Variant report

Variant	rs10873711
Chromosome Location	chr1:86074095-86074096
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:86073392..86075755-chr1:86077364..86079429,2	MCF-7	breast:
2	chr1:86045532..86047930-chr1:86071624..86075132,3	MCF-7	breast:
3	chr1:86050411..86052188-chr1:86071339..86074227,2	MCF-7	breast:
4	chr1:86046246..86048052-chr1:86073407..86075472,2	K562	blood:
5	chr1:86073205..86075088-chr1:86076581..86078830,2	K562	blood:
6	chr1:86044508..86046493-chr1:86071384..86074227,2	K562	blood:
7	chr1:86041793..86044827-chr1:86073934..86077302,3	K562	blood:
8	chr1:86044046..86050058-chr1:86065602..86074449,16	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000142871	Chromatin interaction
ENSG00000153904	Chromatin interaction
ENSG00000272691	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10747323	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10747324	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.80[EUR][1000 genomes]
rs10873718	1.00[CEU][hapmap];0.86[YRI][hapmap];0.80[EUR][1000 genomes]
rs10873719	1.00[CEU][hapmap];0.86[YRI][hapmap];0.80[EUR][1000 genomes]
rs1094353	0.82[AMR][1000 genomes]
rs1094360	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12037294	0.81[EUR][1000 genomes]
rs12410234	0.82[CHB][hapmap]
rs12757797	0.91[YRI][hapmap]
rs12758966	1.00[CEU][hapmap];0.82[CHB][hapmap];0.80[AMR][1000 genomes]
rs1360239	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1481200	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[YRI][hapmap];0.80[EUR][1000 genomes]
rs1764287	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[YRI][hapmap];0.84[EUR][1000 genomes]
rs1764295	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1775985	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs1775986	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs1775987	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.80[EUR][1000 genomes]
rs1775991	1.00[CEU][hapmap]
rs1775992	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.80[EUR][1000 genomes]
rs1775993	0.82[CHB][hapmap]
rs2014733	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[YRI][hapmap];0.80[EUR][1000 genomes]
rs2014750	1.00[CEU][hapmap];0.85[YRI][hapmap];0.80[EUR][1000 genomes]
rs2026772	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2026774	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2389973	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[YRI][hapmap];0.80[EUR][1000 genomes]
rs2389974	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[YRI][hapmap];0.80[EUR][1000 genomes]
rs2389975	0.80[EUR][1000 genomes]
rs2970548	1.00[CEU][hapmap]
rs313724	0.82[CHB][hapmap]
rs313725	0.82[CHB][hapmap]
rs369999	1.00[CEU][hapmap];0.86[YRI][hapmap]
rs381453	1.00[CEU][hapmap];0.86[YRI][hapmap];0.80[EUR][1000 genomes]
rs399547	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[YRI][hapmap];0.80[EUR][1000 genomes]
rs401657	0.86[YRI][hapmap]
rs420515	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs425357	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[YRI][hapmap]
rs429040	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[YRI][hapmap]
rs430956	1.00[CEU][hapmap];0.89[YRI][hapmap]
rs432254	1.00[CEU][hapmap];0.86[YRI][hapmap];0.80[EUR][1000 genomes]
rs4379699	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[YRI][hapmap];0.80[EUR][1000 genomes]
rs438401	1.00[CEU][hapmap];0.86[YRI][hapmap]
rs444875	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[YRI][hapmap]
rs450953	1.00[CEU][hapmap];0.86[YRI][hapmap]
rs4949913	0.84[YRI][hapmap]
rs4949917	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4949918	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6673975	1.00[CEU][hapmap];0.89[YRI][hapmap]
rs6682235	1.00[CEU][hapmap];0.89[YRI][hapmap];0.80[EUR][1000 genomes]
rs6686719	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[YRI][hapmap];0.80[EUR][1000 genomes]
rs6694808	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7521240	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[YRI][hapmap]
rs7528385	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs7529942	1.00[CEU][hapmap];0.86[YRI][hapmap];0.80[EUR][1000 genomes]
rs7533395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7535884	1.00[CEU][hapmap];0.86[YRI][hapmap];0.80[EUR][1000 genomes]
rs7547023	1.00[CEU][hapmap];0.89[YRI][hapmap];0.80[EUR][1000 genomes]
rs821378	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs821380	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs821383	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs821385	0.81[AFR][1000 genomes]
rs821387	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs821388	0.82[CHB][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs821390	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs821392	0.88[EUR][1000 genomes]
rs821397	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs821400	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs821403	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs821404	0.82[CHB][hapmap]
rs849158	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9324152	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs9661608	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9661951	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9701898	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9793556	1.00[CEU][hapmap];0.82[CHB][hapmap];0.80[AMR][1000 genomes];0.80[EUR][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	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	esv3391173	chr1:86005637-86337469	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:86048800-86081200	Weak transcription	Gastric	stomach
2	chr1:86066600-86077000	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr1:86068000-86074600	Enhancers	Fetal Intestine Small	intestine
4	chr1:86068400-86074800	Enhancers	Fetal Intestine Large	intestine
5	chr1:86070000-86076800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr1:86070600-86076600	Weak transcription	Fetal Stomach	stomach
7	chr1:86071200-86076600	Weak transcription	Fetal Lung	lung
8	chr1:86071200-86076800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr1:86071400-86074200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr1:86071400-86074200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr1:86071400-86075000	Enhancers	HSMM	muscle
12	chr1:86071400-86075400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr1:86071600-86074400	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr1:86071600-86074600	Enhancers	HUVEC	blood vessel
15	chr1:86071600-86076600	Enhancers	NHDF-Ad	bronchial
16	chr1:86071600-86078800	Enhancers	NHLF	lung
17	chr1:86071800-86074200	Enhancers	NHEK	skin
18	chr1:86071800-86074400	Enhancers	HMEC	breast
19	chr1:86071800-86074400	Enhancers	NH-A	brain
20	chr1:86071800-86074600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr1:86071800-86074600	Enhancers	HSMMtube	muscle
22	chr1:86071800-86076800	Enhancers	Muscle Satellite Cultured Cells	--
23	chr1:86072000-86074200	Enhancers	H1 Cell Line	embryonic stem cell
24	chr1:86072000-86074200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr1:86072000-86074200	Enhancers	iPS-18 Cell Line	embryonic stem cell
26	chr1:86072000-86074200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr1:86072000-86074400	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr1:86072000-86074400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr1:86072000-86074600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr1:86072200-86074200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr1:86072200-86074200	Enhancers	HUES64 Cell Line	embryonic stem cell
32	chr1:86072200-86077600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr1:86072400-86074200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr1:86072400-86074600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr1:86072400-86076600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr1:86072400-86076600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr1:86072600-86074400	Enhancers	H9 Cell Line	embryonic stem cell
38	chr1:86072600-86074400	Enhancers	Placenta	Placenta
39	chr1:86073000-86074400	Enhancers	HUES6 Cell Line	embryonic stem cell
40	chr1:86073000-86078200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr1:86073200-86075200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr1:86073200-86076800	Weak transcription	Fetal Heart	heart
43	chr1:86073200-86077000	Weak transcription	Ovary	ovary
44	chr1:86073200-86078400	Weak transcription	Pancreas	Pancrea
45	chr1:86073200-86082200	Weak transcription	Aorta	Aorta
46	chr1:86073400-86074200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr1:86073400-86074200	Flanking Active TSS	Osteobl	bone
48	chr1:86073600-86074200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
49	chr1:86073600-86074200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr1:86073600-86075400	Weak transcription	Fetal Kidney	kidney

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