77	27	74	80	Cis-reg;	U1A polyadenylation inhibition element (PIE)
IRES_VEGF_A	RF00461	7	303	90	13	305	92	Cis-reg; IRES;	Vascular endothelial growth factor (VEGF) IRES A
IRES_APC	RF00462	6	53	85	8	53	85	Cis-reg; IRES;	APC internal ribosome entry site (IRES)
ApoB_5_CRE	RF00463	3	125	86	12	118	95	Cis-reg;	Apolipoprotein B (apoB) 5' UTR cis-regulatory element
mir-92	RF00464	33	79	64	45	79	63	Gene; miRNA;	mir-92 microRNA precursor family
JEV_hairpin	RF00465	20	59	86	213	59	84	Cis-reg;	Japanese encephalitis virus (JEV) hairpin structure
RSV_PBS	RF00467	23	75	93	101	72	83	Cis-reg;	Rous sarcoma virus (RSV) primer binding site (PBS)
HCV_SLVII	RF00468	110	65	74	497	65	79	Cis-reg;	Hepatitis C virus stem-loop VII
HCV_SLIV	RF00469	110	36	86	344	37	89	Cis-reg;	Hepatitis C stem-loop IV
Toga_5_CRE	RF00470	33	266	80	78	255	73	Cis-reg;	Togavirus 5' plus strand cis-regulatory element
snosnR48	RF00471	6	108	75	8	109	79	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR48
snosnR55	RF00472	6	89	75	9	88	75	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR55/Z10
snosnR54	RF00473	9	85	76	16	81	77	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR54
snosnR57	RF00474	6	90	75	8	91	76	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR57
snosnR69	RF00475	7	96	63	14	95	61	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR69
snosnR61	RF00476	17	83	69	20	82	69	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR61/Z1/Z11
snosnR66	RF00477	5	100	72	9	100	82	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR66
SCARNA6	RF00478	4	261	86	9	265	63	Gene; snRNA; snoRNA; scaRNA;	Small Cajal body specific RNA 6
snosnR71	RF00479	7	92	74	7	92	74	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA snR71
HIV_FE	RF00480	853	52	88	4437	51	90	Cis-reg; frameshift_element;	HIV Ribosomal frameshift signal
HCV_X3	RF00481	22	99	96	77	100	97	Cis-reg;	Hepatitis C virus 3'X element
snoF1_F2	RF00482	8	139	86	19	136	85	Gene; snRNA; snoRNA; HACA-box;	Small nucleolar RNA F1/F2/snoR5a
IRES_IGF2	RF00483	9	120	94	36	118	95	Cis-reg; IRES;	Insulin-like growth factor II IRES
IRES_Cx32	RF00484	6	144	93	11	147	93	Cis-reg; IRES;	Connexin-32 internal ribosome entry site (IRES)
K_chan_RES	RF00485	85	114	68	364	113	65	Cis-reg;	Potassium channel RNA editing signal
mir-129	RF00486	6	90	83	10	91	82	Gene; miRNA;	mir-129 microRNA precursor family
IRES_Cx43	RF00487	14	198	87	30	195	80	Cis-reg; IRES;	Connexin-43 internal ribosome entry site (IRES)
U1_yeast	RF00488	5	566	63	9	553	63	Gene; snRNA; splicing;	Yeast U1 spliceosomal RNA
ctRNA_p42d	RF00489	14	76	74	33	76	66	Gene; antisense;	ctRNA
S-element	RF00490	12	68	79	24	68	77	Cis-reg;	S-element
SVLPA	RF00491	6	53	96	38	54	99	Cis-reg;	Simian virus 40 late polyadenylation signal (SVLPA)
SCARNA17	RF00492	6	141	76	16	141	82	Gene; snRNA; snoRNA; scaRNA;	small Cajal body-specific RNA 17
snoU2-30	RF00493	3	70	95	7	69	87	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA U2-30
snoU2_19	RF00494	4	80	89	7	78	87	Gene; snRNA; snoRNA; CD-box;	Small nucleolar RNA U2-19
IRES_Hsp70	RF00495	14	211	80	38	209	81	Cis-reg; IRES;	Heat shock protein 70 (Hsp70) internal ribosome entry site (IRES)
Corona_SL-III	RF00496	5	42	93	13	42	96	Cis-reg;	Coronavirus SL-III cis-acting replication element (CRE)
EAV_LTH	RF00498	4	45	98	12	45	99	Cis-reg;	Equine arteritis virus leader TRS hairpin (LTH)
Parecho_CRE	RF00499	5	111	87	6	112	86	Cis-reg;	Human parechovirus 1 (HPeV1) cis regulatory element (CRE)
TCV_H5	RF00500	3	45	96	5	45	97	Cis-reg;	Turnip crinkle virus (TCV) repressor of minus strand synthesis H5
Rota_CRE	RF00501	14	67	87	17	67	86	Cis-reg;	Rotavirus cis-acting replication element (CRE)
TCV_Pr	RF00502	4	52	94	5	52	95	Cis-reg;	Turnip crinkle virus (TCV) core promoter hairpin (Pr)
RNAIII	RF00503	12	496	87	16	506	87	Gene;	RNAIII
Glycine	RF00504	93	103	50	217	102	50	Cis-reg; riboswitch;	Glycine riboswitch
RydC	RF00505	2	65	80	12	64	91	Gene; sRNA;	RydC RNA
Thr_leader	RF00506	24	121	80	33	124	81	Cis-reg;	Threonine operon leader
Corona_FSE	RF00507	23	82	66	183	82	80	Cis-reg; frameshift_element;	Coronavirus frameshifting stimulation element
snosnR64