Variant report

Variant	rs10092175
Chromosome Location	chr8:39966506-39966507
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:32938368..32940150-chr8:39964476..39967199,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204256	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10086014	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10086939	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10095401	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1383603	0.88[EUR][1000 genomes]
rs1471559	0.87[ASN][1000 genomes]
rs1471561	0.86[ASN][1000 genomes]
rs1481063	0.88[EUR][1000 genomes]
rs2929077	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2929078	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2929080	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2929081	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2929082	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2929083	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2929084	0.96[EUR][1000 genomes]
rs2929085	0.96[EUR][1000 genomes]
rs2929086	0.92[EUR][1000 genomes]
rs2929095	0.87[EUR][1000 genomes]
rs2955924	0.96[EUR][1000 genomes]
rs2955925	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2955926	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2955927	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2981129	0.88[EUR][1000 genomes]
rs2981134	0.81[EUR][1000 genomes]
rs2981136	0.87[EUR][1000 genomes]
rs2981177	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2981178	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2981179	0.90[EUR][1000 genomes]
rs7846287	0.80[ASN][1000 genomes]
rs9772008	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv539555	chr8:39683857-40673606	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv534582	chr8:39884590-40653224	Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:39951000-39968000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr8:39958000-39970800	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr8:39959600-39976400	Weak transcription	Pancreas	Pancrea
4	chr8:39961800-39970400	Weak transcription	Placenta	Placenta
5	chr8:39962800-39968800	Weak transcription	Esophagus	oesophagus
6	chr8:39965000-39966800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr8:39965400-39966600	Active TSS	Colon Smooth Muscle	Colon
8	chr8:39965600-39966600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr8:39965600-39966600	Active TSS	Ovary	ovary
10	chr8:39965600-39966600	Active TSS	Right Atrium	heart
11	chr8:39965800-39966600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr8:39965800-39966600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr8:39965800-39966600	Active TSS	Muscle Satellite Cultured Cells	--
14	chr8:39965800-39966600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr8:39965800-39966600	Active TSS	Adipose Nuclei	Adipose
16	chr8:39965800-39966600	Active TSS	Duodenum Mucosa	Duodenum
17	chr8:39965800-39966600	Active TSS	Fetal Lung	lung
18	chr8:39965800-39966600	Active TSS	A549	lung
19	chr8:39965800-39966600	Active TSS	NHDF-Ad	bronchial
20	chr8:39966000-39966600	Active TSS	Duodenum Smooth Muscle	Duodenum
21	chr8:39966000-39966600	Active TSS	NHLF	lung
22	chr8:39966200-39966600	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr8:39966200-39966600	Active TSS	Rectal Mucosa Donor 29	rectum
24	chr8:39966200-39966600	Flanking Active TSS	HUVEC	blood vessel
25	chr8:39966200-39967400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr8:39966400-39967400	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links