MIR25 (microRNA 25) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: MIR25 (microRNA 25) Homo sapiens
Analyze
Symbol: MIR25
Name: microRNA 25
RGD ID: 1351042
HGNC Page HGNC
Description: Predicted to be involved in several processes, including SMAD protein signal transduction; cellular response to forskolin; and long-term synaptic potentiation. Biomarker of hepatocellular carcinoma.
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: hsa-mir-25; miR-25; MIRN25
RGD Orthologs
Mouse
Rat
Dog
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 Ensembl7100,093,560 - 100,093,643 (-)EnsemblGRCh38hg38GRCh38
GRCh387100,093,560 - 100,093,643 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37799,691,183 - 99,691,266 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36799,529,118 - 99,529,201 (-)NCBINCBI36hg18NCBI36
Celera794,425,842 - 94,425,925 (-)NCBI
Cytogenetic Map7q22.1NCBI
HuRef794,326,834 - 94,326,917 (-)NCBIHuRef
CHM1_1799,621,340 - 99,621,423 (-)NCBICHM1_1
CRA_TCAGchr7v2799,051,303 - 99,051,386 (-)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:11679670   PMID:15325244   PMID:16381832   PMID:17604727   PMID:17616659   PMID:18328430   PMID:18728182   PMID:18766170   PMID:19153141   PMID:19486339   PMID:19541842   PMID:20388916  
PMID:20637509   PMID:20935678   PMID:21037258   PMID:21953056   PMID:22076535   PMID:22431589   PMID:22450326   PMID:22829805   PMID:23246404   PMID:23435373   PMID:23611780   PMID:23681423  
PMID:23827155   PMID:23836524   PMID:24078004   PMID:24293092   PMID:24390317   PMID:24606441   PMID:24643999   PMID:24670661   PMID:24696291   PMID:24859599   PMID:24960647   PMID:25043310  
PMID:25174582   PMID:25179841   PMID:25243570   PMID:25249297   PMID:25432132   PMID:25451224   PMID:25550809   PMID:25575057   PMID:25576360   PMID:25784377   PMID:25824045   PMID:25858144  
PMID:25944166   PMID:25960208   PMID:25998847   PMID:26209061   PMID:26315342   PMID:26416661   PMID:26437444   PMID:26460549   PMID:26464659   PMID:26572149   PMID:26646931   PMID:26768135  
PMID:27120728   PMID:27353001   PMID:27584791   PMID:27639768   PMID:27743413   PMID:27801786   PMID:27840896   PMID:27881157   PMID:27911275   PMID:28059478   PMID:28380419   PMID:28431233  
PMID:28705117   PMID:28765961   PMID:28910942   PMID:28920955   PMID:28923913   PMID:29048664   PMID:29310680   PMID:29568911   PMID:29674765   PMID:29786077   PMID:29859516   PMID:29929545  
PMID:30403177   PMID:30568162   PMID:30577810   PMID:30849539   PMID:30861177   PMID:30909187   PMID:30919763   PMID:30942397   PMID:31015415   PMID:31092334   PMID:31189969   PMID:31202813  
PMID:31298376   PMID:31336343   PMID:31365884   PMID:31679450   PMID:31750260   PMID:31909687   PMID:31919459   PMID:32323793   PMID:32346990   PMID:32525231  


Genomics

Comparative Map Data
MIR25
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7100,093,560 - 100,093,643 (-)EnsemblGRCh38hg38GRCh38
GRCh387100,093,560 - 100,093,643 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37799,691,183 - 99,691,266 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36799,529,118 - 99,529,201 (-)NCBINCBI36hg18NCBI36
Celera794,425,842 - 94,425,925 (-)NCBI
Cytogenetic Map7q22.1NCBI
HuRef794,326,834 - 94,326,917 (-)NCBIHuRef
CHM1_1799,621,340 - 99,621,423 (-)NCBICHM1_1
CRA_TCAGchr7v2799,051,303 - 99,051,386 (-)NCBI
Mir25
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395138,163,583 - 138,163,666 (-)NCBIGRCm39mm39
GRCm385138,165,321 - 138,165,404 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5138,165,321 - 138,165,404 (-)EnsemblGRCm38mm10GRCm38
MGSCv375138,606,549 - 138,606,632 (-)NCBIGRCm37mm9NCBIm37
Celera5135,144,653 - 135,144,736 (-)NCBICelera
Cytogenetic Map5G2NCBI
Mir25
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01219,307,340 - 19,307,423 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1219,307,340 - 19,307,423 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01221,364,970 - 21,365,053 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1218,973,102 - 18,973,185 (-)NCBICelera
Cytogenetic Map12q11NCBI
MIR25
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl69,498,993 - 9,499,051 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.169,498,993 - 9,499,051 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
PRMT5hsa-miR-25-3pMirtarbaseexternal_infoWestern blotFunctional MTI18694959
BCL2L11hsa-miR-25-3pMirtarbaseexternal_infoLuciferase reporter assay//Microarray//Western bloFunctional MTI18328430
BCL2L11hsa-miR-25-3pMirtarbaseexternal_infoLuciferase reporter assay//Microarray//qRT-PCR//WeFunctional MTI19422085
CCL26hsa-miR-25-3pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI22431589
KLF4hsa-miR-25-3pMirtarbaseexternal_infoWestern blotFunctional MTI19541842
CDKN1Chsa-miR-25-3pMirtarbaseexternal_infoqRT-PCR//Luciferase reporter assay//Western blotFunctional MTI19153141
KAT2Bhsa-miR-25-3pMirtarbaseexternal_infoWestern blot//Luciferase reporter assayFunctional MTI18728182
TP53hsa-miR-25-3pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI20935678
CDH1hsa-miR-25-3pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI22450326
EZH2hsa-miR-25-3pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI22399519
SMAD7hsa-miR-25-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI23435373
NSMCE3hsa-miR-25-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
SMAD7hsa-miR-25-3pOncomiRDBexternal_infoNANA23435373
CDH1hsa-miR-25-3pOncomiRDBexternal_infoNANA22450326
MDM2hsa-miR-25-3pOncomiRDBexternal_infoNANA22431589
EZH2hsa-miR-25-3pOncomiRDBexternal_infoNANA22399519
BCL2L11hsa-miR-25-3pOncomiRDBexternal_infoNANA22076535
TNFRSF10Ahsa-miR-25-3pOncomiRDBexternal_infoNANA21953056
BCL2L11hsa-miR-25-3pOncomiRDBexternal_infoNANA19422085
CDKN1Chsa-miR-25-3pOncomiRDBexternal_infoNANA19153141
KIF22hsa-miR-25-5pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
TAF6Lhsa-miR-25-5pMirecordsexternal_infoNANA18728182
MAP2K4hsa-miR-25-5pMirecordsexternal_info{unchanged}NA19861690

Predicted Targets
Summary Value
Count of predictions:37364
Count of gene targets:15024
Count of transcripts:30154
Interacting mature miRNAs:hsa-miR-25-3p, hsa-miR-25-5p
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 1
Medium 167 9 119 94 698 98 249 54 121 130 248 264 8 3
Low 938 492 829 240 578 192 771 375 770 208 636 672 48 246 424 1
Below cutoff 368 420 212 101 165 61 427 347 563 30 119 100 40 194 239

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000384816
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl7100,093,560 - 100,093,643 (-)Ensembl
RefSeq Acc Id: NR_029498
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh387100,093,560 - 100,093,643 (-)NCBI
GRCh37799,691,183 - 99,691,266 (-)RGD
Celera794,425,842 - 94,425,925 (-)RGD
HuRef794,326,834 - 94,326,917 (-)ENTREZGENE
CHM1_1799,621,340 - 99,621,423 (-)NCBI
CRA_TCAGchr7v2799,051,303 - 99,051,386 (-)ENTREZGENE
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 7p22.3-q36.3(chr7:53985-159282531)x1 copy number loss See cases [RCV000052250] Chr7:53985..159282531 [GRCh38]
Chr7:53985..159075220 [GRCh37]
Chr7:149068..158767981 [NCBI36]
Chr7:7p22.3-q36.3
pathogenic
GRCh38/hg38 7q21.3-22.1(chr7:98288474-101259804)x3 copy number gain See cases [RCV000053573] Chr7:98288474..101259804 [GRCh38]
Chr7:97917786..100903085 [GRCh37]
Chr7:97755722..100689805 [NCBI36]
Chr7:7q21.3-22.1
pathogenic
GRCh38/hg38 7q22.1(chr7:99219420-100902269)x1 copy number loss See cases [RCV000054154] Chr7:99219420..100902269 [GRCh38]
Chr7:98817043..100499889 [GRCh37]
Chr7:98654979..100337825 [NCBI36]
Chr7:7q22.1
pathogenic
NM_005916.4(MCM7):c.1283C>T (p.Thr428Ile) single nucleotide variant Malignant melanoma [RCV000068039] Chr7:100096086 [GRCh38]
Chr7:99693709 [GRCh37]
Chr7:99531645 [NCBI36]
Chr7:7q22.1
not provided
GRCh38/hg38 7p22.3-q36.3(chr7:54185-159282390)x1 copy number loss See cases [RCV000135401] Chr7:54185..159282390 [GRCh38]
Chr7:54185..159075079 [GRCh37]
Chr7:149268..158767840 [NCBI36]
Chr7:7p22.3-q36.3
pathogenic
GRCh38/hg38 7q22.1(chr7:99195836-100348063)x3 copy number gain See cases [RCV000135630] Chr7:99195836..100348063 [GRCh38]
Chr7:98793459..99945686 [GRCh37]
Chr7:98631395..99783622 [NCBI36]
Chr7:7q22.1
likely benign
GRCh38/hg38 7q22.1(chr7:99195836-102258175)x1 copy number loss See cases [RCV000135782] Chr7:99195836..102258175 [GRCh38]
Chr7:98793459..101718950 [GRCh37]
Chr7:98631395..101688175 [NCBI36]
Chr7:7q22.1
pathogenic|uncertain significance
GRCh38/hg38 7q21.3-36.3(chr7:97419852-158923762)x3 copy number gain See cases [RCV000136717] Chr7:97419852..158923762 [GRCh38]
Chr7:97049164..158716453 [GRCh37]
Chr7:96887100..158409214 [NCBI36]
Chr7:7q21.3-36.3
pathogenic
GRCh38/hg38 7q22.1(chr7:99932610-102473188)x3 copy number gain See cases [RCV000138109] Chr7:99932610..102473188 [GRCh38]
Chr7:99530233..102113635 [GRCh37]
Chr7:99368169..101900640 [NCBI36]
Chr7:7q22.1
uncertain significance
GRCh38/hg38 7q22.1(chr7:99880388-100288453)x3 copy number gain See cases [RCV000142715] Chr7:99880388..100288453 [GRCh38]
Chr7:99478011..99886076 [GRCh37]
Chr7:99315947..99724012 [NCBI36]
Chr7:7q22.1
likely benign|uncertain significance
TMEM106B-BRAF fusion deletion Pleomorphic xanthoastrocytoma [RCV000454357] Chr7:12258147..140494267 [GRCh37]
Chr7:7p21.3-q34
pathogenic
GRCh37/hg19 7p22.3-q36.3(chr7:43360-159119707)x1 copy number loss See cases [RCV000446044] Chr7:43360..159119707 [GRCh37]
Chr7:7p22.3-q36.3
pathogenic
GRCh37/hg19 7q22.1-36.3(chr7:98969247-159119707)x3 copy number gain See cases [RCV000447709] Chr7:98969247..159119707 [GRCh37]
Chr7:7q22.1-36.3
pathogenic
GRCh37/hg19 7p22.3-q36.3(chr7:43361-159119707) copy number gain See cases [RCV000510686] Chr7:43361..159119707 [GRCh37]
Chr7:7p22.3-q36.3
pathogenic
GRCh37/hg19 7p22.3-q36.3(chr7:43361-159119707)x3 copy number gain See cases [RCV000511549] Chr7:43361..159119707 [GRCh37]
Chr7:7p22.3-q36.3
pathogenic
GRCh37/hg19 7q22.1-36.3(chr7:98693388-159119707)x3 copy number gain not provided [RCV000682911] Chr7:98693388..159119707 [GRCh37]
Chr7:7q22.1-36.3
pathogenic
GRCh37/hg19 7q22.1(chr7:98847725-102472176)x1 copy number loss not provided [RCV000682904] Chr7:98847725..102472176 [GRCh37]
Chr7:7q22.1
pathogenic
NC_000007.13:g.(20954043_21001537)_(114528369_114556605)inv inversion Speech-language disorder 1 [RCV000234948] Chr7:21001537..114528369 [GRCh37]
Chr7:7p15.3-q31.1
pathogenic
GRCh37/hg19 7p22.3-q36.3(chr7:44935-159126310)x3 copy number gain not provided [RCV000746280] Chr7:44935..159126310 [GRCh37]
Chr7:7p22.3-q36.3
pathogenic
GRCh37/hg19 7p22.3-q36.3(chr7:10704-159122532)x3 copy number gain not provided [RCV000746278] Chr7:10704..159122532 [GRCh37]
Chr7:7p22.3-q36.3
pathogenic
GRCh37/hg19 7p22.3-q36.3(chr7:10365-159119707)x3 copy number gain not provided [RCV000848126] Chr7:10365..159119707 [GRCh37]
Chr7:7p22.3-q36.3
pathogenic
GRCh37/hg19 7q22.1(chr7:99593346-102470275)x1 copy number loss See cases [RCV001195072] Chr7:99593346..102470275 [GRCh37]
Chr7:7q22.1
likely pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:31609 AgrOrtholog
COSMIC MIR25 COSMIC
Ensembl Genes ENSG00000207547 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000384816 ENTREZGENE
GTEx ENSG00000207547 GTEx
HGNC ID HGNC:31609 ENTREZGENE
Human Proteome Map MIR25 Human Proteome Map
miRBase MI0000082 ENTREZGENE
NCBI Gene 407014 ENTREZGENE
OMIM 612150 OMIM
PharmGKB PA164722617 PharmGKB
RNAcentral URS00000C85B2 RNACentral
  URS00001A9746 RNACentral
  URS00004F9744 RNACentral