MirGeneDB 3.0
MirGeneDB ID

Rno-Mir-542-P1a

Family name MIR-542 (all species)
Seed GUGACAG
Species Norway rat (Rattus norvegicus)
MiRBase ID rno-mir-542-1
Paralogues Rno-Mir-542-P1b  Rno-Mir-542-P1c 
Orthologues Bta-Mir-542  Cja-Mir-542  Cpo-Mir-542  Ete-Mir-542  Laf-Mir-542  Mmu-Mir-542  Pab-Mir-542 
Node of Origin (locus) R. norvegicus
Node of Origin (family) Eutheria
Genome context
(rn6)		 chrX: 158588539-158588599 [+] UCSC Ensembl
Clustered miRNAs
(< 50kb from Mir-542-P1a)		 Mir-15-P1c3 chrX: 158584564-158584621 [+] UCSC Ensembl
Mir-15-P2c3 chrX: 158584862-158584924 [+] UCSC Ensembl
Mir-351-P1a chrX: 158585602-158585661 [+] UCSC Ensembl
Mir-542-P1a chrX: 158588539-158588599 [+] UCSC Ensembl
Mir-450-P1a chrX: 158589644-158589700 [+] UCSC Ensembl
Precursor
(pre-Mir +30nt flank)
UGAAGUUCCACAUGCAAGGAUCUCAGACGUCUCGGGGAUCAUCAUGUCACGAGAUACCACUGCGCACUUGUGACAGAUUGAUAACUGAAAGGUCUGGGAGCCACUCCUCUUCCUAAGAAUA
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Structure
        10          20        30        40        50          
UGAAGUUCCACAUGCAA--| A        GUC    GG    UCA         AUACCA 
                   GG UCUCAGAC   UCGG  AUCA   UGUCACGAG      \
                   CC AGGGUCUG   AGUC  UAGU   ACAGUGUUC      C
AUAAGAAUCCUUCUCCUCA^ G        GAA    AA    UAG         ACGCGU 
 .       110       100        90        80        70
Deep sequencing
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CommentThe Drosha cut in murids is -1 and they do not express the second variant at relatively high levels relative to the other mammals.
3' NTU No
MotifsCNNC at 3p(+17)
Tissue expression
-   +
Dr Dr Ad Bi Bi Bi Bi Br Br Br Br Ce Ce Ce Ce Co Co Co Co Du Du Du Du Fa He He He Hi Hi Il Il Je Je Ki Ki Ki Ki Ki La Li Li Li Li Li Li Lu Me Me Mu Ov Pa Pa Pa Sk Sm So So So So Sp St St St St Te Te Th Ut Wh
Star sequence

Rno-Mir-542-P1a_5p*
mirBase accessionMIMAT0003178
Sequence 
0- CUCGGGGAUCAUCAUGUCACGAG -23
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Mature sequence

Rno-Mir-542-P1a_3p
mirBase accessionMIMAT0003179
Sequence 
38- UGUGACAGAUUGAUAACUGAAAG -61
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