HMGB3P19 (high mobility group box 3 pseudogene 19) - 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 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   new 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
Gene: HMGB3P19 (high mobility group box 3 pseudogene 19) Homo sapiens
Analyze
Symbol: HMGB3P19
Name: high mobility group box 3 pseudogene 19
RGD ID: 4889224
HGNC Page HGNC:39311
Description:
Type: pseudo (Ensembl: processed_pseudogene)
RefSeq Status: INFERRED
Related Functional Gene: HMGB3  
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386153,938,161 - 153,939,073 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6153,938,433 - 153,938,992 (-)EnsemblGRCh38hg38GRCh38
GRCh376154,259,296 - 154,260,208 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366154,301,252 - 154,336,328 (-)NCBINCBI36Build 36hg18NCBI36
Celera6154,994,047 - 154,994,597 (-)NCBICelera
Cytogenetic Map6q25.2NCBI
HuRef6151,823,166 - 151,823,716 (-)NCBIHuRef
CHM1_16154,523,120 - 154,523,670 (-)NCBICHM1_1
T2T-CHM13v2.06155,140,215 - 155,141,127 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:12727900  


Genomics

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:94
Interacting mature miRNAs:94
Transcripts:ENST00000403971
Prediction methods: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.

Markers in Region
333TE5  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh376154,283,111 - 154,283,345UniSTSGRCh37
Build 366154,324,804 - 154,325,038RGDNCBI36
Celera6155,017,561 - 155,017,795RGD
Cytogenetic Map6q25.2UniSTS
HuRef6151,846,682 - 151,846,920UniSTS


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 1 2 3 1
Below cutoff 24 28 19 4 38 3 46 14 39 6 39 28 1 14 30

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000403971
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6153,938,433 - 153,938,992 (-)Ensembl

Additional Information

Database Acc Id Source(s)
COSMIC HMGB3P19 COSMIC
Ensembl Genes ENSG00000217085 Ensembl
GTEx ENSG00000217085 GTEx
HGNC ID HGNC:39311 ENTREZGENE
Human Proteome Map HMGB3P19 Human Proteome Map
NCBI Gene 729635 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-07-27 HMGB3P19  high mobility group box 3 pseudogene 19  HMGB3P19  high-mobility group box 3 pseudogene 19  Symbol and/or name change 5135510 APPROVED