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

General features for molecule CRW_00533 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: CRW_00533 Molecule name [?]: d.233.m.C.elegans Source [?]: Gutell Lab CRW Site Source ID [?]: d.233.m.C.elegans 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 [?]: 953 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 8 Number of unpaired bases [?]: 515 Number of paired bases [?]: 438

Click on any header below for additional features.

Stem features Number of stems [?]: 49 Number of base pairs in stems [?]: 219 Maximum length of a stem [?]: 14 Average length of a stem [?]: 4.47 Minimum length of a stem [?]: 1 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -4.58 Minimum estimated free energy [?]: -17

Hairpin loop features Number of hairpin loops [?]: 23 Maximum number of free bases in hairpin loops [?]: 15 Average number of free bases in hairpin loops [?]: 5.7 Minimum number of free bases in hairpin loop [?]: 3

Bulge loop features Number of bulge loops [?]: 9 Maximum number of free bases in bulge loops [?]: 2 Average number of free bases in bulge loops [?]: 0.78 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 9 Maximum number of free bases in internal loops: 6 Average number of free bases in internal loops: 2.17 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 3 Average internal loop absolute asymmetry: 1 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 4 Average internal loop relative asymmetry: 1.67 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 8 Maximum number of free bases in multi-loops: 43 Average number of free bases in multi-loops: 6.68 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 42 Average multi-loop absolute asymmetry: 7.72 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 43 Average multi-loop relative asymmetry: 3.01 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 5 Average number of branches in multi-loops: 3.88 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 18 Total number of AA non-canonical base pairs: 5 Total number of AG non-canonical base pairs: 4 Total number of CU non-canonical base pairs: 2 Total number of GG non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 6

Pseudoknot features