LOC128927871 (STARR-seq mESC enhancer starr_45411) - Rat Genome Database

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Gene: LOC128927871 (STARR-seq mESC enhancer starr_45411) Mus musculus
Analyze
Symbol: LOC128927871
Name: STARR-seq mESC enhancer starr_45411
RGD ID: 163706613
Description: This genomic region includes 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 two candidate cis-regulatory modules (CRMs) that were identified in developing mouse thymocytes based on a combination Those CRMs were validated as active enhancers by high-throughput CapStarr-seq reporter assays, with both having weak activity in NIH3T3 fibroblasts and one additionally having weak activity in P5424 T cells. 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_chr19:5844957-5845140; CapStarr-seq enhancer MGSCv37_chr19:5845448-5845667; LOC128927872; Rr370436
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39195,894,985 - 5,901,089 (+)NCBIGRCm39GRCm39mm39
JBrowse: View Region in Genome Browser (JBrowse)
Model


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


Genomics

Variants

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Variants in LOC128927871
158 total Variants

QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300776Lfp3_mlong free running period 3 (mouse)Not determined19120328703Mouse
4142161Drinksac2_mdrink saccharin 2 (mouse)Not determined120695286Mouse
4142302Nstr1_mnerve sheath tumor resistance QTL 1 (mouse)Not determined19122371338Mouse
1301271Datd_mdopamine transporter density (mouse)Not determined19132340234Mouse
4142406Pbctlp1_mperipheral blood cytotoxic T lymphocyte percentage 1 (mouse)Not determined132875174Mouse
1300904Chab5_mcholesterol absorption 5 (mouse)Not determined19165376435653927Mouse
26884385Skwq14_mskull length QTL 14, 16 week (mouse)19325000035877400Mouse
1301800Faq10_mfluctuating asymmetry QTL 10 (mouse)Not determined19332321637323348Mouse
1300923Bits4_mbitterness sensitivity 4 (mouse)Not determined19332321637323348Mouse
1302126Skull26_mskull morphology 26 (mouse)Not determined19332321637323348Mouse
1300591Pas3_mpulmonary adenoma susceptibility 3 (mouse)Not determined19332321637323348Mouse
1357819Tgct2_mtesticular germ cell tumor 2 (mouse)Not determined19332855120539663Mouse
25394536Skmw86_mskeletal muscle weight 86, TA (mouse)1950648178957825Mouse
11039522Tbbr4_mTrypanosoma brucei brucei response 4 (mouse)19531332639313470Mouse


Expression


Sequence



Additional Information

Database Acc Id Source(s)
NCBI Gene LOC128927871 ENTREZGENE
PhenoGen LOC128927871 PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-07-25 LOC128927871  STARR-seq mESC enhancer starr_45411  LOC128927871  CapStarr-seq enhancer MGSCv37_chr19:5844957-5845140  Symbol and/or name change 5135510 APPROVED
2023-07-20 LOC128927871  CapStarr-seq enhancer MGSCv37_chr19:5844957-5845140  LOC128927872  CapStarr-seq enhancer MGSCv37_chr19:5845448-5845667  Data merged from RGD:163676525 737654 PROVISIONAL