LOC128924968 (STARR-seq mESC enhancer starr_10056) - Rat Genome Database

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Gene: LOC128924968 (STARR-seq mESC enhancer starr_10056) Mus musculus
Analyze
Symbol: LOC128924968
Name: STARR-seq mESC enhancer starr_10056
RGD ID: 163655668
Description: This genomic region represents an enhancer that was validated by the STARR-seq (self-transcribing active regulatory region sequencing) reporter assay in ground-state (2iL) and metastable (SL) mouse embryonic stem cells, where it was defined as a C1 class enhancer that overlaps an active chromatin signature. This locus also includes a candidate cis-regulatory module (CRM) that was identified 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 strong activity in NIH3T3 fibroblasts. This locus additionally 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 in lipopolysaccharide-activated mouse splenic B cells. [provided by RefSeq, Oct 2023]
Type: biological-region
RefSeq Status: REVIEWED
Previously known as: CapStarr-seq enhancer MGSCv37_chr4:43575369-43575478; Rr367609
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39443,561,892 - 43,563,018 (+)NCBIGRCm39GRCm39mm39
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:25872643   PMID:31873292   PMID:31873293   PMID:32912294  


Genomics

Variants

.
Variants in LOC128924968
14 total Variants

QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1302058Hrtfm3_mheart failure modifier 3 (mouse)Not determined42211194456112145Mouse
1300574Im2_mimmunoregulatory 2 (mouse)Not determined42807768262077816Mouse
4142290Ssrq9_mstress response QTL 9 (mouse)Not determined3439516046332776Mouse
1301786Bpq3_mblood pressure QTL 3 (mouse)Not determined44240224076402381Mouse
4142318Lyr2_mlymphoma resistance 2 (mouse)Not determined1401045763283678Mouse
1301990Arvm1_mautoimmune renal vasculitis 1 (mouse)Not determined42933264663332776Mouse
1302116Bbaa1_mB.burgdorferi-associated arthritis 1 (mouse)Not determined43825093072251078Mouse
1357453Kidq4_mkidney weight QTL 4 (mouse)Not determined41789261688982216Mouse
1302075Bdln6_mbody length 6 (mouse)Not determined42237344856373612Mouse
1301697Sluc18_msusceptibility to lung cancer 18 (mouse)Not determined42237344856373612Mouse
1301792Hdlq10_mHDL QTL 10 (mouse)Not determined43585970769859853Mouse
1301203Alcp8_malcohol preference locus 8 (mouse)Not determined41739516051395290Mouse
1300769Pcyts2_mplasmacytoma susceptibility 2 (mouse)Not determined42211194456112145Mouse
10401115Pgia35_mproteoglycan induced arthritis 35 (mouse)Not determined41256237746562509Mouse
4142047Mvwf3_mmodifier of von Willebrand factor 3 (mouse)Not determined14010457117072206Mouse
10412178Habiir2_mhyperoxic acute lung injury imprinted region 2 (mouse)Not determined43945212663283678Mouse
10401905Sicd3_mseizure-induced cell death 3 (mouse)Not determined4939552543760862Mouse
1301437Scon1_msucrose consumption 1 (mouse)Not determined42237344856373612Mouse
1301586Stheal3_msoft tissue heal 3 (mouse)Not determined42865844262658566Mouse
39128211Lwq22_mliver weight QTL 22 (mouse)41789261688982216Mouse
25440481Moaq1_mmodifier of alien QTL 1 (mouse)41950000046000000Mouse
1302184Aaom1_mautoimmune aoritis in MRL mice 1 (mouse)Not determined42432229946332776Mouse
1357877Synch1_msynechia 1 (mouse)Not determined42870992562710107Mouse
27226724Tibw2_mtibia width 2, proximal, 10 week (mouse)443000000108357197Mouse
1300977Mopkd1_mmodifier of polycystic kidney disease progression 1 (mouse)Not determined43655083970550967Mouse
26884449Sklq2_mskull length QTL 2, 5 week (mouse)436700000128993793Mouse
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156268235Mouse
12880405Jcdq1_mjoint cartilage degeneration QTL 1 (mouse)41256237746562509Mouse
1301237Alcp7_malcohol preference locus 7 (mouse)Not determined41739516051395290Mouse
4141555Nbwa2_mNZB and NZW autoimmunity 2 (mouse)Not determined41789251551892635Mouse
4141911W6q15_mweight 6 weeks QTL 15 (mouse)Not determined1789261688982216Mouse


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NG_150709 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AL732506 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles


Additional Information

Database Acc Id Source(s)
NCBI Gene LOC128924968 ENTREZGENE
PhenoGen LOC128924968 PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-07-25 LOC128924968  STARR-seq mESC enhancer starr_10056  LOC128924968  CapStarr-seq enhancer MGSCv37_chr4:43575369-43575478  Symbol and/or name change 5135510 APPROVED