MIR1260A (microRNA 1260a) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References FTP Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner
Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: MIR1260A (microRNA 1260a) Homo sapiens
Analyze
Symbol: MIR1260A
Name: microRNA 1260a
RGD ID: 2312908
HGNC Page HGNC
Description: microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the miRNA and most commonly results in translational inhibition or destabilization of the target mRNA. The RefSeq represents the predicted microRNA stem-loop. [provided by RefSeq, Sep 2009]
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: hsa-mir-1260; hsa-mir-1260a; mir-1260a; MIR1260; MIRN1260
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1477,266,218 - 77,266,290 (+)EnsemblGRCh38hg38GRCh38
GRCh381477,266,218 - 77,266,290 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371477,732,561 - 77,732,633 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera1457,771,200 - 57,771,272 (+)NCBI
Cytogenetic Map14q24.3NCBI
HuRef1457,899,052 - 57,899,124 (+)NCBIHuRef
CHM1_11477,672,088 - 77,672,160 (+)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
References

Additional References at PubMed
PMID:16381832   PMID:18285502   PMID:21037258   PMID:23746831   PMID:24116168   PMID:29628123   PMID:30250996   PMID:31926946   PMID:32523124  


Genomics

Position Markers
D14S693E  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371477,731,935 - 77,732,087UniSTSGRCh37
Build 361476,801,688 - 76,801,840RGDNCBI36
Celera1457,770,574 - 57,770,726RGD
Cytogenetic Map10q21.3UniSTS
Cytogenetic Map14q24.3UniSTS
HuRef1457,898,426 - 57,898,578UniSTS
D14S1234  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371477,731,827 - 77,732,087UniSTSGRCh37
Build 361476,801,580 - 76,801,840RGDNCBI36
Celera1457,770,466 - 57,770,726RGD
Cytogenetic Map10q21.3UniSTS
Cytogenetic Map14q24.3UniSTS
HuRef1457,898,318 - 57,898,578UniSTS
GeneMap99-GB4 RH Map14207.29UniSTS
Whitehead-RH Map14272.6UniSTS

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
DDX1hsa-miR-1260aMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248

Predicted Targets
Summary Value
Count of predictions:24610
Count of gene targets:10769
Count of transcripts:21973
Interacting mature miRNAs:hsa-miR-1260a
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

endocrine system hemolymphoid system integumental system reproductive system respiratory system
High
Medium
Low 1 1 1 1
Below cutoff 1 4

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000408827
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1477,266,218 - 77,266,290 (+)Ensembl
RefSeq Acc Id: NR_031661
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381477,266,218 - 77,266,290 (+)NCBI
GRCh371477,732,561 - 77,732,633 (+)RGD
Celera1457,771,200 - 57,771,272 (+)RGD
HuRef1457,899,052 - 57,899,124 (+)ENTREZGENE
CHM1_11477,672,088 - 77,672,160 (+)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
NM_021257.3(NGB):c.276G>A (p.Leu92=) single nucleotide variant Malignant melanoma [RCV000070616] Chr14:77268511 [GRCh38]
Chr14:77734854 [GRCh37]
Chr14:76804607 [NCBI36]
Chr14:14q24.3		 not provided
GRCh38/hg38 14q24.1-31.1(chr14:69562099-81975384)x1 copy number loss See cases [RCV000134154] Chr14:69562099..81975384 [GRCh38]
Chr14:70028816..82441728 [GRCh37]
Chr14:69098569..81511481 [NCBI36]
Chr14:14q24.1-31.1		 pathogenic
GRCh38/hg38 14q24.3-32.33(chr14:73655772-106879298)x3 copy number gain See cases [RCV000134000] Chr14:73655772..106879298 [GRCh38]
Chr14:74122475..107287505 [GRCh37]
Chr14:73192228..106358550 [NCBI36]
Chr14:14q24.3-32.33		 pathogenic
GRCh38/hg38 14q11.2-32.33(chr14:20151149-106855263)x3 copy number gain See cases [RCV000135543] Chr14:20151149..106855263 [GRCh38]
Chr14:20619308..107263478 [GRCh37]
Chr14:19689148..106334523 [NCBI36]
Chr14:14q11.2-32.33		 pathogenic
GRCh38/hg38 14q24.3-31.1(chr14:77193005-80476132)x1 copy number loss See cases [RCV000137421] Chr14:77193005..80476132 [GRCh38]
Chr14:77659348..80942475 [GRCh37]
Chr14:76729101..80012228 [NCBI36]
Chr14:14q24.3-31.1		 likely pathogenic
GRCh38/hg38 14q24.3-32.33(chr14:77222795-106879298)x3 copy number gain See cases [RCV000138230] Chr14:77222795..106879298 [GRCh38]
Chr14:77689138..107287505 [GRCh37]
Chr14:76758891..106358550 [NCBI36]
Chr14:14q24.3-32.33		 pathogenic
GRCh38/hg38 14q11.2-32.33(chr14:20043514-106877229)x3 copy number gain See cases [RCV000143373] Chr14:20043514..106877229 [GRCh38]
Chr14:20511673..107285437 [GRCh37]
Chr14:19581513..106356482 [NCBI36]
Chr14:14q11.2-32.33		 pathogenic
GRCh38/hg38 14q24.3-31.1(chr14:73343213-78835059)x1 copy number loss See cases [RCV000143265] Chr14:73343213..78835059 [GRCh38]
Chr14:73809921..79301402 [GRCh37]
Chr14:72879674..78371155 [NCBI36]
Chr14:14q24.3-31.1		 pathogenic|likely pathogenic
GRCh38/hg38 14q24.3(chr14:73877072-78042422)x1 copy number loss See cases [RCV000051548] Chr14:73877072..78042422 [GRCh38]
Chr14:74343775..78508765 [GRCh37]
Chr14:73413528..77578518 [NCBI36]
Chr14:14q24.3		 pathogenic
GRCh38/hg38 14q24.3-31.1(chr14:75489052-79610332)x1 copy number loss See cases [RCV000051549] Chr14:75489052..79610332 [GRCh38]
Chr14:75955395..80076675 [GRCh37]
Chr14:75025148..79146428 [NCBI36]
Chr14:14q24.3-31.1		 pathogenic
GRCh38/hg38 14q24.2-32.2(chr14:72787506-99596719)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052293]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052293]|See cases [RCV000052293] Chr14:72787506..99596719 [GRCh38]
Chr14:73254214..100063056 [GRCh37]
Chr14:72323967..99132809 [NCBI36]
Chr14:14q24.2-32.2		 pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC MIR1260A COSMIC
Ensembl Genes ENSG00000221754 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000408827 ENTREZGENE
GTEx ENSG00000221754 GTEx
HGNC ID HGNC:35325 ENTREZGENE
Human Proteome Map MIR1260A Human Proteome Map
miRBase MI0006394 ENTREZGENE
NCBI Gene 100302236 ENTREZGENE
RNAcentral URS00000D0874 RNACentral
  URS000075BD26 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-11-22 MIR1260A  microRNA 1260a  MIR1260  microRNA 1260  Symbol and/or name change 5135510 APPROVED