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

General features for molecule RFA_00611 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: RFA_00611 Molecule name [?]: Ciliate telomerase RNA, RF00025, U22349.1/199-360 Source [?]: Rfam Database Source ID [?]: RF00025 U22349.1/360-199 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 [?]: 162 Fragments used [?]: N/A Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 92 Number of paired bases [?]: 70

Click on any header below for additional features.

Stem features Number of stems [?]: 7 Number of base pairs in stems [?]: 35 Maximum length of a stem [?]: 8 Average length of a stem [?]: 5 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -3.2 Average estimated free energy [?]: -7.01 Minimum estimated free energy [?]: -12.6

Hairpin loop features Number of hairpin loops [?]: 3 Maximum number of free bases in hairpin loops [?]: 12 Average number of free bases in hairpin loops [?]: 8.33 Minimum number of free bases in hairpin loop [?]: 5

Bulge loop features Number of bulge loops [?]: 2 Maximum number of free bases in bulge loops [?]: 2 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 [?]: 1 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: 38 Average number of free bases in multi-loops: 16.33 Minimum number of free bases in multi-loop: 3 Maximum multi-loop absolute asymmetry: 35 Average multi-loop absolute asymmetry: 23.33 Minimum multi-loop absolute asymmetry: 5 Maximum multi-loop relative asymmetry: 12.67 Average multi-loop relative asymmetry: 3.46 Minimum multi-loop relative asymmetry: 0.08 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 [?]: 3 Total number of AC non-canonical base pairs: 1 Total number of AG non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 1

Pseudoknot features