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

General features for molecule CRW_00820 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: CRW_00820 Molecule name [?]: b.I1.e.E.nigra.2.E.SSU.989 Source [?]: Gutell Lab CRW Site Source ID [?]: b.I1.e.E.nigra.2.E.SSU.989 Reference [?]: http://www.rna.ccbb.utexas.edu; Cannone J.J., Subramanian S., Schnare M.N., Collett J.R., D Souza L.M., Du Y., Feng B., Lin N., Madabusi L.V., Muller K.M., Pande N., Shang Z., Yu N., and Gutell R.R. (2002). The Comparative RNA Web (CRW) Site: An Online Database of Comparative Sequence and Structure Information for Ribosomal, Intron, and other RNAs. BioMed Central Bioinformatics, 3:2. [Correction: BioMed Central Bioinformatics. 3:15.] Type [?]: Group I Intron [?]     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 [?]: 523 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 3 Number of unpaired bases [?]: 233 Number of paired bases [?]: 290

Click on any header below for additional features.

Stem features Number of stems [?]: 15 Number of base pairs in stems [?]: 95 Maximum length of a stem [?]: 12 Average length of a stem [?]: 6.33 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -4.3 Average estimated free energy [?]: -12.13 Minimum estimated free energy [?]: -28.2

Hairpin loop features Number of hairpin loops [?]: 10 Maximum number of free bases in hairpin loops [?]: 30 Average number of free bases in hairpin loops [?]: 8.5 Minimum number of free bases in hairpin loop [?]: 3

Bulge loop features Number of bulge loops [?]: 3 Maximum number of free bases in bulge loops [?]: 1 Average number of free bases in bulge loops [?]: 0.5 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: 3 Average number of free bases in internal loops: 2.5 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 2 Average internal loop absolute asymmetry: 1 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 3 Average internal loop relative asymmetry: 2 Minimum internal loop relative asymmetry: 1

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 1 Total number of CC non-canonical base pairs: 1

Pseudoknot features Number of pseudoknots [?]: 2 Number of bands: 5 Number of base pairs in bands: 50 Maximum band length: 16 Average band length: 10 Minimum band length: 6 Maximum number of bands per pseudoknot: 3 Average number of bands per pseudoknot: 2.5 Minimum number of bands per pseudoknot: 2 Maximum number of un-bands: 3 Average number of un-bands: 2.5 Minimum number of un-bands: 2 Maximum number of in-bands: 4 Average number of in-bands: 2 Minimum number of in-bands: 0 Maximum number of unpaired bases: 25 Average number of unpaired bases: 21.5 Minimum number of unpaired bases: 18 Several ways to remove minimum number of base pairs, per molecule: No Minimum number of base pairs to remove, per molecule: 13 Maximum number of base pairs to remove, per pseudoknot: 7 Average number of base pairs to remove, per pseudoknot: 6.5 Minimum number of base pairs to remove, per pseudoknot: 6 Minimum number of bands to remove, per molecule: 2 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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