Variant report

Variant	rs809889
Chromosome Location	chr6:119943590-119943591
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:119941629..119944103-chr6:119947152..119949648,3	MCF-7	breast:
2	chr6:119942931..119945440-chr6:119949735..119951548,2	K562	blood:
3	chr6:119913316..119915387-chr6:119941334..119943937,2	MCF-7	breast:
4	chr6:119669451..119671711-chr6:119942053..119944896,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111885	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10782195	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11153840	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1572957	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1977147	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2024733	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2024734	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2794256	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7754535	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs807299	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs807302	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs807303	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs807309	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs807310	0.82[ASN][1000 genomes]
rs813955	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9285433	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9320697	0.86[ASN][1000 genomes]
rs9320698	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9372544	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9374809	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9374810	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9385080	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9398517	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv1027904	chr6:119709488-120001986	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv533518	chr6:119712186-119998618	ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv3442553	chr6:119742069-120076777	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1027370	chr6:119869409-120056608	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv538431	chr6:119869409-120056608	Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119930600-119948000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr6:119936000-119943600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr6:119936200-119943800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr6:119940400-119949800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr6:119940600-119944000	Enhancers	HMEC	breast
6	chr6:119941200-119943800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr6:119942000-119943600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr6:119942000-119943800	Enhancers	NHDF-Ad	bronchial
9	chr6:119942200-119945200	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr6:119942400-119943600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:119942400-119943800	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr6:119942400-119943800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr6:119942400-119944000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:119942400-119945400	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr6:119942600-119943600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:119942600-119943800	Enhancers	NHEK	skin
17	chr6:119942600-119944000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:119942800-119943600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr6:119942800-119944000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr6:119943000-119944200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr6:119943000-119945000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr6:119943200-119945200	Enhancers	iPS-20b Cell Line	embryonic stem cell
23	chr6:119943200-119948400	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr6:119943200-119948600	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr6:119943400-119943800	Enhancers	Rectal Smooth Muscle	rectum
26	chr6:119943400-119948200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr6:119943400-119948400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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