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

General features for molecule CRW_00470 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: CRW_00470 Molecule name [?]: d.233.a.T.celer Source [?]: Gutell Lab CRW Site Source ID [?]: d.233.a.T.celer Reference [?]: http://www.rna.ccbb.utexas.edu; Cannone J.J., Subramanian S., Schnare M.N., Collett J.R., D Souza L.M., Du Y., Feng B., Lin N., Madabusi L.V., Muller K.M., Pande N., Shang Z., Yu N., and Gutell R.R. (2002). The Comparative RNA Web (CRW) Site: An Online Database of Comparative Sequence and Structure Information for Ribosomal, Intron, and other RNAs. BioMed Central Bioinformatics, 3:2. [Correction: BioMed Central Bioinformatics. 3:15.] Type [?]: 23S Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: N/A Validated by NMR or X-Ray [?]: No Method for secondary structure determination [?]: Comparative sequence analysis Number of molecules [?]: 1 Length [?]: 3029 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 1271 Number of paired bases [?]: 1758

Click on any header below for additional features.

Stem features Number of stems [?]: 191 Number of base pairs in stems [?]: 879 Maximum length of a stem [?]: 18 Average length of a stem [?]: 4.6 Minimum length of a stem [?]: 1 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -9.45 Minimum estimated free energy [?]: -41.9

Hairpin loop features Number of hairpin loops [?]: 73 Maximum number of free bases in hairpin loops [?]: 15 Average number of free bases in hairpin loops [?]: 5.6 Minimum number of free bases in hairpin loop [?]: 3 Total number of UUCG hairpin motifs per molecule [?]: 1

Bulge loop features Number of bulge loops [?]: 42 Maximum number of free bases in bulge loops [?]: 9 Average number of free bases in bulge loops [?]: 0.82 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 46 Maximum number of free bases in internal loops: 19 Average number of free bases in internal loops: 3.72 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 10 Average internal loop absolute asymmetry: 1.7 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 6 Average internal loop relative asymmetry: 1.78 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 30 Maximum number of free bases in multi-loops: 15 Average number of free bases in multi-loops: 3.42 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 15 Average multi-loop absolute asymmetry: 3.08 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 15 Average multi-loop relative asymmetry: 1.22 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 13 Average number of branches in multi-loops: 4.4 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 19 Total number of AA non-canonical base pairs: 1 Total number of AC non-canonical base pairs: 3 Total number of AG non-canonical base pairs: 12 Total number of UU non-canonical base pairs: 3

Pseudoknot features