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

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General features for molecule RFA_00616
(click to expand/contract all tables)

Format:
Molecule ID [?]:RFA_00616
Molecule name [?]:Ciliate telomerase RNA, RF00025, U45433.1/242-456
Source [?]:Rfam Database
Source ID [?]:RF00025 U45433.1/456-242
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 [?]:215
Fragments used [?]:N/A
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:2
Number of unpaired bases [?]:137
Number of paired bases [?]:78

Click on any header below for additional features.

Stem features

Number of stems [?]:9
Number of base pairs in stems [?]:39
Maximum length of a stem [?]:8
Average length of a stem [?]:4.33
Minimum length of a stem [?]:3
Maximum estimated free energy [?]:-2
Average estimated free energy [?]:-4.83
Minimum estimated free energy [?]:-10.4

Hairpin loop features

Number of hairpin loops [?]:3
Maximum number of free bases in hairpin loops [?]:15
Average number of free bases in hairpin loops [?]:9.33
Minimum number of free bases in hairpin loop [?]:6

Bulge loop features
Number of bulge loops [?]:2
Maximum number of free bases in bulge loops [?]:5
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 [?]:3
Maximum number of free bases in internal loops:11
Average number of free bases in internal loops:4.33
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:4
Average internal loop absolute asymmetry:2
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:2
Average internal loop relative asymmetry:1.33
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:7
Maximum multi-loop absolute asymmetry:30
Average multi-loop absolute asymmetry:20
Minimum multi-loop absolute asymmetry:3
Maximum multi-loop relative asymmetry:5.29
Average multi-loop relative asymmetry:1.93
Minimum multi-loop relative asymmetry:0.19
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 [?]: 4
Total number of AC non-canonical base pairs:1
Total number of CU non-canonical base pairs:1
Total number of UU non-canonical base pairs:2

Pseudoknot features



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