Mir3552 (microRNA 3552) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes 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 Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Mir3552 (microRNA 3552) Rattus norvegicus
Analyze
Symbol: Mir3552
Name: microRNA 3552
RGD ID: 4888609
Description: INTERACTS WITH atrazine; bisphenol A
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: rno-mir-3552
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X115,488,759 - 115,488,863 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX115,488,759 - 115,488,863 (+)EnsemblGRCr8
mRatBN7.2X110,676,724 - 110,676,828 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX110,676,724 - 110,676,828 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX112,776,457 - 112,776,561 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X116,275,313 - 116,275,417 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X113,828,412 - 113,828,516 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X118,121,374 - 118,121,478 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX118,121,374 - 118,121,478 (+)Ensemblrn6Rnor6.0
Rnor_5.0X118,262,791 - 118,262,895 (+)NCBIRnor_5.0Rnor_5.0rn5
CeleraX109,994,598 - 109,994,702 (+)NCBICelera
Cytogenetic MapXq34NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
atrazine  (EXP)
bisphenol A  (EXP)

References
Additional References at PubMed
PMID:16381832   PMID:20403161  


Genomics

Variants

.
Variants in Mir3552
1 total Variants
miRNA Target Status (No longer updated)

Predicted Targets
Summary Value
Count of predictions:8588
Count of gene targets:6147
Count of transcripts:6689
Interacting mature miRNAs:rno-miR-3552
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X97528096142528096Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX105359969157758123Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X80434318125434318Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX92979612117740458Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X105468858125434318Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX45182909117740458Rat
2302047Pia34Pristane induced arthritis QTL 345.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1996916163141916163Rat


Expression

RNA-SEQ Expression

ectoderm
endoderm
nervous system
respiratory system
15 4 15 4

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_037329 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000075134
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX115,488,759 - 115,488,863 (+)Ensembl
mRatBN7.2 EnsemblX110,676,724 - 110,676,828 (+)Ensembl
Rnor_6.0 EnsemblX118,121,374 - 118,121,478 (+)Ensembl
RefSeq Acc Id: NR_037329
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X115,488,759 - 115,488,863 (+)NCBI
mRatBN7.2X110,676,724 - 110,676,828 (+)NCBI
Rnor_6.0X118,121,374 - 118,121,478 (+)NCBI
Rnor_5.0X118,262,791 - 118,262,895 (+)NCBI
CeleraX109,994,598 - 109,994,702 (+)NCBI
Sequence:
Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-1455 BioCyc
Ensembl Genes ENSRNOG00000050508 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000075134 ENTREZGENE
miRBase MI0015409 ENTREZGENE
NCBI Gene 100526569 ENTREZGENE
PhenoGen Mir3552 PhenoGen
RatGTEx ENSRNOG00000050508 RatGTEx
RNAcentral URS0000759918 RNACentral
  URS000075E2DB RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-04-09 Mir3552  microRNA 3552  Mir3552  microRNA mir-3552  Name updated 61478 APPROVED
2010-11-23 Mir3552  microRNA mir-3552      Symbol and Name status set to provisional 70820 PROVISIONAL