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

General features for molecule RFA_00597 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: RFA_00597 Molecule name [?]: Vertebrate telomerase RNA, RF00024, AF221910.1/112-554 Source [?]: Rfam Database Source ID [?]: RF00024 AF221910.1/554-112 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 [?]: 443 Fragments used [?]: N/A Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 225 Number of paired bases [?]: 218

Click on any header below for additional features.

Stem features Number of stems [?]: 14 Number of base pairs in stems [?]: 86 Maximum length of a stem [?]: 16 Average length of a stem [?]: 6.14 Minimum length of a stem [?]: 1 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -9.6 Minimum estimated free energy [?]: -31.8

Hairpin loop features Number of hairpin loops [?]: 3 Maximum number of free bases in hairpin loops [?]: 19 Average number of free bases in hairpin loops [?]: 10.67 Minimum number of free bases in hairpin loop [?]: 5

Bulge loop features Number of bulge loops [?]: 3 Maximum number of free bases in bulge loops [?]: 2 Average number of free bases in bulge loops [?]: 0.67 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: 36 Average number of free bases in internal loops: 8.42 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 34 Average internal loop absolute asymmetry: 8.83 Minimum internal loop absolute asymmetry: 1 Maximum internal loop relative asymmetry: 18 Average internal loop relative asymmetry: 4.5 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 2 Maximum number of free bases in multi-loops: 14 Average number of free bases in multi-loops: 4.71 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 14 Average multi-loop absolute asymmetry: 6.5 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 10 Average multi-loop relative asymmetry: 1.69 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 4 Average number of branches in multi-loops: 3.5 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 9 Total number of AC non-canonical base pairs: 3 Total number of AG non-canonical base pairs: 2 Total number of CC non-canonical base pairs: 1 Total number of GG non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 2

Pseudoknot features Number of pseudoknots [?]: 1 Number of bands: 2 Number of base pairs in bands: 23 Maximum band length: 14 Average band length: 11.5 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: 44 Average number of unpaired bases: 44 Minimum number of unpaired bases: 44 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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