MIR128-1 (microRNA 128-1) - Rat Genome Database

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Gene: MIR128-1 (microRNA 128-1) Homo sapiens
Analyze
Symbol: MIR128-1
Name: microRNA 128-1
RGD ID: 1343624
HGNC Page HGNC:31510
Description: Enables mRNA 3'-UTR binding activity and mRNA base-pairing post-transcriptional repressor activity. Involved in several processes, including cellular response to lipopolysaccharide; negative regulation of transport; and regulation of gene expression. Acts upstream of or within negative regulation of gene expression. Located in extracellular space.
Type: ncrna
RefSeq Status: PROVISIONAL
Previously known as: microrna 128a; mir-128-1; MIR128A; MIRN128-1; MIRN128A
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
GRCh382135,665,397 - 135,665,478 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2135,665,397 - 135,665,478 (+)EnsemblGRCh38hg38GRCh38
GRCh372136,422,967 - 136,423,048 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362136,139,436 - 136,139,517 (+)NCBINCBI36hg18NCBI36
Celera2130,133,728 - 130,133,809 (+)NCBI
Cytogenetic Map2q21.3NCBI
HuRef2128,415,938 - 128,416,019 (+)NCBIHuRef
CHM1_12136,427,877 - 136,427,958 (+)NCBICHM1_1
T2T-CHM13v2.02136,105,929 - 136,106,010 (+)NCBI
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
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:16381832   PMID:17604727   PMID:18056805   PMID:18381601   PMID:19048628   PMID:19228967   PMID:19713529   PMID:19955085   PMID:20054641   PMID:20889907  
PMID:21037258   PMID:21228036   PMID:21358821   PMID:21596314   PMID:22614013   PMID:22853714   PMID:23034410   PMID:23482671   PMID:23492773   PMID:23835497   PMID:23958464   PMID:23990020  
PMID:24046120   PMID:24064186   PMID:24316133   PMID:24415783   PMID:24682535   PMID:24718706   PMID:24846063   PMID:24959930   PMID:25017996   PMID:25248111   PMID:25704921   PMID:25764126  
PMID:25781272   PMID:25916109   PMID:25921099   PMID:25962360   PMID:26238021   PMID:26307612   PMID:26324126   PMID:26339409   PMID:26367248   PMID:26460960   PMID:26501192   PMID:26646931  
PMID:26700675   PMID:27087048   PMID:27133073   PMID:27261578   PMID:27341528   PMID:27351280   PMID:27485180   PMID:27507538   PMID:27705931   PMID:27893811   PMID:28146425   PMID:28424413  
PMID:28431233   PMID:28497421   PMID:28514100   PMID:28569789   PMID:28627514   PMID:28974576   PMID:29116653   PMID:29236960   PMID:29329360   PMID:29524580   PMID:30025750   PMID:30076414  
PMID:30076714   PMID:30132868   PMID:30139235   PMID:30177387   PMID:30206206   PMID:30535495   PMID:30556928   PMID:30575919   PMID:30629798   PMID:30890168   PMID:30905197   PMID:31010097  
PMID:31102936   PMID:31341054   PMID:31352238   PMID:31477582   PMID:31828927   PMID:32030966   PMID:32129458   PMID:32432792   PMID:32528036   PMID:32536914   PMID:32558224   PMID:32562719  
PMID:32663367   PMID:32739259   PMID:32958647   PMID:32993809   PMID:33015801   PMID:33058756   PMID:33174038   PMID:33174052   PMID:33379338   PMID:33438013   PMID:33611674   PMID:33622342  
PMID:33760158   PMID:33760168   PMID:33791361   PMID:33976188   PMID:33991762   PMID:33993846   PMID:34047500   PMID:34111240   PMID:34263426   PMID:34368861   PMID:34387972   PMID:34895074  
PMID:34936021   PMID:34968167   PMID:34990303   PMID:35000531   PMID:35082915  


Genomics

Comparative Map Data
MIR128-1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382135,665,397 - 135,665,478 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2135,665,397 - 135,665,478 (+)EnsemblGRCh38hg38GRCh38
GRCh372136,422,967 - 136,423,048 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362136,139,436 - 136,139,517 (+)NCBINCBI36hg18NCBI36
Celera2130,133,728 - 130,133,809 (+)NCBI
Cytogenetic Map2q21.3NCBI
HuRef2128,415,938 - 128,416,019 (+)NCBIHuRef
CHM1_12136,427,877 - 136,427,958 (+)NCBICHM1_1
T2T-CHM13v2.02136,105,929 - 136,106,010 (+)NCBI
Mir128-1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391128,130,098 - 128,130,167 (+)NCBIGRCm39mm39
GRCm39 Ensembl1128,130,098 - 128,130,167 (+)Ensembl
GRCm381128,202,361 - 128,202,430 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1128,202,361 - 128,202,430 (+)EnsemblGRCm38mm10GRCm38
MGSCv371130,098,938 - 130,099,007 (+)NCBIGRCm37mm9NCBIm37
Celera1130,829,788 - 130,829,857 (+)NCBICelera
Cytogenetic Map1E3NCBI
Mir128-1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21339,699,449 - 39,699,530 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1339,699,449 - 39,699,530 (+)Ensembl
Rnor_6.01344,916,534 - 44,916,615 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1344,916,534 - 44,916,615 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01350,001,706 - 50,001,787 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1340,073,464 - 40,073,545 (+)NCBICelera
Cytogenetic Map13q13NCBI
MIR128-1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11938,435,956 - 38,436,011 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1938,679,708 - 38,679,763 (+)NCBI
ROS_Cfam_1.01939,881,919 - 39,881,974 (+)NCBI
UMICH_Zoey_3.11938,524,004 - 38,524,059 (+)NCBI
UNSW_CanFamBas_1.01938,687,099 - 38,687,154 (+)NCBI
UU_Cfam_GSD_1.01939,920,158 - 39,920,213 (+)NCBI
MIR128-1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1516,273,551 - 16,273,659 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11516,273,557 - 16,273,638 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21518,661,614 - 18,661,695 (-)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
NTRK3hsa-miR-128-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI19370765
NTRK3hsa-miR-128-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI21143953
DCXhsa-miR-128-3pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI19713529
RELNhsa-miR-128-3pMirtarbaseexternal_infoqRT-PCR//Western blot//Luciferase reporter assayFunctional MTI19713529
WEE1hsa-miR-128-3pMirtarbaseexternal_infoMicroarrayFunctional MTI (Weak)17612493
E2F3hsa-miR-128-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI18810376
E2F3hsa-miR-128-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI19013014
EGFRhsa-miR-128-3pMirtarbaseexternal_infoWestern blotFunctional MTI22853714
BMI1hsa-miR-128-3pMirtarbaseexternal_infoImmunohistochemistry//In situ hybridization//MicroFunctional MTI19010882
BMI1hsa-miR-128-3pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI20574517
BMI1hsa-miR-128-3pMirtarbaseexternal_infoNorthern blot//Western blotFunctional MTI19941032
TGFBR1hsa-miR-128-3pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI20054641
TGFBR1hsa-miR-128-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
FBXW7hsa-miR-128-3pMirtarbaseexternal_infoLuciferase reporter assay//Microarray//Northern blFunctional MTI20042474
FBXW7hsa-miR-128-3pMirtarbaseexternal_infoSequencingFunctional MTI (Weak)20371350
SIRT1hsa-miR-128-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI23492773
SOX2hsa-miR-128-3pMirtarbaseexternal_infoReporter assayNon-Functional MTI19409607
CTDSP1hsa-miR-128-3pMirtarbaseexternal_infoReporter assayNon-Functional MTI17403776
BMI1hsa-miR-128-3pOncomiRDBexternal_infoNANA23019226
BMI1hsa-miR-128-3pOncomiRDBexternal_infoNANA22908280
BMI1hsa-miR-128-3pOncomiRDBexternal_infoNANA22614013
RPS6KB1hsa-miR-128-3pOncomiRDBexternal_infoNANA22442669
E2F5hsa-miR-128-3pOncomiRDBexternal_infoNANA22193543
BMI1hsa-miR-128-3pOncomiRDBexternal_infoNANA21953503
MSI1hsa-miR-128-3pOncomiRDBexternal_infoNANA21881409
EGFRhsa-miR-128-3pOncomiRDBexternal_infoNANA21874051
E2F3hsa-miR-128-3pOncomiRDBexternal_infoNANA21372826
WEE1hsa-miR-128-3pOncomiRDBexternal_infoNANA20668041
BMI1hsa-miR-128-3pOncomiRDBexternal_infoNANA20574517
TGFBR1hsa-miR-128-3pOncomiRDBexternal_infoNANA20054641
KMT2Ahsa-miR-128-3pOncomiRDBexternal_infoNANA19749093
RELNhsa-miR-128-3pOncomiRDBexternal_infoNANA19713529
BMI1hsa-miR-128-3pOncomiRDBexternal_infoNANA19010882
E2F3hsa-miR-128-3pOncomiRDBexternal_infoNANA18810376

Predicted Targets
Summary Value
Count of predictions:58263
Count of gene targets:20188
Count of transcripts:53983
Interacting mature miRNAs:hsa-miR-128-1-5p, hsa-miR-128-3p
Prediction methods:Microtar, Miranda, 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 3 3
Low 39 16 30 18 192 18 70 21 74 15 58 96 2 11
Below cutoff 22 8 8 4 21 5 25 22 45 20 30 24 3 3 10 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000384921
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2135,665,397 - 135,665,478 (+)Ensembl
RefSeq Acc Id: NR_029672
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382135,665,397 - 135,665,478 (+)NCBI
GRCh372136,422,967 - 136,423,048 (+)RGD
Celera2130,133,728 - 130,133,809 (+)RGD
HuRef2128,415,938 - 128,416,019 (+)ENTREZGENE
CHM1_12136,427,877 - 136,427,958 (+)NCBI
T2T-CHM13v2.02136,105,929 - 136,106,010 (+)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 2q14.3-22.1(chr2:123445762-140592538)x1 copy number loss See cases [RCV000136714] Chr2:123445762..140592538 [GRCh38]
Chr2:124203338..141350107 [GRCh37]
Chr2:123919808..141066577 [NCBI36]
Chr2:2q14.3-22.1
pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:14238-243048760)x3 copy number gain not provided [RCV000752802] Chr2:14238..243048760 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2q14.3-22.1(chr2:128490257-138210164)x1 copy number loss See cases [RCV000445892] Chr2:128490257..138210164 [GRCh37]
Chr2:2q14.3-22.1
pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:12771-242783384) copy number gain See cases [RCV000512056] Chr2:12771..242783384 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:12771-242783384)x3 copy number gain See cases [RCV000511212] Chr2:12771..242783384 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2q12.1-24.3(chr2:104172062-168223828)x1 copy number loss Poly (ADP-Ribose) polymerase inhibitor response [RCV000626436] Chr2:104172062..168223828 [GRCh37]
Chr2:2q12.1-24.3
drug response
GRCh37/hg19 2q14.2-22.1(chr2:120571363-141627287)x1 copy number loss See cases [RCV000512348] Chr2:120571363..141627287 [GRCh37]
Chr2:2q14.2-22.1
pathogenic
Single allele deletion not provided [RCV000714264] Chr2:40608411..146900718 [GRCh37]
Chr2:2p22.1-q22.3
likely pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:15672-243101834)x3 copy number gain not provided [RCV000752804] Chr2:15672..243101834 [GRCh37]
Chr2:2p25.3-q37.3
pathogenic
GRCh37/hg19 2q21.3-22.1(chr2:135712129-137818795)x3 copy number gain not provided [RCV000849325] Chr2:135712129..137818795 [GRCh37]
Chr2:2q21.3-22.1
uncertain significance
GRCh37/hg19 2q21.2-22.1(chr2:133457177-138188195)x1 copy number loss not provided [RCV000846930] Chr2:133457177..138188195 [GRCh37]
Chr2:2q21.2-22.1
pathogenic
GRCh37/hg19 2q14.3-22.2(chr2:122699106-143799629)x1 copy number loss not provided [RCV001832883] Chr2:122699106..143799629 [GRCh37]
Chr2:2q14.3-22.2
pathogenic
GRCh37/hg19 2q13-22.3(chr2:111484468-146333604)x3 copy number gain not provided [RCV001832896] Chr2:111484468..146333604 [GRCh37]
Chr2:2q13-22.3
pathogenic
GRCh37/hg19 2q13-22.3(chr2:112475655-145691999)x3 copy number gain 2q13q22.3 microduplication syndrome [RCV002226436] Chr2:112475655..145691999 [GRCh37]
Chr2:2q13-22.3
pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:31510 AgrOrtholog
COSMIC MIR128-1 COSMIC
Ensembl Genes ENSG00000207654 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000384921 ENTREZGENE
GTEx ENSG00000207654 GTEx
HGNC ID HGNC:31510 ENTREZGENE
Human Proteome Map MIR128-1 Human Proteome Map
miRBase MI0000447 ENTREZGENE
NCBI Gene 406915 ENTREZGENE
OMIM 611774 OMIM
PharmGKB PA164722427 PharmGKB
RNAcentral URS000024A59E RNACentral
  URS00002D9CBA RNACentral
  URS0000537082 RNACentral