MIR30C2 (microRNA 30c-2) - Rat Genome Database

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Gene: MIR30C2 (microRNA 30c-2) Homo sapiens
Analyze
Symbol: MIR30C2
Name: microRNA 30c-2
RGD ID: 1348464
HGNC Page HGNC:31627
Description: Enables high-density lipoprotein particle binding activity and mRNA base-pairing translational repressor activity. 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. Located in extracellular exosome.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: mir-30c-2; MIRN30C2
RGD Orthologs
Mouse
Rat
Dog
Pig
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
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
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:12007417   PMID:15325244   PMID:15634332   PMID:15978578   PMID:16381832   PMID:17604727   PMID:17616659   PMID:19048628   PMID:20889907   PMID:21037258   PMID:21878751   PMID:22024689  
PMID:22108846   PMID:22431749   PMID:22952991   PMID:22964638   PMID:23144934   PMID:23340433   PMID:23418453   PMID:23749231   PMID:24007526   PMID:24112779   PMID:24452717   PMID:24802714  
PMID:25119247   PMID:25521481   PMID:25692340   PMID:25732226   PMID:26115089   PMID:26418018   PMID:26646931   PMID:27365390   PMID:27506865   PMID:27780851   PMID:28056546   PMID:28062296  
PMID:28423547   PMID:28610790   PMID:28798470   PMID:29016810   PMID:29304493   PMID:29364496   PMID:29495977   PMID:29737469   PMID:30182731   PMID:30773676   PMID:30963631   PMID:31081087  
PMID:31342628   PMID:31595977   PMID:31754292   PMID:31904478   PMID:32602286   PMID:32860492   PMID:33468212   PMID:33775270   PMID:33821429   PMID:33861889   PMID:34048811   PMID:34106501  
PMID:34172072   PMID:34586620   PMID:34991623   PMID:35106560   PMID:37532136  


Genomics

Comparative Map Data
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
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
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


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 6q13(chr6:70809191-71941709)x3 copy number gain See cases [RCV000135579] Chr6:70809191..71941709 [GRCh38]
Chr6:71518894..72651412 [GRCh37]
Chr6:71575615..72708133 [NCBI36]
Chr6:6q13
uncertain significance
GRCh38/hg38 6q13(chr6:70794142-71972780)x3 copy number gain See cases [RCV000142320] Chr6:70794142..71972780 [GRCh38]
Chr6:71503845..72682483 [GRCh37]
Chr6:71560566..72739204 [NCBI36]
Chr6:6q13
uncertain significance
GRCh38/hg38 6q12-14.2(chr6:64549655-83426791)x1 copy number loss See cases [RCV000142527] Chr6:64549655..83426791 [GRCh38]
Chr6:65259548..84136510 [GRCh37]
Chr6:65316269..84193229 [NCBI36]
Chr6:6q12-14.2
pathogenic
miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
SMAD1hsa-miR-30c-5pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI22253433
MUC17hsa-miR-30c-5pMirtarbaseexternal_infoImmunohistochemistry//Microarray//qRT-PCRFunctional MTI (Weak)20926598
UBE2Ihsa-miR-30c-5pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI19223510
SERPINE1hsa-miR-30c-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI21175428
HSPA4hsa-miR-30c-5pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCRFunctional MTI22842562
TGIF2hsa-miR-30c-5pMirtarbaseexternal_infoqRT-PCR//Western blotFunctional MTI23469762
SOCS3hsa-miR-30c-5pMirtarbaseexternal_infoqRT-PCRFunctional MTI (Weak)23418453
VIMhsa-miR-30c-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI23224145
HMG20Ahsa-miR-30c-5pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
TWF1hsa-miR-30c-5pOncomiRDBexternal_infoNANA23340433
TWF1hsa-miR-30c-5pOncomiRDBexternal_infoNANA23224145
CASP3hsa-miR-30c-5pOncomiRDBexternal_infoNANA22964638
KRAShsa-miR-30c-5pOncomiRDBexternal_infoNANA22701724
BCL2L11hsa-miR-30c-5pOncomiRDBexternal_infoNANA22157681
MTA1hsa-miR-30c-5pOncomiRDBexternal_infoNANA22139444
MYBhsa-miR-30c-5pOncomiRDBexternal_infoNANA21187425
UBE2Ihsa-miR-30c-5pOncomiRDBexternal_infoNANA20498642
HUWE1hsa-miR-30c-2-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
BCL9hsa-miR-30c-2-3pOncomiRDBexternal_infoNANA22024689

Predicted Targets
Summary Value
Count of predictions:38176
Count of gene targets:14381
Count of transcripts:28555
Interacting mature miRNAs:hsa-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.

Markers in Region
SHGC-132820  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37672,086,579 - 72,086,890UniSTSGRCh37
Build 36672,143,300 - 72,143,611RGDNCBI36
Celera672,475,032 - 72,475,343RGD
Cytogenetic Map6q13UniSTS
HuRef669,284,936 - 69,285,247UniSTS
TNG Radiation Hybrid Map633681.0UniSTS
SHGC-52659  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37672,086,579 - 72,086,800UniSTSGRCh37
Build 36672,143,300 - 72,143,521RGDNCBI36
Celera672,475,032 - 72,475,253RGD
Cytogenetic Map6q13UniSTS
HuRef669,284,936 - 69,285,157UniSTS


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 sensory system adipose tissue appendage entire extraembryonic component
High
Medium 8 1 18 10 4 12 10 5 12 92 66 60 2 1 1
Low 66 33 174 111 54 110 151 48 120 164 152 220 7 2 16 3
Below cutoff 10 7 3 9 1 13 16 13 5 4 11 4 9

Sequence


RefSeq Acc Id: ENST00000362224
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl671,376,960 - 71,377,031 (-)Ensembl
RefSeq Acc Id: NR_029598
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38671,376,960 - 71,377,031 (-)NCBI
GRCh37672,086,663 - 72,086,734 (-)RGD
Celera672,475,116 - 72,475,187 (-)RGD
HuRef669,285,020 - 69,285,091 (-)RGD
CHM1_1672,252,905 - 72,252,976 (-)NCBI
T2T-CHM13v2.0672,557,564 - 72,557,635 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:31627 AgrOrtholog
COSMIC MIR30C2 COSMIC
Ensembl Genes ENSG00000199094 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000362224 ENTREZGENE
GTEx ENSG00000199094 GTEx
HGNC ID HGNC:31627 ENTREZGENE
Human Proteome Map MIR30C2 Human Proteome Map
miRBase MI0000254 ENTREZGENE
NCBI Gene 407032 ENTREZGENE
PharmGKB PA164722644 PharmGKB
RNAcentral URS0000137EDE RNACentral
  URS000019907A RNACentral
  URS0000527228 RNACentral