MIR554 (microRNA 554) - Rat Genome Database

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Gene: MIR554 (microRNA 554) Homo sapiens
Analyze
Symbol: MIR554
Name: microRNA 554
RGD ID: 1603117
HGNC Page HGNC:32810
Description: Predicted to be involved in miRNA-mediated post-transcriptional gene silencing.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: hsa-mir-554; MIRN554
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381151,545,796 - 151,545,891 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1151,545,796 - 151,545,891 (+)EnsemblGRCh38hg38GRCh38
GRCh371151,518,272 - 151,518,367 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361149,784,895 - 149,784,990 (+)NCBINCBI36Build 36hg18NCBI36
Celera1124,633,564 - 124,633,659 (+)NCBICelera
Cytogenetic Map1q21.3NCBI
HuRef1122,895,642 - 122,895,737 (+)NCBIHuRef
CHM1_11152,913,688 - 152,913,783 (+)NCBICHM1_1
T2T-CHM13v2.01150,669,470 - 150,669,565 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


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:16381832   PMID:16505370  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 1q21.3(chr1:150989333-151584777)x1 copy number loss See cases [RCV000138949] Chr1:150989333..151584777 [GRCh38]
Chr1:150961809..151557253 [GRCh37]
Chr1:149228433..149823877 [NCBI36]
Chr1:1q21.3		 likely pathogenic
GRCh38/hg38 1q21.2-25.2(chr1:149854269-180267197)x3 copy number gain See cases [RCV000143515] Chr1:149854269..180267197 [GRCh38]
Chr1:149825831..180236332 [GRCh37]
Chr1:148092455..178502955 [NCBI36]
Chr1:1q21.2-25.2		 pathogenic
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:10624
Count of gene targets:5856
Count of transcripts:10023
Interacting mature miRNAs:hsa-miR-554
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.

Markers in Region
D1S317E  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,518,621 - 151,518,716UniSTSGRCh37
Build 361149,785,245 - 149,785,340RGDNCBI36
Celera1124,633,913 - 124,634,008RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,895,991 - 122,896,086UniSTS
GeneMap99-GB4 RH Map1542.18UniSTS
NCBI RH Map11058.3UniSTS
ECD19382  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,518,079 - 151,518,402UniSTSGRCh37
Build 361149,784,703 - 149,785,026RGDNCBI36
Celera1124,633,371 - 124,633,694RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,895,449 - 122,895,772UniSTS
ECD22676  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,518,616 - 151,518,827UniSTSGRCh37
Build 361149,785,240 - 149,785,451RGDNCBI36
Celera1124,633,908 - 124,634,119RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,895,986 - 122,896,197UniSTS
REN34568  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,516,395 - 151,516,619UniSTSGRCh37
Build 361149,783,019 - 149,783,243RGDNCBI36
Celera1124,631,688 - 124,631,911RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,893,766 - 122,893,989UniSTS
REN34569  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,516,433 - 151,516,665UniSTSGRCh37
Build 361149,783,057 - 149,783,289RGDNCBI36
Celera1124,631,726 - 124,631,957RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,893,804 - 122,894,035UniSTS
REN34570  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,517,065 - 151,517,295UniSTSGRCh37
Build 361149,783,689 - 149,783,919RGDNCBI36
Celera1124,632,357 - 124,632,587RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,894,435 - 122,894,665UniSTS
REN34571  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,517,273 - 151,517,498UniSTSGRCh37
Build 361149,783,897 - 149,784,122RGDNCBI36
Celera1124,632,565 - 124,632,790RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,894,643 - 122,894,868UniSTS
REN34572  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,517,495 - 151,517,719UniSTSGRCh37
Build 361149,784,119 - 149,784,343RGDNCBI36
Celera1124,632,787 - 124,633,011RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,894,865 - 122,895,089UniSTS
REN34573  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,517,694 - 151,517,945UniSTSGRCh37
Build 361149,784,318 - 149,784,569RGDNCBI36
Celera1124,632,986 - 124,633,237RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,895,064 - 122,895,315UniSTS
REN34574  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,517,936 - 151,518,201UniSTSGRCh37
Build 361149,784,560 - 149,784,825RGDNCBI36
Celera1124,633,228 - 124,633,493RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,895,306 - 122,895,571UniSTS
REN34575  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,518,182 - 151,518,437UniSTSGRCh37
Build 361149,784,806 - 149,785,061RGDNCBI36
Celera1124,633,474 - 124,633,729RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,895,552 - 122,895,807UniSTS
REN34576  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371151,518,412 - 151,518,637UniSTSGRCh37
Build 361149,785,036 - 149,785,261RGDNCBI36
Celera1124,633,704 - 124,633,929RGD
Cytogenetic Map1q21.3UniSTS
Cytogenetic Map1q21UniSTS
HuRef1122,895,782 - 122,896,007UniSTS


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 1 1 1 1 1 12 1 1
Low 149 37 100 51 108 50 416 56 89 107 202 228 10 15 181 3
Below cutoff 96 63 57 26 61 9 295 67 61 23 55 59 18 19 170

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000384874
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1151,545,796 - 151,545,891 (+)Ensembl
RefSeq Acc Id: NR_030280
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381151,545,796 - 151,545,891 (+)NCBI
GRCh371151,518,272 - 151,518,367 (+)RGD
Celera1124,633,564 - 124,633,659 (+)RGD
HuRef1122,895,642 - 122,895,737 (+)RGD
CHM1_11152,913,688 - 152,913,783 (+)NCBI
T2T-CHM13v2.01150,669,470 - 150,669,565 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR554 COSMIC
Ensembl Genes ENSG00000207606 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000384874 ENTREZGENE
GTEx ENSG00000207606 GTEx
HGNC ID HGNC:32810 ENTREZGENE
Human Proteome Map MIR554 Human Proteome Map
miRBase MI0003559 ENTREZGENE
NCBI Gene 693139 ENTREZGENE
PharmGKB PA164722853 PharmGKB
RNAcentral URS0000626340 RNACentral
  URS000075E66F RNACentral