Mir409 (microRNA 409) - Rat Genome Database

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Gene: Mir409 (microRNA 409) Mus musculus
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Symbol: Mir409
Name: microRNA 409
RGD ID: 1608192
MGI Page MGI
Description: Enables mRNA binding activity. Involved in several processes, including cellular response to interleukin-17; energy homeostasis; and protein phosphorylation. Acts upstream of or within several processes, including cellular response to leukemia inhibitory factor; cellular response to lipopolysaccharide; and cellular response to phenylalanine. Is expressed in central nervous system and cranium. Orthologous to human MIR409 (microRNA 409).
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: mir-409; Mirn; Mirn409; mmu-mir-4; mmu-mir-409
RGD Orthologs
Human
Rat
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912109,709,592 - 109,709,670 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl12109,709,592 - 109,709,670 (+)EnsemblGRCm39 Ensembl
GRCm3812109,743,158 - 109,743,236 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12109,743,158 - 109,743,236 (+)EnsemblGRCm38mm10GRCm38
MGSCv3712110,981,368 - 110,981,446 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera12110,940,388 - 110,940,466 (+)NCBICelera
Cytogenetic Map12F1NCBI
cM Map1260.56NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15310658   PMID:16274478   PMID:16381832   PMID:17369397   PMID:17604727   PMID:20215419   PMID:20413612   PMID:20439489   PMID:21037258   PMID:21247879   PMID:21267068   PMID:23646144  
PMID:25124681   PMID:26822703   PMID:29430619   PMID:30294880   PMID:31165485   PMID:31849582   PMID:32292119   PMID:33750404   PMID:34698882   PMID:36248641   PMID:37332476   PMID:37437422  
PMID:37679839   PMID:38329343   PMID:39125754  


Genomics

Comparative Map Data
Mir409
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912109,709,592 - 109,709,670 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl12109,709,592 - 109,709,670 (+)EnsemblGRCm39 Ensembl
GRCm3812109,743,158 - 109,743,236 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12109,743,158 - 109,743,236 (+)EnsemblGRCm38mm10GRCm38
MGSCv3712110,981,368 - 110,981,446 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera12110,940,388 - 110,940,466 (+)NCBICelera
Cytogenetic Map12F1NCBI
cM Map1260.56NCBI
MIR409
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3814101,065,300 - 101,065,378 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl14101,065,300 - 101,065,378 (+)EnsemblGRCh38hg38GRCh38
GRCh3714101,531,637 - 101,531,715 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3614100,601,389 - 100,601,467 (+)NCBINCBI36Build 36hg18NCBI36
Celera1481,587,699 - 81,587,777 (+)NCBICelera
Cytogenetic Map14q32.31NCBI
HuRef1481,715,011 - 81,715,089 (+)NCBIHuRef
CHM1_114101,470,659 - 101,470,737 (+)NCBICHM1_1
T2T-CHM13v2.01495,300,687 - 95,300,765 (+)NCBIT2T-CHM13v2.0
Mir409
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86134,579,185 - 134,579,261 (+)NCBIGRCr8
mRatBN7.26128,757,780 - 128,757,856 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6128,757,779 - 128,757,858 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx6128,937,019 - 128,937,095 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06129,232,851 - 129,232,927 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06128,594,476 - 128,594,552 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.06133,893,419 - 133,893,495 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06143,055,776 - 143,055,852 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera6126,342,159 - 126,342,235 (+)NCBICelera
Cytogenetic Map6q32NCBI
MIR409
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1869,293,782 - 69,293,835 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha868,811,932 - 68,811,985 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0869,575,453 - 69,575,506 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1869,238,990 - 69,239,043 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0869,305,084 - 69,305,137 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0869,703,070 - 69,703,123 (+)NCBIUU_Cfam_GSD_1.0

Variants

.
Variants in Mir409
1 total Variants
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:13975
Count of gene targets:6988
Count of transcripts:10895
Interacting mature miRNAs:mmu-miR-409-3p, mmu-miR-409-5p
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
39128213Lwq23_mliver weight QTL 10 (mouse)1280956708113383533Mouse
1300883Ath21_matherosclerosis 21 (mouse)Not determined1285961579119961683Mouse
12910532Nrq10a_mnoise-induced hearing loss resistant QTL 10a (mouse)1292750025120092757Mouse
12910533Nrq10_mnoise-induced hearing loss resistant QTL 10 (mouse)1292750025120092757Mouse
1357463Vtbt14_mvertebral trabecular bone trait 14 (mouse)Not determined1292936097120092757Mouse
1301269Sluc12_msusceptibility to lung cancer 12 (mouse)Not determined1296860337120092757Mouse
4142007Chlq17_mcirculating hormone level QTL 17 (mouse)Not determined1288052874120092757Mouse
4142002Tbqt3_mtibia bone quality traits 3 (mouse)Not determined1235285496109936243Mouse
11039526Ccc1_mcolitis susceptibility in the Collaborative Cross 1 (mouse)1293528334111028223Mouse
4141297Plyid_mPolymeric IgA dominance (mouse)Not determined109183385115885122Mouse
1300545Lifespan3_mlife span 3 (mouse)Not determined1288052874120092757Mouse
4141610Tailaq1_mtail length adjusted QTL 1 (mouse)Not determined80956708113383533Mouse
1301836Heal5_mwound healing/regeneration 5 (mouse)Not determined1289939031120092757Mouse
13524846Ppiq11_mprepulse inhibition QTL 11 (mouse)1282666396116666396Mouse
10412156Nociq3_mnociceptive sensitivity inflammatory QTL 3 (mouse)Not determined1286396075114831653Mouse
13524842Ppiq10a_mprepulse inhibition QTL 10a (mouse)1277512220111512220Mouse
1301879Insq10_minsulin QTL 10 (mouse)Not determined1283532075117532224Mouse
10402491Dipa4_mdrug induced psychomotor activation 4 (mouse)Not determined1291222515120092757Mouse
1301492Dbsty3_mdiabesity 3 (mouse)Not determined1283532075117532224Mouse
4141335W6q10_mweight 6 weeks QTL 10 (mouse)Not determined80956708113383533Mouse
5491194Mobq3_mmultigenic obesity QTL 3 (mouse)Not determined1289664071120092757Mouse
1302138Im6_mimmunoregulatory 6 (mouse)Not determined1296860337120092757Mouse
1301308Prdt4_mprion disease incubation time 4 (mouse)Not determined1288308354120092757Mouse
1301922Bbaa6_mB.burgdorferi-associated arthritis 6 (mouse)Not determined1290308268120092757Mouse
1302177Dps2_mdelta power in slow-wave sleep 2 (mouse)Not determined1294146064120092757Mouse
10412075Nils1_mneointima lesion size 1 (mouse)Not determined12102024665120092757Mouse
27226793Feml10_mfemur length 10, 5 week (mouse)1268346774113363620Mouse
4142401Egq10_mearly growth QTL 10 (mouse)Not determined80956708113383533Mouse
1300973Abmm_mantibody mediated myocarditis (mouse)Not determined1293264461120092757Mouse
13524849Ppiq11a_mprepulse inhibition QTL 11a (mouse)1280989143114989143Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000198153
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl12109,709,592 - 109,709,670 (+)Ensembl
GRCm38.p6 Ensembl12109,743,158 - 109,743,236 (+)Ensembl
RefSeq Acc Id: NR_029913
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3912109,709,592 - 109,709,670 (+)NCBI
GRCm3812109,743,158 - 109,743,236 (+)ENTREZGENE
MGSCv3712110,981,368 - 110,981,446 (+)RGD
Celera12110,940,388 - 110,940,466 (+)RGD
cM Map12 ENTREZGENE
Sequence:

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3619396 AgrOrtholog
Ensembl Genes ENSMUSG00000105849 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000198153 ENTREZGENE
MGD MGI:3619396 ENTREZGENE
miRBase MI0001160 ENTREZGENE
NCBI Gene 723862 ENTREZGENE
PhenoGen Mir409 PhenoGen
RNAcentral URS0000081E1F RNACentral
  URS00002915C8 RNACentral
  URS0000759903 RNACentral