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

    [ Home | Search | Analyse | Submit structures | News | Help ]



General features for molecule CRW_00748
(click to expand/contract all tables)

Format:
Molecule ID [?]:CRW_00748
Molecule name [?]:a.I2.m.P.hybrida.A.OX2.i1
Source [?]:Gutell Lab CRW Site
Source ID [?]:a.I2.m.P.hybrida.A.OX2.i1
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 [?]:Group II Intron

[?]     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 [?]:1456
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:6
Number of unpaired bases [?]:1156
Number of paired bases [?]:300

Click on any header below for additional features.

Stem features

Number of stems [?]:34
Number of base pairs in stems [?]:150
Maximum length of a stem [?]:9
Average length of a stem [?]:4.41
Minimum length of a stem [?]:2
Maximum estimated free energy [?]:-1.4
Average estimated free energy [?]:-7.06
Minimum estimated free energy [?]:-14.7

Hairpin loop features

Number of hairpin loops [?]:13
Maximum number of free bases in hairpin loops [?]:754
Average number of free bases in hairpin loops [?]:66.54
Minimum number of free bases in hairpin loop [?]:4

Bulge loop features
Number of bulge loops [?]:10
Maximum number of free bases in bulge loops [?]:7
Average number of free bases in bulge loops [?]:1.1
Minimum number of free bases in bulge loop [?]:0

Internal loop features
Number of internal loops [?]:6
Maximum number of free bases in internal loops:25
Average number of free bases in internal loops:5.92
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:8
Average internal loop absolute asymmetry:2.17
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:3
Average internal loop relative asymmetry:1.5
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:5
Maximum number of free bases in multi-loops:25
Average number of free bases in multi-loops:4.47
Minimum number of free bases in multi-loop:0
Maximum multi-loop absolute asymmetry:19
Average multi-loop absolute asymmetry:3.83
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:11
Average multi-loop relative asymmetry:1.24
Minimum multi-loop relative asymmetry:0
Maximum number of branches in multi-loops:4
Average number of branches in multi-loops:3.4
Minimum number of branches in multi-loops:3

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

Pseudoknot features



    [ Home | Search | Analyse | Submit structures | News | Help ]

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

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