RNA 3D Hub

JAR3D Query RF03393-CCF-3.98 completed
Run on Motif Atlas Version 3.98 using the CaCoFold secondary structure. Run with the Rfam secondary structure.

RF03393 mir-2849 microRNA precursor family

Input Summary

      0000000001111111111222222222233333333334444444444555555555566666666667777777777888888888899999999
1234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234567
.....(((((...........(((((.....((((((......((.......))....))))))....)))))...................)))))
>URS0000D54F43_7091_1-97
GUGGACGUUUAACUUUACGAUUAUGGACUCAGUUCCAAAAGAUAACUGGUGUUUUAUGUGGGACGAAACCGUGGCGGGUUGAGGUGGAAAUGAAAUG
>URS000075C6E5_7091_1-97
GUGGACGUUUAACUUUACGAUUAUGGACUCAGUUCCAAAAGAUAACUGAUGUUUUAUGUGGGACGAAACCAUGGCGGGUUGAGGUGGAAAUGAAAUG
>URS000075BC3C_7091_1-97
GUGGACGUUUAACUUUACGAUUAUGGACUCAGUUCCAAAAGAUAGCUGGUGUCUUAUGUGGGACGAAACCGUGGCGGGUUGAGGUGGAAAUGAAAUG

There are no chains in PDB that we map to Rfam family RF03393.

Jump to results for:

  • Loop 1IL Column numbers: 10-22, 73-93
  • Loop 2IL Column numbers: 26-32, 64-69
  • Loop 3IL Column numbers: 37-44, 54-59
  • Loop 4HL Column numbers: 45-53

Loop 1 Internal loop

Column numbers: 10-22, 73-93 
    Scored sequences and counts

    
    UAACUUUACGAUU*GGCGGGUUGAGGUGGAAAUGA    3
No Matches Found View All Results for this Loop

Loop 2 Internal loop

Column numbers: 26-32, 64-69 
    Scored sequences and counts

    
    GACUCAG*CGAAAC    3
Click on headings to reorder table - View All Results for this Loop
# Matching motif group Acceptance Rate Mean Cutoff Score Full Edit Distance Interior Edit Distance Basepair Diagram and most common annotation
1

Motif group IL_31561.1

Basepair signature:
cWW-L-R-tWH-tWH-L-R-L-cWW

100.00 16.95 4 3

2

Motif group IL_26307.2

Basepair signature:
cWW-tSH-tHH-cSH-tWH-tHS-cWW

100.00 11.34 3 3

7x6 Sarcin-Ricin; G-bulge

3

Motif group IL_47346.2

Basepair signature:
cWW-tSH-L-R-tHH-tHS-cWW

100.00 5.87 4 4

tSH-tSH-tHH-tHS

4

Motif group IL_32016.1

Basepair signature:
cWW-tSH-tSH-tSS-tHS-L-R-cWW

100.00 2.09 7 4

Kink-turn

5

Motif group IL_88116.2

Basepair signature:
cWW-tSH-L-R-L-R-L-R-cWW-cWW

100.00 1.58 4 3

Loop 3 Internal loop

Column numbers: 37-44, 54-59 
    Scored sequences and counts

    
    AAAAGAUA*UUAUGU    3
No Matches Found View All Results for this Loop

Loop 4 Hairpin loop

Column numbers: 45-53 
    Scored sequences and counts

    
    ACUGAUGUU    1

    
    ACUGGUGUU    1

    
    GCUGGUGUC    1
Click on headings to reorder table - View All Results for this Loop
# Matching motif group Acceptance Rate Mean Cutoff Score Full Edit Distance Interior Edit Distance Basepair Diagram and most common annotation
1

Motif group HL_33983.1

Basepair signature:
cWW-F-F-F-F-F

100.00 23.84 5 3

2

Motif group HL_80599.2

Basepair signature:
cWW-F-F-F-F-F-F-F

100.00 12.76 5 3

3

Motif group HL_57863.1

Basepair signature:
cWW-F-F-cWH-cWH-F

100.00 9.78 5 4

G-quadruplex fragment

4

Motif group HL_87463.1

Basepair signature:
cWW-cWW-F-F-F-F-F

66.67 4.07 5 3

5

Motif group HL_21372.1

Basepair signature:
cWW-F-cSH-F-F

66.67 3.43 4 2

6

Motif group HL_18565.1

Basepair signature:
cWW-cWW-F-F-F-F

33.33 8.48 3 3

7

Motif group HL_09452.1

Basepair signature:
cWW-F-F-F

33.33 -7.60 5 4

8

Motif group HL_06059.6

Basepair signature:
cWW-F-F-F-F-F-F-F

33.33 -15.57 3 3

tRNA anticodon loop

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