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

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General features for molecule RFA_00599
(click to expand/contract all tables)

Format:
Molecule ID [?]:RFA_00599
Molecule name [?]:Vertebrate telomerase RNA, RF00024, AF221921.1/98-548
Source [?]:Rfam Database
Source ID [?]:RF00024 AF221921.1/548-98
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 [?]:Vertebrate 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 [?]:451
Fragments used [?]:N/A
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:3
Number of unpaired bases [?]:229
Number of paired bases [?]:222

Click on any header below for additional features.

Stem features

Number of stems [?]:16
Number of base pairs in stems [?]:79
Maximum length of a stem [?]:9
Average length of a stem [?]:4.94
Minimum length of a stem [?]:1
Maximum estimated free energy [?]:0
Average estimated free energy [?]:-9.06
Minimum estimated free energy [?]:-16.9

Hairpin loop features

Number of hairpin loops [?]:3
Maximum number of free bases in hairpin loops [?]:13
Average number of free bases in hairpin loops [?]:8.67
Minimum number of free bases in hairpin loop [?]:5

Bulge loop features
Number of bulge loops [?]:6
Maximum number of free bases in bulge loops [?]:3
Average number of free bases in bulge loops [?]:0.75
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:23
Average number of free bases in internal loops:5.17
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:20
Average internal loop absolute asymmetry:5.67
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:7
Average internal loop relative asymmetry:3.17
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:7
Average number of free bases in multi-loops:5
Minimum number of free bases in multi-loop:1
Maximum multi-loop absolute asymmetry:6
Average multi-loop absolute asymmetry:4
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:7
Average multi-loop relative asymmetry:2.71
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 [?]: 7
Total number of AA non-canonical base pairs:1
Total number of AC non-canonical base pairs:1
Total number of AG non-canonical base pairs:2
Total number of CU non-canonical base pairs:3

Pseudoknot features
Number of pseudoknots [?]:1
Number of bands:2
Number of base pairs in bands:32
Maximum band length:23
Average band length:16
Minimum band length:9
Maximum number of bands per pseudoknot:2
Average number of bands per pseudoknot:2
Minimum number of bands per pseudoknot:2
Maximum number of un-bands:0
Average number of un-bands:0
Minimum number of un-bands:0
Maximum number of in-bands:0
Average number of in-bands:0
Minimum number of in-bands:0
Maximum number of unpaired bases:93
Average number of unpaired bases:93
Minimum number of unpaired bases:93
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:9
Maximum number of base pairs to remove, per pseudoknot:9
Average number of base pairs to remove, per pseudoknot:9
Minimum number of base pairs to remove, per pseudoknot:9
Minimum number of bands to remove, per molecule:1
Maximum number of bands to remove, per pseudoknot:1
Average number of bands to remove, per pseudoknot:1
Minimum number of bands to remove, per pseudoknot:1



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