LOC128927999 (STARR-seq mESC enhancer starr_47340) - Rat Genome Database

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Gene: LOC128927999 (STARR-seq mESC enhancer starr_47340) Mus musculus
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Symbol: LOC128927999
Name: STARR-seq mESC enhancer starr_47340
RGD ID: 163675316
Description: This genomic region represents an enhancer that was validated by the STARR-seq (self-transcribing active regulatory region sequencing) reporter assay in 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 strong activity in P5424 T cells and NIH3T3 fibroblasts. [provided by RefSeq, Jul 2023]
Type: biological-region
RefSeq Status: REVIEWED
Previously known as: CapStarr-seq enhancer MGSCv37_chrX:70253533-70253716; Rr370559
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X72,051,167 - 72,052,239 (+)NCBIGRCm39GRCm39mm39
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:25872643   PMID:32912294  


Genomics

Variants

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Variants in LOC128927999
49 total Variants

QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141630Gct6_mgranulosa cell tumorigenesis 6 (mouse)Not determined47179121129764756Mouse
13464140Hdlq108_mHDL QTL 108 (mouse)X5777196091771960Mouse
1301009Pbwg7_mpostnatal body weight growth 7 (mouse)Not determinedX3911371473113814Mouse
4141565Pbwg21_mpostnatal body weight growth 21 (mouse)Not determinedX3911371473113814Mouse
25314311Syncl3_msynaptonemal complex length 3 (mouse)X5198887789743606Mouse
13824980Ferq1_mgenetic fertility QTL 1 (mouse)X54045360148782996Mouse
4142200Rtwq1_mreduced testis weight QTL 1 (mouse)Not determined4147706075477203Mouse
1300794Spha2_msperm head anomaly 2 (mouse)Not determinedX3992149886260137Mouse
25314318Sccor2_msynaptonemal complex length to mean MLH1 count ratio 2 (mouse)X7054360696543606Mouse
1357433Dbts2_mdiabetes 2 (mouse)Not determinedX7226295150107038Mouse
1301278Bdln1_mbody length 1 (mouse)Not determinedX4170210675702218Mouse
1300702Fcsa4_mfemoral cross-sectional area 4 (mouse)Not determinedX4602744480027567Mouse
25314316Mlh1fc3_mMLH1 foci count 3 (mouse)X6134360689843606Mouse
10412108Desp5_mdespair 5 (mouse)Not determinedX5472235188722351Mouse
1357730Hstx1_mhybrid sterility, X chromosome 1 (mouse)Not determinedX7145385277600812Mouse
13208567Bmiq12_mbody mass index QTL 12 (mouse)X3526365377043606Mouse
4141665Mhysq2_mmale hybrid sterility QTL 2 (mouse)Not determined71453852139203212Mouse


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NG_153603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AL807751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles


Additional Information

Database Acc Id Source(s)
NCBI Gene LOC128927999 ENTREZGENE
PhenoGen LOC128927999 PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-07-25 LOC128927999  STARR-seq mESC enhancer starr_47340  LOC128927999  CapStarr-seq enhancer MGSCv37_chrX:70253533-70253716  Symbol and/or name change 5135510 APPROVED