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_00635 Hepatitis delta virus ribozyme, RF00094, M28267.1/687-775 HDV Ribozyme Hepatitis delta virus Rfam Database RF00094 M28267.1/775-687 89 RFA_00636 Hepatitis delta virus ribozyme, RF00094, M84917.1/684-773 HDV Ribozyme Hepatitis delta virus Rfam Database RF00094 M84917.1/773-684 90 RFA_00637 Hepatitis delta virus ribozyme, RF00094, M92448.1/681-769 HDV Ribozyme Hepatitis delta virus Rfam Database RF00094 M92448.1/769-681 89 RFA_00638 Hepatitis delta virus ribozyme, RF00094, U81988.1/679-767 HDV Ribozyme Hepatitis delta virus Rfam Database RF00094 U81988.1/767-679 89 RFA_00639 7SK RNA, RF00100, X04992.1/244-574 7SK RNA Unknown Rfam Database RF00100 X04992.1/574-244 331 RFA_00640 Vimentin 3 prime UTR protein-binding region, RF00109, AB169770.1/1641-1705 Cis-reg. element Unknown Rfam Database RF00109 AB169770.1/1705-1641 65 RFA_00641 Vimentin 3 prime UTR protein-binding region, RF00109, AB188279.1/1604-1668 Cis-reg. element Unknown Rfam Database RF00109 AB188279.1/1668-1604 65 RFA_00642 Vimentin 3 prime UTR protein-binding region, RF00109, AF447708.1/1750-1826 Cis-reg. element Unknown Rfam Database RF00109 AF447708.1/1826-1750 77 RFA_00643 Vimentin 3 prime UTR protein-binding region, RF00109, AJ493266.1/1523-1589 Cis-reg. element Unknown Rfam Database RF00109 AJ493266.1/1589-1523 67 RFA_00644 Vimentin 3 prime UTR protein-binding region, RF00109, BC045233.1/1484-1557 Cis-reg. element Unknown Rfam Database RF00109 BC045233.1/1557-1484 74

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)