Variant report

Variant	rs999859
Chromosome Location	chr6:146123027-146123028
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:146117599..146120240-chr6:146121870..146124861,2	MCF-7	breast:
2	chr6:146122818..146124634-chr6:146134997..146137828,2	MCF-7	breast:
3	chr6:146047378..146061811-chr6:146118130..146137627,77	K562	blood:
4	chr6:146121190..146123447-chr6:146128257..146129853,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000235652	Chromatin interaction
ENSG00000118496	Chromatin interaction
ENSG00000270638	Chromatin interaction
ENSG00000270828	Chromatin interaction
ENSG00000112425	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs17054153	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075370	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075385	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075389	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075400	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075404	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075411	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075414	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075446	0.94[ASN][1000 genomes]
rs17075465	0.94[ASN][1000 genomes]
rs17075499	0.94[ASN][1000 genomes]
rs17075501	0.94[ASN][1000 genomes]
rs17075511	0.88[ASN][1000 genomes]
rs17075515	0.88[ASN][1000 genomes]
rs17075527	0.82[ASN][1000 genomes]
rs17075530	0.82[ASN][1000 genomes]
rs17075544	0.82[ASN][1000 genomes]
rs17075546	0.82[ASN][1000 genomes]
rs17075548	0.82[ASN][1000 genomes]
rs17075552	0.82[ASN][1000 genomes]
rs17724951	1.00[AFR][1000 genomes]
rs17724957	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17725045	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17725081	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17725112	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17725154	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17797949	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17798033	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17798183	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17798189	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17798207	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1970304	0.94[ASN][1000 genomes]
rs1988640	1.00[CEU][hapmap]
rs2068029	1.00[CEU][hapmap]
rs2143065	1.00[AFR][1000 genomes]
rs3891273	1.00[CEU][hapmap]
rs4895681	1.00[CEU][hapmap]
rs4896830	1.00[CEU][hapmap]
rs4896834	1.00[CEU][hapmap]
rs6570721	1.00[CEU][hapmap];0.94[ASN][1000 genomes]
rs6570722	1.00[CEU][hapmap]
rs6914746	1.00[CEU][hapmap]
rs6920248	1.00[CEU][hapmap]
rs6921551	1.00[CEU][hapmap]
rs6938028	1.00[CEU][hapmap]
rs7341315	1.00[CEU][hapmap]
rs734166	1.00[CEU][hapmap]
rs73579444	0.88[ASN][1000 genomes]
rs999860	1.00[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146100600-146123200	Weak transcription	HUVEC	blood vessel
2	chr6:146104600-146127000	Weak transcription	Brain Hippocampus Middle	brain
3	chr6:146105000-146123200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:146105200-146134400	Weak transcription	Thymus	Thymus
5	chr6:146105400-146125800	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr6:146105800-146125600	Weak transcription	Fetal Kidney	kidney
7	chr6:146106000-146133600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:146107000-146125600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:146110200-146135000	Weak transcription	Pancreas	Pancrea
10	chr6:146112400-146125400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr6:146112400-146125400	Weak transcription	Fetal Stomach	stomach
12	chr6:146112400-146125600	Weak transcription	Aorta	Aorta
13	chr6:146112400-146125600	Weak transcription	Brain Substantia Nigra	brain
14	chr6:146112400-146135000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:146112600-146124600	Weak transcription	Liver	Liver
16	chr6:146112600-146125800	Weak transcription	Fetal Brain Female	brain
17	chr6:146113000-146123200	Weak transcription	HMEC	breast
18	chr6:146113400-146133600	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr6:146113800-146124000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:146113800-146126000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr6:146114400-146123200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr6:146114400-146125400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:146116400-146126600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr6:146116600-146123200	Weak transcription	Fetal Lung	lung
25	chr6:146116600-146124600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:146116800-146123200	Weak transcription	Fetal Intestine Large	intestine
27	chr6:146116800-146125400	Weak transcription	Esophagus	oesophagus
28	chr6:146116800-146126400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr6:146116800-146128600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr6:146117200-146126200	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr6:146117400-146130400	Strong transcription	HSMM	muscle
32	chr6:146118000-146125600	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr6:146118400-146126400	Weak transcription	Spleen	Spleen
34	chr6:146118400-146128600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:146118800-146124800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:146118800-146125600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr6:146119000-146123200	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr6:146119000-146125600	Weak transcription	Brain Anterior Caudate	brain
39	chr6:146119000-146126200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr6:146119200-146125600	Weak transcription	Ovary	ovary
41	chr6:146119200-146134800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr6:146119400-146126400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr6:146119400-146127600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr6:146119400-146135000	Weak transcription	Small Intestine	intestine
45	chr6:146119600-146127400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr6:146119800-146125800	Weak transcription	Primary neutrophils fromperipheralblood	blood
47	chr6:146120000-146125800	Weak transcription	Right Ventricle	heart
48	chr6:146120200-146125400	Weak transcription	Lung	lung
49	chr6:146120200-146125600	Weak transcription	NHDF-Ad	bronchial
50	chr6:146120200-146127600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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