LOC128925937 (CapStarr-seq enhancer MGSCv37_chr8:79946917-79947070) - Rat Genome Database

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Gene: LOC128925937 (CapStarr-seq enhancer MGSCv37_chr8:79946917-79947070) Mus musculus
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Symbol: LOC128925937
Name: CapStarr-seq enhancer MGSCv37_chr8:79946917-79947070
RGD ID: 163672043
Description: This genomic region 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. It was validated as an active enhancer by high-throughput CapStarr-seq reporter assays showing weak activity in NIH3T3 fibroblasts. [provided by RefSeq, Mar 2023]
Type: biological-region
RefSeq Status: REVIEWED
Previously known as: Rr368557
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39878,149,647 - 78,149,800 (+)NCBIGRCm39GRCm39mm39
JBrowse: View Region in Genome Browser (JBrowse)
Model


PMID:25872643  



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Variants in LOC128925937
18 total Variants

1 to 10 of 54 rows
Name
Type
Condition(s)
Position(s)
Clinical significance
GRCh38/hg38 6q14.1-16.1(chr6:82569098-93753476)x1 copy number loss See cases [RCV000052192] Chr6:82569098..93753476 [GRCh38]
Chr6:83278815..94463194 [GRCh37]
Chr6:83335534..94519915 [NCBI36]
Chr6:6q14.1-16.1		 pathogenic
NM_001160226.1(CNR1):c.919C>T (p.Arg307Cys) single nucleotide variant Malignant melanoma [RCV000067497] Chr6:88144356 [GRCh38]
Chr6:88854075 [GRCh37]
Chr6:88910794 [NCBI36]
Chr6:6q15		 not provided
NM_001160226.1(CNR1):c.905A>C (p.His302Pro) single nucleotide variant Malignant melanoma [RCV000067498] Chr6:88144370 [GRCh38]
Chr6:88854089 [GRCh37]
Chr6:88910808 [NCBI36]
Chr6:6q15		 not provided
NM_001160226.1(CNR1):c.754C>T (p.Leu252Phe) single nucleotide variant Malignant melanoma [RCV000067499] Chr6:88144521 [GRCh38]
Chr6:88854240 [GRCh37]
Chr6:88910959 [NCBI36]
Chr6:6q15		 not provided
NM_001160226.1(CNR1):c.1050G>A (p.Val350=) single nucleotide variant Malignant melanoma [RCV000061496] Chr6:88144225 [GRCh38]
Chr6:88853944 [GRCh37]
Chr6:88910663 [NCBI36]
Chr6:6q15		 not provided
NM_001160226.1(CNR1):c.468C>T (p.Ile156=) single nucleotide variant Malignant melanoma [RCV000061497] Chr6:88144807 [GRCh38]
Chr6:88854526 [GRCh37]
Chr6:88911245 [NCBI36]
Chr6:6q15		 not provided
GRCh38/hg38 6q14.2-16.1(chr6:83838303-98822313)x1 copy number loss See cases [RCV000135773] Chr6:83838303..98822313 [GRCh38]
Chr6:84548022..99270189 [GRCh37]
Chr6:84604741..99376910 [NCBI36]
Chr6:6q14.2-16.1		 pathogenic
GRCh38/hg38 6q14.3-16.1(chr6:85804273-93189258)x1 copy number loss See cases [RCV000135450] Chr6:85804273..93189258 [GRCh38]
Chr6:86513991..93898976 [GRCh37]
Chr6:86570710..93955697 [NCBI36]
Chr6:6q14.3-16.1		 pathogenic
GRCh38/hg38 6q14.3-15(chr6:85370716-90669793)x1 copy number loss See cases [RCV000136757] Chr6:85370716..90669793 [GRCh38]
Chr6:86080434..91379512 [GRCh37]
Chr6:86137153..91436233 [NCBI36]
Chr6:6q14.3-15		 pathogenic
GRCh38/hg38 6q13-24.1(chr6:74382807-142040500)x3 copy number gain See cases [RCV000139729] Chr6:74382807..142040500 [GRCh38]
Chr6:75092523..142361637 [GRCh37]
Chr6:75149243..142403330 [NCBI36]
Chr6:6q13-24.1		 pathogenic
1 to 10 of 54 rows

1 to 10 of 37 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
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined866326836100326976Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83663015493455280Mouse
1301717Adip4_madiposity 4 (mouse)Not determined84809006482090180Mouse
1357715Alaa3_malopecia areata 3 (mouse)Not determined84924559183245673Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85892810792928107Mouse
14746987Manh64_mmandible shape 64 (mouse)85050595884505958Mouse
1357470Obq16_mobesity QTL 16 (mouse)Not determined876411976110412125Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined835109930115563747Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined866084397100084549Mouse
10766453Char11_mP. chabaudi malaria resistance QTL 11 (mouse)84809006482090180Mouse

1 to 10 of 37 rows





RefSeq Transcripts NG_151596 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC109139 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles



Database
Acc Id
Source(s)
NCBI Gene LOC128925937 ENTREZGENE
PhenoGen LOC128925937 PhenoGen