Mir30c2 (microRNA 30c-2) - Rat Genome Database

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Gene: Mir30c2 (microRNA 30c-2) Rattus norvegicus
Analyze
Symbol: Mir30c2
Name: microRNA 30c-2
RGD ID: 2325587
Description: Predicted to enable high-density lipoprotein particle binding activity and mRNA base-pairing translational repressor activity. Predicted to be involved in several processes, including cellular response to tumor necrosis factor; negative regulation of G1/S transition of mitotic cell cycle; and negative regulation of canonical NF-kappaB signal transduction. Predicted to act upstream of or within several processes, including cellular response to lipid; long-term synaptic potentiation; and negative regulation of osteoblast differentiation. Predicted to be located in extracellular exosome. Predicted to be part of RISC complex. Orthologous to human MIR30C2 (microRNA 30c-2); INTERACTS WITH bleomycin A2; nitrofen; paracetamol.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: microRNA mir-30c-2; Mir30c-2; rno-mir-30c-2
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
GRCr8933,253,682 - 33,253,765 (+)NCBIGRCr8
mRatBN7.2925,757,342 - 25,757,425 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl925,757,342 - 25,757,425 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx934,260,256 - 34,260,339 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0939,383,558 - 39,383,641 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0937,688,313 - 37,688,396 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0929,562,376 - 29,562,459 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl929,562,376 - 29,562,459 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0928,397,564 - 28,397,647 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera923,305,349 - 23,305,432 (+)NCBICelera
Cytogenetic Map9q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction 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:15345052   PMID:16381832   PMID:16766679   PMID:17604727   PMID:17805466   PMID:18762567   PMID:20403161   PMID:21628588   PMID:21993888   PMID:23185045   PMID:24205035  
PMID:25858512   PMID:25882492   PMID:30635067   PMID:30776367   PMID:32434515   PMID:33161310   PMID:34217758   PMID:36430472  


Genomics

Comparative Map Data
Mir30c2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8933,253,682 - 33,253,765 (+)NCBIGRCr8
mRatBN7.2925,757,342 - 25,757,425 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl925,757,342 - 25,757,425 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx934,260,256 - 34,260,339 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0939,383,558 - 39,383,641 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0937,688,313 - 37,688,396 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0929,562,376 - 29,562,459 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl929,562,376 - 29,562,459 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0928,397,564 - 28,397,647 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera923,305,349 - 23,305,432 (+)NCBICelera
Cytogenetic Map9q13NCBI
MIR30C2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38671,376,960 - 71,377,031 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl671,376,960 - 71,377,031 (-)EnsemblGRCh38hg38GRCh38
GRCh37672,086,663 - 72,086,734 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36672,143,383 - 72,143,454 (-)NCBINCBI36Build 36hg18NCBI36
Celera672,475,116 - 72,475,187 (-)NCBICelera
Cytogenetic Map6q13NCBI
HuRef669,285,020 - 69,285,091 (-)NCBIHuRef
CHM1_1672,252,905 - 72,252,976 (-)NCBICHM1_1
T2T-CHM13v2.0672,557,564 - 72,557,635 (-)NCBIT2T-CHM13v2.0
Mir30c-2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39123,330,782 - 23,330,865 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl123,330,782 - 23,330,865 (+)EnsemblGRCm39 Ensembl
GRCm38123,291,701 - 23,291,784 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl123,291,701 - 23,291,784 (+)EnsemblGRCm38mm10GRCm38
MGSCv37123,298,540 - 23,298,623 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera123,141,402 - 23,141,485 (+)NCBICelera
Cytogenetic Map1A5NCBI
cM Map19.54NCBI
MIR30C-2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11233,757,899 - 33,757,960 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1233,757,890 - 33,757,969 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1233,616,846 - 33,616,907 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01234,298,119 - 34,298,180 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1234,298,110 - 34,298,189 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11233,833,565 - 33,833,626 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01233,871,623 - 33,871,684 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01233,982,418 - 33,982,479 (-)NCBIUU_Cfam_GSD_1.0
MIR30C-2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl151,383,782 - 51,383,861 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1151,383,782 - 51,383,861 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2157,721,688 - 57,721,767 (-)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:16360
Count of gene targets:8627
Count of transcripts:9316
Interacting mature miRNAs:rno-miR-30c-2-3p
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
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat
724543Cm20Cardiac mass QTL 203.9heart mass (VT:0007028)calculated heart weight (CMO:0000073)91696139840594091Rat
631680Cm11Cardiac mass QTL 113.10.00089heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)92043051965430519Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92207116986369743Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)92207120067071200Rat
1598823Memor16Memory QTL 161.9exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)92213332249968732Rat
7207805Bmd88Bone mineral density QTL 884femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)92375402458157242Rat
1300180Bw14Body weight QTL 143.776body mass (VT:0001259)body weight (CMO:0000012)92375402461381613Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92375414483851531Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92526804479271759Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat

Markers in Region
05.MMHAP59FLB2.seq  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2925,757,588 - 25,757,762 (+)MAPPERmRatBN7.2
Rnor_6.0929,562,623 - 29,562,796NCBIRnor6.0
Rnor_5.0928,397,811 - 28,397,984UniSTSRnor5.0
RGSC_v3.4922,162,877 - 22,163,050UniSTSRGSC3.4
Celera923,305,596 - 23,305,769UniSTS
Cytogenetic Map9q13UniSTS


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

alimentary part of gastrointestinal system 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 2 4 3 7 2
Low 2 17 24 10 14 10 6 9 18 18 19 4 6
Below cutoff 4 1 6 3 4

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_031844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000053685
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl925,757,342 - 25,757,425 (+)Ensembl
Rnor_6.0 Ensembl929,562,376 - 29,562,459 (+)Ensembl
RefSeq Acc Id: NR_031844
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8933,253,682 - 33,253,765 (+)NCBI
mRatBN7.2925,757,342 - 25,757,425 (+)NCBI
Rnor_6.0929,562,376 - 29,562,459 (+)NCBI
Rnor_5.0928,397,564 - 28,397,647 (+)NCBI
Celera923,305,349 - 23,305,432 (+)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:2325587 AgrOrtholog
BioCyc Gene G2FUF-27975 BioCyc
Ensembl Genes ENSRNOG00000035562 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000053685 ENTREZGENE
miRBase MI0000871 ENTREZGENE
NCBI Gene 100314012 ENTREZGENE
PhenoGen Mir30c2 PhenoGen
RatGTEx ENSRNOG00000035562 RatGTEx
RNAcentral URS000019907A RNACentral
  URS0000527228 RNACentral
  URS000075C563 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-14 Mir30c2  microRNA 30c-2  Mir30c-2  microRNA mir-30c-2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-06-02 Mir30c-2  microRNA mir-30c-2      Symbol and Name status set to provisional 70820 PROVISIONAL