U3 (Small nucleolar RNA U3) - Rat Genome Database

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Gene: U3 (Small nucleolar RNA U3) Homo sapiens
Analyze
Symbol: U3
Name: Small nucleolar RNA U3
RGD ID: 16551934
Description: INVOLVED IN response to bacterium (ortholog)
Type: snorna
RefSeq Status: MODEL
Previously known as: AC092015.1
RGD Orthologs
Mouse
Rat
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381218,541,690 - 218,541,899 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1218,541,690 - 218,541,899 (-)EnsemblGRCh38hg38GRCh38
Cytogenetic Map1q41NCBI
T2T-CHM13v2.01217,776,414 - 217,776,623 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

References

Genomics

Comparative Map Data
U3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381218,541,690 - 218,541,899 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1218,541,690 - 218,541,899 (-)EnsemblGRCh38hg38GRCh38
Cytogenetic Map1q41NCBI
T2T-CHM13v2.01217,776,414 - 217,776,623 (-)NCBIT2T-CHM13v2.0
Snord3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391040,134,464 - 40,134,675 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1040,134,463 - 40,134,676 (+)EnsemblGRCm39 Ensembl
GRCm39 Ensembl1040,134,463 - 40,134,675 (+)EnsemblGRCm39 Ensembl
GRCm381040,258,468 - 40,258,679 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1040,258,467 - 40,258,680 (+)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl1040,258,467 - 40,258,679 (+)EnsemblGRCm38mm10GRCm38
MGSCv371039,978,382 - 39,978,485 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361039,947,992 - 39,948,095 (+)NCBIMGSCv36mm8
Celera1041,145,371 - 41,145,474 (+)NCBICelera
Cytogenetic Map10B1NCBI
cM Map1021.81NCBI
LOC120099037
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82045,223,199 - 45,223,412 (+)NCBIGRCr8
mRatBN7.22043,668,693 - 43,668,906 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2043,668,693 - 43,668,906 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0 Ensembl2045,357,179 - 45,357,392 (+)NCBIRnor6.0rn6Rnor6.0
Cytogenetic Map20q12NCBI
LOC119873515
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha932,487,464 - 32,487,678 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0934,058,416 - 34,058,630 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl934,058,416 - 34,058,630 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1932,844,984 - 32,845,198 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0933,128,354 - 33,128,568 (-)NCBIUNSW_CanFamBas_1.0

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:283
Count of miRNA genes:236
Interacting mature miRNAs:241
Transcripts:ENST00000391308
Prediction methods:Microtar, Miranda, Rnahybrid
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
High
Medium
Low 2 1 1 4 2 1 3 7 1 1 1
Below cutoff 10 7 5 1 7 2 8 6 13 4 22 7 4 6

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000391308
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1218,541,690 - 218,541,899 (-)Ensembl
RefSeq Acc Id: XR_007067172
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381218,541,690 - 218,541,899 (-)NCBI
RefSeq Acc Id: XR_007071410
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.01217,776,414 - 217,776,623 (-)NCBI

Additional Information

Database Acc Id Source(s)
COSMIC U3 COSMIC
Ensembl Genes ENSG00000212610 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000391308 ENTREZGENE
GTEx ENSG00000212610 GTEx
Human Proteome Map U3 Human Proteome Map
NCBI Gene LOC124904666 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-08-20 U3  Small nucleolar RNA U3  AC092015.1    Symbol and/or name change 19259462 PROVISIONAL
2020-02-07 AC092015.1    U3  Small nucleolar RNA U3  Symbol and/or name change 19259462 PROVISIONAL