Mir30d (microRNA 30d) - Rat Genome Database

Send us a Message



 Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap)  (beta) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer) Overgo Probe Designer
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Mir30d (microRNA 30d) Rattus norvegicus
Analyze
Symbol: Mir30d
Name: microRNA 30d
RGD ID: 2325589
Description: Predicted to enable mRNA 3'-UTR binding activity and mRNA base-pairing translational repressor activity. Predicted to be involved in miRNA-mediated gene silencing and negative regulation of voltage-gated potassium channel activity. Predicted to act upstream of or within several processes, including cellular response to lipopolysaccharide; long-term synaptic potentiation; and sensory perception of sound. Predicted to be located in extracellular exosome. Orthologous to human MIR30D (microRNA 30d); INTERACTS WITH aflatoxin B1; bis(2-ethylhexyl) phthalate; bleomycin A2.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: microRNA mir-30d; rno-mir-30d
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27100,136,391 - 100,136,472 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7100,136,391 - 100,136,472 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7101,908,591 - 101,908,672 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.07104,110,268 - 104,110,349 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.07104,029,578 - 104,029,659 (-)NCBIRnor_WKY
Rnor_6.07109,286,463 - 109,286,544 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7109,286,463 - 109,286,544 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07109,228,641 - 109,228,722 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera796,647,647 - 96,647,728 (-)NCBICelera
Cytogenetic Map7q34NCBI
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

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14691248   PMID:16381832   PMID:16766679   PMID:17604727   PMID:18762567   PMID:19188439   PMID:20403161   PMID:20548288   PMID:20734245   PMID:23646144   PMID:24205035   PMID:25341033  
PMID:25858512   PMID:25986729   PMID:28381192   PMID:28789480   PMID:33092465   PMID:35752105   PMID:35886860  


Genomics

Comparative Map Data
Mir30d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27100,136,391 - 100,136,472 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7100,136,391 - 100,136,472 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7101,908,591 - 101,908,672 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.07104,110,268 - 104,110,349 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.07104,029,578 - 104,029,659 (-)NCBIRnor_WKY
Rnor_6.07109,286,463 - 109,286,544 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7109,286,463 - 109,286,544 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07109,228,641 - 109,228,722 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera796,647,647 - 96,647,728 (-)NCBICelera
Cytogenetic Map7q34NCBI
MIR30D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh388134,804,876 - 134,804,945 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl8134,804,876 - 134,804,945 (-)EnsemblGRCh38hg38GRCh38
GRCh378135,817,119 - 135,817,188 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368135,886,300 - 135,886,369 (-)NCBINCBI36Build 36hg18NCBI36
Celera8131,989,860 - 131,989,929 (-)NCBICelera
Cytogenetic Map8q24.22NCBI
HuRef8131,132,816 - 131,132,885 (-)NCBIHuRef
CHM1_18135,859,237 - 135,859,306 (-)NCBICHM1_1
T2T-CHM13v2.08135,922,767 - 135,922,836 (-)NCBIT2T-CHM13v2.0
Mir30d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391568,213,057 - 68,213,138 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1568,213,057 - 68,213,138 (-)EnsemblGRCm39 Ensembl
GRCm381568,341,208 - 68,341,289 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1568,341,208 - 68,341,289 (-)EnsemblGRCm38mm10GRCm38
MGSCv371568,172,770 - 68,172,851 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1569,857,252 - 69,857,333 (-)NCBICelera
Cytogenetic Map15D2NCBI
MIR30D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11330,910,306 - 30,910,365 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1330,910,306 - 30,910,365 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1330,885,535 - 30,885,594 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01331,276,123 - 31,276,182 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11330,995,654 - 30,995,713 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01331,094,620 - 31,094,679 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01331,444,847 - 31,444,906 (-)NCBIUU_Cfam_GSD_1.0
MIR30D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl46,948,669 - 6,948,747 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.146,948,669 - 6,948,747 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.246,713,518 - 6,713,596 (+)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:11827
Count of gene targets:6904
Count of transcripts:7386
Interacting mature miRNAs:rno-miR-30d-3p, rno-miR-30d-5p
Prediction methods:Microtar, Miranda, Pita, Pita,Targetscan, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)743747012108555253Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)743747099102228765Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
1300151Bp181Blood pressure QTL 1813.36arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)753612714103945643Rat
2317035Aia16Adjuvant induced arthritis QTL 162.71joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)759238038104238038Rat
1298528Bp169Blood pressure QTL 1690.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)761074194106074194Rat
1559283Emca4Estrogen-induced mammary cancer QTL 43.7mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)762004452101773158Rat
1576303Ept7Estrogen-induced pituitary tumorigenesis QTL 73.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)762004452101773158Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)768938720113886318Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)768938720113886318Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)768938720113886318Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)769736356112729554Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)780221299109401111Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)780221299112308525Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
10450828Scl79Serum cholesterol level QTL 793.50.001blood HDL cholesterol amount (VT:0000184)blood low density lipoprotein cholesterol level (CMO:0000053)789867376101773158Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)793595647106839474Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1298525Cm1Cardiac mass QTL 12.7heart mass (VT:0007028)heart wet weight (CMO:0000069)799736187103146217Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2
Low 10 27 11 16 11 8 9 13 8 15 6 8
Below cutoff 2 2 2 1 2 2 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_031842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACYVU010000185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000053734
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7100,136,391 - 100,136,472 (-)Ensembl
Rnor_6.0 Ensembl7109,286,463 - 109,286,544 (-)Ensembl
RefSeq Acc Id: NR_031842
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27100,136,391 - 100,136,472 (-)NCBI
Rnor_6.07109,286,463 - 109,286,544 (-)NCBI
Rnor_5.07109,228,641 - 109,228,722 (-)NCBI
Celera796,647,647 - 96,647,728 (-)NCBI
Sequence:
Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2325589 AgrOrtholog
BioCyc Gene G2FUF-33096 BioCyc
Ensembl Genes ENSRNOG00000035611 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000053734 ENTREZGENE
miRBase MI0000869 ENTREZGENE
NCBI Gene 100314010 ENTREZGENE
PhenoGen Mir30d PhenoGen
RNAcentral URS000005CF5F RNACentral
  URS00004B2A47 RNACentral
  URS000075B035 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-14 Mir30d  microRNA 30d  Mir30d  microRNA mir-30d  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-06-02 Mir30d  microRNA mir-30d      Symbol and Name status set to provisional 70820 PROVISIONAL