MIR148B (microRNA 148b) - Rat Genome Database

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Gene: MIR148B (microRNA 148b) Homo sapiens
Analyze
Symbol: MIR148B
Name: microRNA 148b
RGD ID: 1351245
HGNC Page HGNC
Description: Predicted to act upstream of or within cellular response to mechanical stimulus; long-term synaptic potentiation; and sensory perception of sound.
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: mir-148b; MIRN148B
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
GRCh38.p13 Ensembl1254,337,216 - 54,337,314 (+)EnsemblGRCh38hg38GRCh38
GRCh381254,337,216 - 54,337,314 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371254,731,000 - 54,731,098 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361253,017,266 - 53,017,364 (+)NCBINCBI36hg18NCBI36
Celera1254,382,994 - 54,383,092 (+)NCBI
Cytogenetic Map12q13.13NCBI
HuRef1251,770,194 - 51,770,292 (+)NCBIHuRef
CHM1_11254,697,702 - 54,697,800 (+)NCBICHM1_1
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

Biological Process

References

Additional References at PubMed
PMID:12624257   PMID:14691248   PMID:15634332   PMID:16381832   PMID:17604727   PMID:17616659   PMID:20829195   PMID:21037258   PMID:21205300   PMID:22020560   PMID:22344713   PMID:22362909  
PMID:22843616   PMID:22927033   PMID:23171948   PMID:23233531   PMID:23716670   PMID:24448385   PMID:24632606   PMID:24805877   PMID:25187697   PMID:25501703   PMID:25627001   PMID:25630670  
PMID:25755777   PMID:25904302   PMID:25927928   PMID:25997710   PMID:26530325   PMID:26573018   PMID:26581012   PMID:26646931   PMID:27083571   PMID:27328731   PMID:27505047   PMID:27597765  
PMID:28331063   PMID:28440026   PMID:28656878   PMID:28880997   PMID:29523216   PMID:29587866   PMID:29661252   PMID:29843955   PMID:30099339   PMID:30146796   PMID:30355654   PMID:30361294  
PMID:30451334   PMID:30849960   PMID:31082428   PMID:31109440   PMID:31174435   PMID:31336396   PMID:31460781   PMID:31503013   PMID:31883226   PMID:31926240   PMID:32470448   PMID:32626976  
PMID:32940422   PMID:33274232   PMID:33423167   PMID:33527791   PMID:33570057   PMID:33717068   PMID:34308752   PMID:34655977  


Genomics

Comparative Map Data
MIR148B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1254,337,216 - 54,337,314 (+)EnsemblGRCh38hg38GRCh38
GRCh381254,337,216 - 54,337,314 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371254,731,000 - 54,731,098 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361253,017,266 - 53,017,364 (+)NCBINCBI36hg18NCBI36
Celera1254,382,994 - 54,383,092 (+)NCBI
Cytogenetic Map12q13.13NCBI
HuRef1251,770,194 - 51,770,292 (+)NCBIHuRef
CHM1_11254,697,702 - 54,697,800 (+)NCBICHM1_1
Mir148b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915103,193,552 - 103,193,648 (+)NCBIGRCm39mm39
GRCm39 Ensembl15103,193,552 - 103,193,648 (+)Ensembl
GRCm3815103,285,125 - 103,285,221 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15103,285,125 - 103,285,221 (+)EnsemblGRCm38mm10GRCm38
MGSCv3715103,115,556 - 103,115,652 (+)NCBIGRCm37mm9NCBIm37
Celera15105,447,521 - 105,447,617 (+)NCBICelera
Cytogenetic Map15F3NCBI
Mir148b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27134,421,398 - 134,421,494 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl7134,421,398 - 134,421,494 (+)Ensembl
Rnor_6.07144,912,038 - 144,912,134 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7144,912,038 - 144,912,134 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07142,692,726 - 142,692,822 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera7130,846,616 - 130,846,712 (+)NCBICelera
Cytogenetic Map7q36NCBI
MIR148B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.127975,146 - 975,206 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl27975,131 - 975,220 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2745,279,950 - 45,280,010 (+)NCBI
ROS_Cfam_1.027972,110 - 972,170 (-)NCBI
UMICH_Zoey_3.127991,210 - 991,270 (-)NCBI
UNSW_CanFamBas_1.027972,833 - 972,893 (-)NCBI
UU_Cfam_GSD_1.02745,683,868 - 45,683,928 (+)NCBI
MIR148B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl519,530,985 - 19,531,074 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1519,530,990 - 19,531,069 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2520,388,191 - 20,388,270 (+)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
MCL1hsa-miR-148b-5pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI20829195
PLS3hsa-miR-148b-5pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
HLA-Ghsa-miR-148b-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI17847008
CCKBRhsa-miR-148b-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI21205300
CCKBRhsa-miR-148b-3pMirtarbaseexternal_infoIn situ hybridization//Luciferase reporter assay//Functional MTI22020560
ITGA5hsa-miR-148b-3pMirtarbaseexternal_infoWestern blotFunctional MTI23238785
RAB3Bhsa-miR-148b-3pMirtarbaseexternal_infoMicroarrayFunctional MTI (Weak)17612493
ZDHHC17hsa-miR-148b-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
NXPE3hsa-miR-148b-3pTarbaseexternal_infoMicroarrayPOSITIVE
DNMT3Bhsa-miR-148b-3pMirecordsexternal_infoNANA18367714
CCKBRhsa-miR-148b-3pMirecordsexternal_info{unchanged}NA21205300
NOGhsa-miR-148b-3pMirecordsexternal_infoNANA21205300
ITGA5hsa-miR-148b-3pOncomiRDBexternal_infoNANA23233531
CCKBRhsa-miR-148b-3pOncomiRDBexternal_infoNANA22020560
MITFhsa-miR-148b-3pOncomiRDBexternal_infoNANA20644734

Predicted Targets
Summary Value
Count of predictions:32503
Count of gene targets:11374
Count of transcripts:23442
Interacting mature miRNAs:hsa-miR-148b-3p, hsa-miR-148b-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.


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 1 1
Low 103 30 73 32 309 35 124 53 98 82 179 210 5 4 29 4
Below cutoff 71 49 31 12 36 3 80 39 55 11 58 44 9 20 44

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000362252
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1254,337,216 - 54,337,314 (+)Ensembl
RefSeq Acc Id: NR_029894
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381254,337,216 - 54,337,314 (+)NCBI
GRCh371254,731,000 - 54,731,098 (+)RGD
Celera1254,382,994 - 54,383,092 (+)RGD
HuRef1251,770,194 - 51,770,292 (+)RGD
CHM1_11254,697,702 - 54,697,800 (+)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
NM_016057.2(COPZ1):c.19-18A>G single nucleotide variant Malignant melanoma [RCV000070067] Chr12:54340529 [GRCh38]
Chr12:54734313 [GRCh37]
Chr12:53020580 [NCBI36]
Chr12:12q13.13
not provided
GRCh38/hg38 12p13.33-q24.33(chr12:121271-133196807)x3 copy number gain See cases [RCV000139555] Chr12:121271..133196807 [GRCh38]
Chr12:282465..133773393 [GRCh37]
Chr12:100698..132283466 [NCBI36]
Chr12:12p13.33-q24.33
pathogenic
GRCh38/hg38 12q13.13-13.3(chr12:53420606-56202942)x3 copy number gain See cases [RCV000141435] Chr12:53420606..56202942 [GRCh38]
Chr12:53814390..56596726 [GRCh37]
Chr12:52100657..54882993 [NCBI36]
Chr12:12q13.13-13.3
pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:1-133851895)x3 copy number gain See cases [RCV000258805] Chr12:1..133851895 [GRCh37]
Chr12:12p13.33-q24.33
pathogenic|likely pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:173787-133777902)x3 copy number gain See cases [RCV000510482] Chr12:173787..133777902 [GRCh37]
Chr12:12p13.33-q24.33
pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:173787-133777902) copy number gain See cases [RCV000511643] Chr12:173787..133777902 [GRCh37]
Chr12:12p13.33-q24.33
pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:191619-133777645)x3 copy number gain not provided [RCV000750246] Chr12:191619..133777645 [GRCh37]
Chr12:12p13.33-q24.33
pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:621220-133779118)x3 copy number gain not provided [RCV000750253] Chr12:621220..133779118 [GRCh37]
Chr12:12p13.33-q24.33
pathogenic
Single allele deletion Neurodevelopmental disorder [RCV000787381] Chr12:53784698..54741363 [GRCh37]
Chr12:12q13.13
pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:31761 AgrOrtholog
COSMIC MIR148B COSMIC
Ensembl Genes ENSG00000199122 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000362252 ENTREZGENE
GTEx ENSG00000199122 GTEx
HGNC ID HGNC:31761 ENTREZGENE
Human Proteome Map MIR148B Human Proteome Map
miRBase MI0000811 ENTREZGENE
NCBI Gene 442892 ENTREZGENE
OMIM 613787 OMIM
PharmGKB PA164722504 PharmGKB
RNAcentral URS0000521626 RNACentral
  URS00005A7A84 RNACentral
  URS000075C16C RNACentral