RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

Search Criteria (click here to expand/contract) General features Type: Any Organism: Any Source: Any , Source ID: Any Length: Any Validated by NMR or X-Ray: I don't care Number of molecules in complex: Any Fragment: I don't care Duplicates: All molecules Sequence pattern: Any Abstract shape: Any Bulge loop features Number of bulge loops, per molecule: Greater than or equal to 1

Search results: 2898 results found. (Click on the row to see the statistics for the chosen molecule.) RNA STRAND ID [?] Molecule name [?] Type [?] Organism [?] Source [?] Source ID [?] Length [?] RFA_00655 Vimentin 3 prime UTR protein-binding region, RF00109, X16843.1/1495-1568 Cis-reg. element Unknown Rfam Database RF00109 X16843.1/1568-1495 74 RFA_00656 Vimentin 3 prime UTR protein-binding region, RF00109, X62952.1/1534-1599 Cis-reg. element Unknown Rfam Database RF00109 X62952.1/1599-1534 66 RFA_00657 Vimentin 3 prime UTR protein-binding region, RF00109, X87227.1/1201-1266 Cis-reg. element Unknown Rfam Database RF00109 X87227.1/1266-1201 66 RFA_00695 Hammerhead ribozyme (type I), RF00163, AF404054.1/70-188 Ham. Ribozyme Unknown Rfam Database RF00163 AF404054.1/188-70 119 RFA_00730 Coronavirus 3 prime stem-loop II-like motif (s2m), RF00164, AB033998.1/6702-6744 Other RNA Unknown Rfam Database RF00164 AB033998.1/6744-6702 43 RFA_00731 Coronavirus 3 prime stem-loop II-like motif (s2m), RF00164, AB037273.1/2393-2435 Other RNA Unknown Rfam Database RF00164 AB037273.1/2435-2393 43 RFA_00732 Coronavirus 3 prime stem-loop II-like motif (s2m), RF00164, AB046864.1/2311-2353 Other RNA Unknown Rfam Database RF00164 AB046864.1/2353-2311 43 RFA_00733 Coronavirus 3 prime stem-loop II-like motif (s2m), RF00164, AF056197.1/2428-2470 Other RNA Unknown Rfam Database RF00164 AF056197.1/2470-2428 43 RFA_00734 Coronavirus 3 prime stem-loop II-like motif (s2m), RF00164, AF111995.1/1596-1638 Other RNA Unknown Rfam Database RF00164 AF111995.1/1638-1596 43 RFA_00735 Coronavirus 3 prime stem-loop II-like motif (s2m), RF00164, AF111997.1/1443-1485 Other RNA Unknown Rfam Database RF00164 AF111997.1/1485-1443 43

Analyse the 2898 results of your search Per molecule: Molecule length Number of stems Number of hairpin loops Number of bulges Number of internal loops Number of multi-loops Number of pseudoknots Number of bands Number of domains # base pairs to break for pseudoknot freeness # bands to break for pseudoknot freeness Average stem length Average hairpin size Average bulge size Average internal loop size Average multi-loop size Cumulative distribution Histograms Correlation vs. molecule length In all 2898 molecules: Stem length Stem free energy (estimated) Hairpin number of free bases Bulge number of free bases Internal loop number of free bases Internal loop absolute asymmetry Multi-loop number of free bases Multi-loop average absolute asymmetry Multi-loop number of branches Exterior loop number of free bases Pseudoknot number of bands Pseudoknot - min # of base pairs to break Pseudoknot - min # of bands to break Pseudoknot length Number of non-canonical base pairs and nearest neighbours Cumulative distribution Histograms (Cummulative distributions are not applicable to non-canonical base pairs) Remove outliers (not applicable to correlations and non-canonical base pairs) [?] Normalize by RNA type (not applicable to non-canonical base pairs) [?]

Download all 2898 results of your search Format [?]: CT (one file per entry) RNAML (one file per entry) BPSEQ (one file per entry) Dot-parentheses (one file per entry) Dot-parentheses (one file for all entries) FASTA (one file per entry) FASTA (one file for all entries)