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

General features for molecule RFA_00813 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: RFA_00813 Molecule name [?]: R2 RNA element, RF00524, U13034.1/1423-1648 Source [?]: Rfam Database Source ID [?]: RF00524 U13034.1/1648-1423 Reference [?]: Sam Griffiths-Jones, Simon Moxon, Mhairi Marshall, Ajay Khanna, Sean R. Eddy and Alex Bateman, Rfam: annotating non-coding RNAs in complete genomes, Nucleic Acids Res. 2005 33:D121-D124. Type [?]: Other 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 [?]: 226 Fragments used [?]: N/A Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 144 Number of paired bases [?]: 82

Click on any header below for additional features.

Stem features Number of stems [?]: 8 Number of base pairs in stems [?]: 41 Maximum length of a stem [?]: 6 Average length of a stem [?]: 5.12 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -5.4 Average estimated free energy [?]: -8.13 Minimum estimated free energy [?]: -11.8

Hairpin loop features Number of hairpin loops [?]: 3 Maximum number of free bases in hairpin loops [?]: 24 Average number of free bases in hairpin loops [?]: 14 Minimum number of free bases in hairpin loop [?]: 4 Total number of UUCG hairpin motifs per molecule [?]: 1

Bulge loop features Number of bulge loops [?]: 2 Maximum number of free bases in bulge loops [?]: 22 Average number of free bases in bulge loops [?]: 7 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 2 Maximum number of free bases in internal loops: 4 Average number of free bases in internal loops: 2.5 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 1 Average internal loop absolute asymmetry: 1 Minimum internal loop absolute asymmetry: 1 Maximum internal loop relative asymmetry: 2 Average internal loop relative asymmetry: 1.5 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 14 Average number of free bases in multi-loops: 6.67 Minimum number of free bases in multi-loop: 1 Maximum multi-loop absolute asymmetry: 13 Average multi-loop absolute asymmetry: 8.67 Minimum multi-loop absolute asymmetry: 4 Maximum multi-loop relative asymmetry: 14 Average multi-loop relative asymmetry: 3.74 Minimum multi-loop relative asymmetry: 0.07 Maximum number of branches in multi-loops: 3 Average number of branches in multi-loops: 3 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 2 Total number of AG non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 1

Pseudoknot features