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

General features for molecule RFA_00623 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: RFA_00623 Molecule name [?]: RNase MRP, RF00030, AY090604.1/1-297 Source [?]: Rfam Database Source ID [?]: RF00030 AY090604.1/297-1 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 [?]: Ribonuclease MRP 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 [?]: 297 Fragments used [?]: N/A Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 141 Number of paired bases [?]: 156

Click on any header below for additional features.

Stem features Number of stems [?]: 13 Number of base pairs in stems [?]: 78 Maximum length of a stem [?]: 10 Average length of a stem [?]: 6 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -0.5 Average estimated free energy [?]: -7.71 Minimum estimated free energy [?]: -13.8

Hairpin loop features Number of hairpin loops [?]: 6 Maximum number of free bases in hairpin loops [?]: 8 Average number of free bases in hairpin loops [?]: 4.83 Minimum number of free bases in hairpin loop [?]: 3

Bulge loop features Number of bulge loops [?]: 4 Maximum number of free bases in bulge loops [?]: 8 Average number of free bases in bulge loops [?]: 2 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: 10 Average number of free bases in internal loops: 6 Minimum number of free bases in internal loop: 2 Maximum internal loop absolute asymmetry: 2 Average internal loop absolute asymmetry: 2 Minimum internal loop absolute asymmetry: 2 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: 19 Average number of free bases in multi-loops: 9.17 Minimum number of free bases in multi-loop: 1 Maximum multi-loop absolute asymmetry: 18 Average multi-loop absolute asymmetry: 8.6 Minimum multi-loop absolute asymmetry: 1 Maximum multi-loop relative asymmetry: 19 Average multi-loop relative asymmetry: 2.84 Minimum multi-loop relative asymmetry: 0.05 Maximum number of branches in multi-loops: 6 Average number of branches in multi-loops: 6 Minimum number of branches in multi-loops: 6

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 3 Total number of AG non-canonical base pairs: 1 Total number of CU non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 1

Pseudoknot features

For questions, comments, suggestions and bug reports, please contact:

Copyright © 2004-2008 BETA LAB - University of British Columbia