MirGeneDB 3.0
MirGeneDB ID

Eca-Mir-542

Family name MIR-542 (all species)
Species Horse (Equus caballus)
MiRBase ID eca-mir-542
Paralogues Eca-Mir-542-v1 
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) Eutheria
Node of Origin (family) Eutheria
Genome context
(GCA_002863925.1_EquCab3.0)		 CM009179.1: 119915531-119915586 [-] UCSC Ensembl
Clustered miRNAs
(< 50kb from Mir-542-v2)		 Mir-506-P29b CM009179.1: 119897644-119897700 [-] UCSC Ensembl
Mir-506-P35c-v1 CM009179.1: 119898154-119898210 [-] UCSC Ensembl
Mir-506-P35c-v2 CM009179.1: 119898154-119898210 [-] UCSC Ensembl
Mir-506-P28f3 CM009179.1: 119898661-119898716 [-] UCSC Ensembl
Mir-506-P30c2 CM009179.1: 119899177-119899232 [-] UCSC Ensembl
Mir-506-P31c CM009179.1: 119900206-119900262 [-] UCSC Ensembl
Mir-506-P28e2 CM009179.1: 119901226-119901285 [-] UCSC Ensembl
Mir-506-P30b2-v2 CM009179.1: 119901738-119901793 [-] UCSC Ensembl
Mir-506-P30b2-v1 CM009179.1: 119901738-119901793 [-] UCSC Ensembl
Mir-506-P35b1-v2 CM009179.1: 119903093-119903149 [-] UCSC Ensembl
Mir-506-P35b1-v1 CM009179.1: 119903093-119903149 [-] UCSC Ensembl
Mir-506-P28f2 CM009179.1: 119904407-119904462 [-] UCSC Ensembl
Mir-506-P30d CM009179.1: 119904923-119904978 [-] UCSC Ensembl
Mir-506-P31a CM009179.1: 119905948-119906004 [-] UCSC Ensembl
Mir-506-P28e1 CM009179.1: 119906900-119906959 [-] UCSC Ensembl
Mir-506-P30b1-v1 CM009179.1: 119907412-119907467 [-] UCSC Ensembl
Mir-506-P30b1-v2 CM009179.1: 119907412-119907467 [-] UCSC Ensembl
Mir-506-P29a2 CM009179.1: 119908248-119908304 [-] UCSC Ensembl
Mir-506-P35b2-v2 CM009179.1: 119908765-119908821 [-] UCSC Ensembl
Mir-506-P35b2-v1 CM009179.1: 119908765-119908821 [-] UCSC Ensembl
Mir-506-P28d2 CM009179.1: 119909277-119909332 [-] UCSC Ensembl
Mir-506-P33b2 CM009179.1: 119910132-119910192 [-] UCSC Ensembl
Mir-506-P35a-v2 CM009179.1: 119910651-119910707 [-] UCSC Ensembl
Mir-506-P35a-v1 CM009179.1: 119910654-119910704 [-] UCSC Ensembl
Mir-506-P28d1 CM009179.1: 119911163-119911218 [-] UCSC Ensembl
Mir-506-P33b1 CM009179.1: 119912012-119912072 [-] UCSC Ensembl
Mir-506-P28f1 CM009179.1: 119913038-119913093 [-] UCSC Ensembl
Mir-506-P30c1 CM009179.1: 119913554-119913609 [-] UCSC Ensembl
Mir-506-P31b CM009179.1: 119914584-119914640 [-] UCSC Ensembl
Mir-506-P28c-v1 CM009179.1: 119915529-119915588 [-] UCSC Ensembl
Mir-506-P28c-v2 CM009179.1: 119915531-119915586 [-] UCSC Ensembl
Mir-542-v2 CM009179.1: 119915531-119915586 [-] UCSC Ensembl
Mir-506-P30a CM009179.1: 119916031-119916088 [-] UCSC Ensembl
Mir-506-P29a1 CM009179.1: 119916886-119916942 [-] UCSC Ensembl
Mir-506-P28b CM009179.1: 119917914-119917969 [-] UCSC Ensembl
Mir-506-P34 CM009179.1: 119918769-119918825 [-] UCSC Ensembl
Mir-506-P28a CM009179.1: 119919773-119919828 [-] UCSC Ensembl
Mir-506-P33a CM009179.1: 119921797-119921853 [-] UCSC Ensembl
Mir-506-P32 CM009179.1: 119922309-119922365 [-] UCSC Ensembl
Mir-9142 CM009179.1: 119927864-119927920 [-] UCSC Ensembl
Variant

Eca-Mir-542-v2
Seed AUUAGUA
Precursor
(pre-Mir +30nt flank)		 
CCACCCUGAGCCAUGUCAUGUGCAGUGCCCUGCCGGGAAGGUACUGAUCACUUAGCAUAUGUGUAAUUAGUACCUGUCCGGGUAGAGUAAUGCUCAAGAAGACCAUCAUUUUUGGA
Get precursor sequence
Structure
        10          20        30         40        50       
CCACCCUGAGCCAUGUCA--  U   G   C     G   -|         C  UUAGC 
                    UG GCA UGC CUGCC GGA AGGUACUGAU AC     \
                    AC CGU AUG GAUGG CCU UCCAUGAUUA UG     A
AGGUUUUUACUACCAGAAGA  U   A   A     G   G^         A  UGUAU 
    110       100        90        80        70        60
Deep sequencing
Go to detailed chart
3' NTU No
MotifsCNNC at 3p(+17)
Tissue expression
- +
Ps Bo Ca Em En En En En En En En Gl He He Ho Im Ki Li Lo Lu Ma Ma Mi Pl Sp Te Tr Ut Ut Yo
Star sequence

Eca-Mir-542-v2_5p*
mirBase accessionMIMAT0013237
Sequence 
0- UGCCGGGAAGGUACUGAUCAC -21
Get sequence
Mature sequence

Eca-Mir-542-v2_3p
mirBase accessionMIMAT0013238
Sequence 
34- AAUUAGUACCUGUCCGGGUAGA -56
Get sequence
Variant

Eca-Mir-542-v1
Seed GUGACAG
Precursor
(pre-Mir +30nt flank)		 
AGAAAUUUUGAGUCAAGGACCUCAGACAUCUCGGGGAUCAUCAUGUCACGAGAUACCACUGUGCACUUGUGACAGAUUGAUAACUGAAAGGUCUGGGAGCCAUUCAUCCUCAUGGCAAU
Get precursor sequence
Structure
        10        20          30        40        50         
AGAAAUUUUGAGUCAAGGAC--|      AUC    GG    UCA         AUACCA 
                      CUCAGAC   UCGG  AUCA   UGUCACGAG      \
                      GGGUCUG   AGUC  UAGU   ACAGUGUUC      C
UAACGGUACUCCUACUUACCGA^      GAA    AA    UAG         ACGUGU 
       110       100        90        80        70        60
Deep sequencing
Go to detailed chart
3' NTU No
MotifsCNNC at 3p(+17)
Tissue expression
- +
Ps Bo Ca Em En En En En En En En Gl He He Ho Im Ki Li Lo Lu Ma Ma Mi Pl Sp Te Tr Ut Ut Yo
Star sequence

Eca-Mir-542-v1_5p*
mirBase accessionMIMAT0013237
Sequence 
0- UCGGGGAUCAUCAUGUCACGAG -22
Get sequence
Mature sequence

Eca-Mir-542-v1_3p
mirBase accessionMIMAT0013238
Sequence 
37- UGUGACAGAUUGAUAACUGAAA -59
Get sequence