LOC128924385 (CapStarr-seq enhancer MGSCv37_chr1:163061431-163061751) - 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: LOC128924385 (CapStarr-seq enhancer MGSCv37_chr1:163061431-163061751) Mus musculus
Analyze
Symbol: LOC128924385
Name: CapStarr-seq enhancer MGSCv37_chr1:163061431-163061751
RGD ID: 163689810
Description: This locus includes a subregion that was identified as a candidate cis-regulatory module (CRM) in developing mouse thymocytes based on a combination of DNase I hypersensitivity and transcription factor binding. That CRM was validated as an active enhancer by high-throughput CapStarr-seq reporter assays showing weak activity in P5424 T cells and NIH3T3 fibroblasts. This locus also includes a B cell regulatory element that was identified by FAIRE-seq (formaldehyde-assisted isolation of regulatory elements sequencing), and which was validated as an enhancer by STARR-seq (self-transcribing active regulatory region sequencing) in lipopolysaccharide-activated mouse splenic B cells. [provided by RefSeq, Oct 2023]
Type: biological-region
RefSeq Status: REVIEWED
Previously known as: Rr367044
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391160,958,870 - 160,959,332 (+)NCBIGRCm39GRCm39mm39
JBrowse: View Region in Genome Browser (JBrowse)
Model


PMID:25872643   PMID:31873292   PMID:31873293  



.

.
Variants in LOC128924385
18 total Variants

1 to 10 of 108 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1301523Ccrs1_mcorpus callosum hemisphere surface size 1 (mouse)Not determined1139602037173602216Mouse
27226779Tibl1_mtibia length 1, 5 week (mouse)195527725162027569Mouse
10412185Hcs9_mhepatocarcinogenesis susceptibility 9 (mouse)Not determined163854690189303617Mouse
12790987Tgl5_mtriglyceride 5 (mouse)1160097157194097157Mouse
13824984Twq5_mtestis weight QTL 5 (mouse)13069992184732197Mouse
12790984Pcho7_mplasma cholesterol 7 (mouse)1147219390181219390Mouse
12790988Phdlc5_mplasma HDL cholesterol 5 (mouse)9160097157194097157Mouse
27226767Tibl10_mtibia length 10, 10 week (mouse)1121727729164827569Mouse
1300740Tne1_mtotal number errors (mouse)Not determined1139602037173602216Mouse
12790996Aath2_maortic arch atherosclerosis 2 (mouse)1145077630179077630Mouse

1 to 10 of 108 rows





RefSeq Transcripts NG_150161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC138640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles



Database
Acc Id
Source(s)
NCBI Gene LOC128924385 ENTREZGENE
PhenoGen LOC128924385 PhenoGen