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

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



General features for molecule RFA_00604
(click to expand/contract all tables)

Format:
Molecule ID [?]:RFA_00604
Molecule name [?]:Ciliate telomerase RNA, RF00025, AF417612.1/228-392
Source [?]:Rfam Database
Source ID [?]:RF00025 AF417612.1/392-228
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 [?]:Ciliate Telomerase 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 [?]:165
Fragments used [?]:N/A
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:2
Number of unpaired bases [?]:95
Number of paired bases [?]:70

Click on any header below for additional features.

Stem features

Number of stems [?]:8
Number of base pairs in stems [?]:35
Maximum length of a stem [?]:8
Average length of a stem [?]:4.38
Minimum length of a stem [?]:3
Maximum estimated free energy [?]:-2
Average estimated free energy [?]:-5.54
Minimum estimated free energy [?]:-11.1

Hairpin loop features

Number of hairpin loops [?]:3
Maximum number of free bases in hairpin loops [?]:8
Average number of free bases in hairpin loops [?]:6.67
Minimum number of free bases in hairpin loop [?]:5

Bulge loop features
Number of bulge loops [?]:1
Maximum number of free bases in bulge loops [?]:2
Average number of free bases in bulge loops [?]:1
Minimum number of free bases in bulge loop [?]:0

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

Multi-loop features
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:37
Average number of free bases in multi-loops:18
Minimum number of free bases in multi-loop:5
Maximum multi-loop absolute asymmetry:32
Average multi-loop absolute asymmetry:21.33
Minimum multi-loop absolute asymmetry:7
Maximum multi-loop relative asymmetry:7.4
Average multi-loop relative asymmetry:2.29
Minimum multi-loop relative asymmetry:0.14
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 AC non-canonical base pairs:1
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