Mir98 (microRNA 98) - Rat Genome Database

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Pathways
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Gene: Mir98 (microRNA 98) Rattus norvegicus
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Symbol: Mir98
Name: microRNA 98
RGD ID: 2325581
Description: Predicted to enable mRNA 3'-UTR binding activity and mRNA base-pairing translational repressor activity. Predicted to be involved in several processes, including cellular response to amyloid-beta; negative regulation of gene expression; and negative regulation of signal transduction. Predicted to act upstream of or within several processes, including cellular response to lipopolysaccharide; long-term synaptic potentiation; and negative regulation of osteoblast differentiation. Orthologous to human MIR98 (microRNA 98); INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; bleomycin A2; cadmium atom.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: microRNA mir-98; rno-mir-98
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X24,460,648 - 24,460,755 (+)NCBIGRCr8
mRatBN7.2X20,981,235 - 20,981,342 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX20,981,235 - 20,981,342 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX18,458,905 - 18,459,012 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X21,664,568 - 21,664,675 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X21,546,878 - 21,546,985 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X21,583,875 - 21,583,982 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX21,583,875 - 21,583,982 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X21,867,881 - 21,867,988 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX21,262,415 - 21,262,522 (+)NCBICelera
Cytogenetic MapXq13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cellular response to amyloid-beta  (ISO)
cellular response to lipopolysaccharide  (ISO)
long-term synaptic potentiation  (ISO)
miRNA-mediated gene silencing by inhibition of translation  (ISO)
miRNA-mediated gene silencing by mRNA destabilization  (ISO)
miRNA-mediated post-transcriptional gene silencing  (ISO)
negative regulation of BMP signaling pathway  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of cholesterol biosynthetic process  (ISO)
negative regulation of cytokine production  (ISO)
negative regulation of cytokine production involved in inflammatory response  (ISO)
negative regulation of extracellular matrix assembly  (ISO)
negative regulation of extracellular matrix disassembly  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of interleukin-1 beta production  (ISO)
negative regulation of interleukin-10 production  (ISO)
negative regulation of interleukin-6 production  (ISO)
negative regulation of interleukin-6-mediated signaling pathway  (ISO)
negative regulation of interleukin-8 production  (ISO)
negative regulation of myofibroblast differentiation  (ISO)
negative regulation of osteoblast differentiation  (ISO)
negative regulation of transforming growth factor beta receptor signaling pathway  (ISO)
negative regulation of tumor necrosis factor production  (ISO)
negative regulation of vascular endothelial cell proliferation  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of neuron apoptotic process  (ISO)
regulation of cytokine production involved in inflammatory response  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Circ_0048856 competes with ABCC1 for miR-193a-5p/miR-98-5p binding sites to promote the cisplatin resistance and tumorigenesis in lung cancer. Liu L, etal., J Chemother. 2022 Mar 15:1-14. doi: 10.1080/1120009X.2022.2043515.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. MicroRNA-31 activates the RAS pathway and functions as an oncogenic MicroRNA in human colorectal cancer by repressing RAS p21 GTPase activating protein 1 (RASA1). Sun D, etal., J Biol Chem. 2013 Mar 29;288(13):9508-18. doi: 10.1074/jbc.M112.367763. Epub 2013 Jan 15.
Additional References at PubMed
PMID:14691248   PMID:16381832   PMID:16766679   PMID:17604727   PMID:20403161   PMID:21609717   PMID:22012613   PMID:24444606   PMID:25858512   PMID:25903459   PMID:26840039   PMID:27590063  
PMID:30419147   PMID:30659647   PMID:31322216   PMID:33617954   PMID:37064501  


Genomics

Comparative Map Data
Mir98
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X24,460,648 - 24,460,755 (+)NCBIGRCr8
mRatBN7.2X20,981,235 - 20,981,342 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX20,981,235 - 20,981,342 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX18,458,905 - 18,459,012 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X21,664,568 - 21,664,675 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X21,546,878 - 21,546,985 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X21,583,875 - 21,583,982 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX21,583,875 - 21,583,982 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X21,867,881 - 21,867,988 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX21,262,415 - 21,262,522 (+)NCBICelera
Cytogenetic MapXq13NCBI
MIR98
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X53,556,223 - 53,556,341 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX53,556,223 - 53,556,341 (-)EnsemblGRCh38hg38GRCh38
GRCh37X53,583,184 - 53,583,302 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X53,599,908 - 53,600,026 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX57,414,753 - 57,414,871 (-)NCBICelera
Cytogenetic MapXp11.22NCBI
HuRefX50,639,144 - 50,639,262 (-)NCBIHuRef
CHM1_1X53,574,160 - 53,574,278 (-)NCBICHM1_1
T2T-CHM13v2.0X52,842,581 - 52,842,699 (-)NCBIT2T-CHM13v2.0
Mir98
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X150,696,210 - 150,696,317 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX150,696,210 - 150,696,317 (+)EnsemblGRCm39 Ensembl
GRCm38X151,913,214 - 151,913,321 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX151,913,214 - 151,913,321 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X148,347,757 - 148,347,864 (+)NCBIGRCm37MGSCv37mm9NCBIm37
CeleraX132,517,150 - 132,517,257 (-)NCBICelera
Cytogenetic MapXF3NCBI
cM MapX68.46NCBI
MIR98
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X45,253,693 - 45,253,772 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX45,253,696 - 45,253,775 (-)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X45,578,696 - 45,578,775 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X45,073,740 - 45,073,819 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X45,523,371 - 45,523,450 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X45,590,976 - 45,591,055 (-)NCBIUU_Cfam_GSD_1.0
MIR98
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX46,302,381 - 46,302,460 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X46,302,381 - 46,302,460 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X51,800,864 - 51,800,943 (-)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Taglnrno-miR-98-5pMirtarbaseexternal_infoMicroarrayFunctional MTI (Weak)18258830
Ccnd2rno-miR-98-5pMirtarbaseexternal_infoLuciferase reporter assay//Microarray//Northern blFunctional MTI21183740

Predicted Targets
Summary Value
Count of predictions:13484
Count of gene targets:7468
Count of transcripts:8050
Interacting mature miRNAs:rno-miR-98-3p, rno-miR-98-5p
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1529780260297802Rat


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
Low 4 22 6 16 6 4 4 10 8 9 8 4
Below cutoff 1 2 2 2 1 1 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_031855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000053779
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX20,981,235 - 20,981,342 (+)Ensembl
Rnor_6.0 EnsemblX21,583,875 - 21,583,982 (+)Ensembl
RefSeq Acc Id: NR_031855
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X24,460,648 - 24,460,755 (+)NCBI
mRatBN7.2X20,981,235 - 20,981,342 (+)NCBI
Rnor_6.0X21,583,875 - 21,583,982 (+)NCBI
Rnor_5.0X21,867,881 - 21,867,988 (-)NCBI
CeleraX21,262,415 - 21,262,522 (+)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:2325581 AgrOrtholog
BioCyc Gene G2FUF-2721 BioCyc
Ensembl Genes ENSRNOG00000035656 Ensembl
miRBase MI0000882 ENTREZGENE
NCBI Gene 100314018 ENTREZGENE
PhenoGen Mir98 PhenoGen
RatGTEx ENSRNOG00000035656 RatGTEx
RNAcentral URS00004E0808 RNACentral
  URS000075A71C RNACentral
  URS000075CA0E RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-22 Mir98  microRNA 98  Mir98  microRNA mir-98  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-06-02 Mir98  microRNA mir-98      Symbol and Name status set to provisional 70820 PROVISIONAL