LOC108254678 (Pax5 promoter region) - 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 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: LOC108254678 (Pax5 promoter region) Mus musculus
Analyze
Symbol: LOC108254678
Name: Pax5 promoter region
RGD ID: 39131077
Description: This region spans multiple DNase I hypersensitive sites and includes the promoter region of the paired box 5 (Pax5) gene. Early B-cell factor 1 and signal transducer and activator of transcription 5 bind to this sequence and synergize to promote activity of this promoter. Four subregions were identified as putative B cell regulatory elements by FAIRE-seq (formaldehyde-assisted isolation of regulatory elements sequencing), and were validated as enhancers by STARR-seq (self-transcribing active regulatory region sequencing) in lipopolysaccharide-activated mouse splenic B cells. Two of those enhancers were additionally validated by standard reporter assays in CH12 B lymphoma cells. [provided by RefSeq, Oct 2023]
Type: biological-region
RefSeq Status: REVIEWED
Previously known as: Rr366699
RGD Orthologs
Human
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39444,704,050 - 44,713,365 (+)NCBIGRCm39GRCm39mm39
GRCm38444,704,050 - 44,713,365 (+)NCBIGRCm38GRCm38mm10GRCm38
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:8650231   PMID:10435576   PMID:12044782   PMID:12811842   PMID:19345119   PMID:31873292   PMID:31873293  


Genomics

Comparative Map Data
LOC108254678
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39444,704,050 - 44,713,365 (+)NCBIGRCm39GRCm39mm39
GRCm38444,704,050 - 44,713,365 (+)NCBIGRCm38GRCm38mm10GRCm38
LOC108254682
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38937,034,034 - 37,034,852 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37937,034,031 - 37,034,849 (+)NCBIGRCh37GRCh37hg19GRCh37
T2T-CHM13v2.0937,057,749 - 37,058,568 (+)NCBIT2T-CHM13v2.0

Variants

.
Variants in LOC108254678
193 total Variants

QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301203Alcp8_malcohol preference locus 8 (mouse)Not determined41739516051395290Mouse
1301586Stheal3_msoft tissue heal 3 (mouse)Not determined42865844262658566Mouse
10401115Pgia35_mproteoglycan induced arthritis 35 (mouse)Not determined41256237746562509Mouse
39128211Lwq22_mliver weight QTL 22 (mouse)41789261688982216Mouse
1301786Bpq3_mblood pressure QTL 3 (mouse)Not determined44240224076402381Mouse
4141555Nbwa2_mNZB and NZW autoimmunity 2 (mouse)Not determined41789251551892635Mouse
10412178Habiir2_mhyperoxic acute lung injury imprinted region 2 (mouse)Not determined43945212663283678Mouse
1300574Im2_mimmunoregulatory 2 (mouse)Not determined42807768262077816Mouse
4142318Lyr2_mlymphoma resistance 2 (mouse)Not determined1401045763283678Mouse
12880405Jcdq1_mjoint cartilage degeneration QTL 1 (mouse)41256237746562509Mouse
1301697Sluc18_msusceptibility to lung cancer 18 (mouse)Not determined42237344856373612Mouse
1357453Kidq4_mkidney weight QTL 4 (mouse)Not determined41789261688982216Mouse
4142047Mvwf3_mmodifier of von Willebrand factor 3 (mouse)Not determined14010457117072206Mouse
1357877Synch1_msynechia 1 (mouse)Not determined42870992562710107Mouse
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156268235Mouse
1300977Mopkd1_mmodifier of polycystic kidney disease progression 1 (mouse)Not determined43655083970550967Mouse
25440481Moaq1_mmodifier of alien QTL 1 (mouse)41950000046000000Mouse
1301237Alcp7_malcohol preference locus 7 (mouse)Not determined41739516051395290Mouse
1302075Bdln6_mbody length 6 (mouse)Not determined42237344856373612Mouse
4141911W6q15_mweight 6 weeks QTL 15 (mouse)Not determined1789261688982216Mouse
4142290Ssrq9_mstress response QTL 9 (mouse)Not determined3439516046332776Mouse
1301437Scon1_msucrose consumption 1 (mouse)Not determined42237344856373612Mouse
1300769Pcyts2_mplasmacytoma susceptibility 2 (mouse)Not determined42211194456112145Mouse
1301792Hdlq10_mHDL QTL 10 (mouse)Not determined43585970769859853Mouse
1301990Arvm1_mautoimmune renal vasculitis 1 (mouse)Not determined42933264663332776Mouse
1302116Bbaa1_mB.burgdorferi-associated arthritis 1 (mouse)Not determined43825093072251078Mouse
1302058Hrtfm3_mheart failure modifier 3 (mouse)Not determined42211194456112145Mouse
1302184Aaom1_mautoimmune aoritis in MRL mice 1 (mouse)Not determined42432229946332776Mouse
27226724Tibw2_mtibia width 2, proximal, 10 week (mouse)443000000108357197Mouse
26884449Sklq2_mskull length QTL 2, 5 week (mouse)436700000128993793Mouse


Expression

RNA-SEQ Expression


Sequence



Additional Information

Database Acc Id Source(s)
NCBI Gene LOC108254678 ENTREZGENE
PhenoGen LOC108254678 PhenoGen