Mir542 (microRNA 542) - Rat Genome Database

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Gene: Mir542 (microRNA 542) Mus musculus
Analyze
Symbol: Mir542
Name: microRNA 542
RGD ID: 1607620
MGI Page MGI
Description: Acts upstream of or within cellular response to leukemia inhibitory factor; hematopoietic stem cell differentiation; and sensory perception of sound. Orthologous to human MIR542 (microRNA 542).
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: mir-542; Mirn; Mirn542; mmu-mir-5; mmu-mir-542
RGD Orthologs
Human
Rat
Dog
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X52,138,280 - 52,138,364 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX52,138,280 - 52,138,364 (-)EnsemblGRCm39 Ensembl
GRCm38X53,049,403 - 53,049,487 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX53,049,403 - 53,049,487 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X50,402,580 - 50,402,664 (-)NCBIGRCm37MGSCv37mm9NCBIm37
CeleraX40,475,386 - 40,475,470 (-)NCBICelera
Cytogenetic MapXA5NCBI
cM MapX29.31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

References

References - curated
# Reference Title Reference Citation
1. MiR-542-3p drives renal fibrosis by targeting AGO1 in vivo and in vitro. Li J, etal., Life Sci. 2020 Aug 15;255:117845. doi: 10.1016/j.lfs.2020.117845. Epub 2020 May 26.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16274478   PMID:16381832   PMID:16582102   PMID:16973894   PMID:17604727   PMID:18184563   PMID:20215419   PMID:20413612   PMID:20439489   PMID:20660734   PMID:21037258   PMID:21267068  
PMID:21822254   PMID:23646144   PMID:24403060   PMID:24503542   PMID:30368874   PMID:30467286   PMID:31080058   PMID:34704401   PMID:36622069   PMID:39180371  


Genomics

Comparative Map Data
Mir542
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X52,138,280 - 52,138,364 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX52,138,280 - 52,138,364 (-)EnsemblGRCm39 Ensembl
GRCm38X53,049,403 - 53,049,487 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX53,049,403 - 53,049,487 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X50,402,580 - 50,402,664 (-)NCBIGRCm37MGSCv37mm9NCBIm37
CeleraX40,475,386 - 40,475,470 (-)NCBICelera
Cytogenetic MapXA5NCBI
cM MapX29.31NCBI
MIR542
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X134,541,341 - 134,541,437 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX134,541,341 - 134,541,437 (-)EnsemblGRCh38hg38GRCh38
GRCh37X133,675,371 - 133,675,467 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X133,503,036 - 133,503,132 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX134,062,199 - 134,062,295 (-)NCBICelera
Cytogenetic MapXq26.3NCBI
HuRefX123,074,367 - 123,074,463 (-)NCBIHuRef
CHM1_1X133,587,121 - 133,587,217 (-)NCBICHM1_1
T2T-CHM13v2.0X132,866,540 - 132,866,636 (-)NCBIT2T-CHM13v2.0
Mir542
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X137,722,176 - 137,722,254 (-)NCBIGRCr8
mRatBN7.2X132,802,623 - 132,802,701 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX132,802,623 - 132,802,701 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX134,962,672 - 134,962,750 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X138,545,520 - 138,545,598 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X136,111,232 - 136,111,310 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X158,152,146 - 158,152,224 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX158,152,146 - 158,152,224 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X152,777,453 - 152,777,531 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Cytogenetic MapXq36NCBI
MIR542
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X105,178,359 - 105,178,417 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX105,178,347 - 105,178,430 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX91,289,030 - 91,289,088 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X107,038,111 - 107,038,169 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX107,038,099 - 107,038,182 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X104,451,564 - 104,451,622 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X106,317,541 - 106,317,599 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X106,109,007 - 106,109,065 (-)NCBIUU_Cfam_GSD_1.0
MIR542
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX110,382,597 - 110,382,676 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X110,382,597 - 110,382,676 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1

Variants

.
Variants in Mir542
1 total Variants
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:23061
Count of gene targets:10459
Count of transcripts:17590
Interacting mature miRNAs:mmu-miR-542-3p, mmu-miR-542-5p
Prediction methods:Microtar, Miranda, Pita, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
13208553Wght11_mweight 11 (mouse)X1186623959045360Mouse
4141630Gct6_mgranulosa cell tumorigenesis 6 (mouse)Not determined47179121129764756Mouse
27226750Femd9_mfemur midshaft diameter 9, 10 week (mouse)X3333746355845360Mouse
1301009Pbwg7_mpostnatal body weight growth 7 (mouse)Not determinedX3911371473113814Mouse
4141565Pbwg21_mpostnatal body weight growth 21 (mouse)Not determinedX3911371473113814Mouse
27226780Femd12_mfemur midshaft diameter 12, 16 week (mouse)X3466365356845360Mouse
13208557Lgth13_mbody length 13 (mouse)X1186623959045360Mouse
25314311Syncl3_msynaptonemal complex length 3 (mouse)X5198887789743606Mouse
1300853Aggr2_maggression 2 (mouse)Not determinedX4907116752259196Mouse
4142200Rtwq1_mreduced testis weight QTL 1 (mouse)Not determined4147706075477203Mouse
1300794Spha2_msperm head anomaly 2 (mouse)Not determinedX3992149886260137Mouse
1357433Dbts2_mdiabetes 2 (mouse)Not determinedX7226295150107038Mouse
1300702Fcsa4_mfemoral cross-sectional area 4 (mouse)Not determinedX4602744480027567Mouse
1301278Bdln1_mbody length 1 (mouse)Not determinedX4170210675702218Mouse
1301212Bw19_mbody weight QTL 19 (mouse)Not determinedX4637692052412327Mouse
1301351Obq6_mobesity QTL 6 (mouse)Not determinedX5077237570434751Mouse
13208567Bmiq12_mbody mass index QTL 12 (mouse)X3526365377043606Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000102186
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX52,138,280 - 52,138,364 (-)Ensembl
GRCm38.p6 EnsemblX53,049,403 - 53,049,487 (-)Ensembl
RefSeq Acc Id: NR_030264
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X52,138,280 - 52,138,364 (-)NCBI
GRCm38X53,049,403 - 53,049,487 (-)ENTREZGENE
MGSCv37X50,402,580 - 50,402,664 (-)RGD
CeleraX40,475,386 - 40,475,470 (-)RGD
cM MapX ENTREZGENE
Sequence:

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3619431 AgrOrtholog
Ensembl Genes ENSMUSG00000076140 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000102186 ENTREZGENE
MGD MGI:3619431 ENTREZGENE
miRBase MI0003522 ENTREZGENE
NCBI Gene 723901 ENTREZGENE
PhenoGen Mir542 PhenoGen
RNAcentral URS00001AF64C RNACentral
  URS00004F859B RNACentral
  URS000069971F RNACentral