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

General features for molecule RFA_00803 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: RFA_00803 Molecule name [?]: Gammaretrovirus core encapsidation signal, RF00374, Z11128.1/274-374 Source [?]: Rfam Database Source ID [?]: RF00374 Z11128.1/374-274 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 [?]: Cis-regulatory element [?]     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 [?]: 101 Fragments used [?]: N/A Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 3 Number of unpaired bases [?]: 37 Number of paired bases [?]: 64

Click on any header below for additional features.

Stem features Number of stems [?]: 8 Number of base pairs in stems [?]: 32 Maximum length of a stem [?]: 8 Average length of a stem [?]: 4 Minimum length of a stem [?]: 1 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -7.35 Minimum estimated free energy [?]: -19.8

Hairpin loop features Number of hairpin loops [?]: 3 Maximum number of free bases in hairpin loops [?]: 4 Average number of free bases in hairpin loops [?]: 4 Minimum number of free bases in hairpin loop [?]: 4

Bulge loop features Number of bulge loops [?]: 3 Maximum number of free bases in bulge loops [?]: 4 Average number of free bases in bulge loops [?]: 1.17 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 2 Maximum number of free bases in internal loops: 2 Average number of free bases in internal loops: 1.5 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

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 0

Pseudoknot features

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