MirGeneDB 2.1
MirGeneDB ID

Rno-Mir-540

Family name MIR-540 (all species)
Seed GGUCAGA
Species Norway rat (Rattus norvegicus)
MiRBase ID rno-mir-540
Paralogues
Orthologues Mmu-Mir-540 
Node of Origin (locus) Muridae
Node of Origin (family) Muridae
Genome context
(rn6)		 chr6: 133706216-133706274 [+] UCSC Ensembl
Clustered miRNAs
(< 50kb from Mir-540)		 Mir-770 chr6: 133682975-133683030 [+] UCSC Ensembl
Mir-673 chr6: 133691391-133691453 [+] UCSC Ensembl
Mir-493 chr6: 133699522-133699583 [+] UCSC Ensembl
Mir-337-as chr6: 133705943-133706003 [-] UCSC Ensembl
Mir-337 chr6: 133705948-133706001 [+] UCSC Ensembl
Mir-540 chr6: 133706216-133706274 [+] UCSC Ensembl
Mir-431 chr6: 133711444-133711507 [+] UCSC Ensembl
Mir-433 chr6: 133712345-133712418 [+] UCSC Ensembl
Mir-127 chr6: 133713452-133713507 [+] UCSC Ensembl
Mir-136-v2 chr6: 133716775-133716830 [+] UCSC Ensembl
Mir-136-v1 chr6: 133716775-133716830 [+] UCSC Ensembl
Mir-370 chr6: 133739928-133739984 [+] UCSC Ensembl
Precursor
(pre-Mir +30nt flank)
CCCCUGGUGGGACAUUCCCUGGGGCUGGGCCAAGGGUCACCCUCUGACUCUGUGGCCAAGGGUAGACAGGUCAGAGGUCGAUCCUGGGCCUACUCUGGGGCUUUUCCCACUGGGAUUUC
Get precursor sequence
Structure
        10           20        30        40        50         
CCCCUGGUGGGACAUUC---| UG   C      A      AC        U    GGCCA 
                    CC  GGG UGGGCC AGGGUC  CCUCUGAC CUGU     A
                    GG  CUC AUCCGG UCCUAG  GGAGACUG GACA     G
CUUUAGGGUCACCCUUUUCG^ GU   -      G      CU        -    GAUGG 
       110       100         90        80        70         60
Deep sequencing
Go to detailed chart
3' NTU No
MotifsCNNC at 3p(+17)
Tissue expression
-   +
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Star sequence

Rno-Mir-540_5p*
mirBase accessionMIMAT0017211
Sequence 
0- CAAGGGUCACCCUCUGACUCUGU -23
Get sequence
Proposed targets TargetScanVert: rno-miR-540-5p
miRDB: MIMAT0017211
Mature sequence

Rno-Mir-540_3p
mirBase accessionMIMAT0003174
Sequence 
37- AGGUCAGAGGUCGAUCCUGGGC -59
Get sequence
Proposed targets microrna.org: MIMAT0003174
TargetScanVert: rno-miR-540-3p
miRDB: MIMAT0003174