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

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General features for molecule CRW_00587
(click to expand/contract all tables)

Format:
Molecule ID [?]:CRW_00587
Molecule name [?]:s.I2.m.S.cerevisiae.A.OX1.i1.schem
Source [?]:Gutell Lab CRW Site
Source ID [?]:s.I2.m.S.cerevisiae.A.OX1.i1.schem
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 II Intron

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:Saccharomyces cerevisiae
Validated by NMR or X-Ray [?]:No
Method for secondary structure determination [?]:Comparative sequence analysis
Number of molecules [?]:1
Length [?]:2520
Fragments used [?]:No
Duplicated sequence [?]:Molecules in the database with the same sequence: CRW_00001, CRW_00574
Number of domains [?]:3
Number of unpaired bases [?]:2102
Number of paired bases [?]:418

Click on any header below for additional features.

Stem features

Number of stems [?]:24
Number of base pairs in stems [?]:113
Maximum length of a stem [?]:10
Average length of a stem [?]:4.71
Minimum length of a stem [?]:1
Maximum estimated free energy [?]:0
Average estimated free energy [?]:-6.3
Minimum estimated free energy [?]:-14.6

Hairpin loop features

Number of hairpin loops [?]:12
Maximum number of free bases in hairpin loops [?]:1846
Average number of free bases in hairpin loops [?]:158.33
Minimum number of free bases in hairpin loop [?]:4

Bulge loop features
Number of bulge loops [?]:4
Maximum number of free bases in bulge loops [?]:2
Average number of free bases in bulge loops [?]:0.62
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:7
Average number of free bases in internal loops:2.83
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:3
Average internal loop absolute asymmetry:1
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:3
Average internal loop relative asymmetry:1.33
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:2
Maximum number of free bases in multi-loops:5
Average number of free bases in multi-loops:2
Minimum number of free bases in multi-loop:0
Maximum multi-loop absolute asymmetry:5
Average multi-loop absolute asymmetry:2.16
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:3
Average multi-loop relative asymmetry:0.99
Minimum multi-loop relative asymmetry:0
Maximum number of branches in multi-loops:5
Average number of branches in multi-loops:4
Minimum number of branches in multi-loops:3

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

Pseudoknot features
Number of pseudoknots [?]:1
Number of bands:11
Number of base pairs in bands:96
Maximum band length:24
Average band length:8.73
Minimum band length:2
Maximum number of bands per pseudoknot:11
Average number of bands per pseudoknot:11
Minimum number of bands per pseudoknot:11
Maximum number of un-bands:3
Average number of un-bands:3
Minimum number of un-bands:3
Maximum number of in-bands:3
Average number of in-bands:3
Minimum number of in-bands:3
Maximum number of unpaired bases:84
Average number of unpaired bases:84
Minimum number of unpaired bases:84
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:21
Maximum number of base pairs to remove, per pseudoknot:21
Average number of base pairs to remove, per pseudoknot:21
Minimum number of base pairs to remove, per pseudoknot:21
Minimum number of bands to remove, per molecule:4
Maximum number of bands to remove, per pseudoknot:4
Average number of bands to remove, per pseudoknot:4
Minimum number of bands to remove, per pseudoknot:4



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