Variant report

Variant	rs6798173
Chromosome Location	chr3:150328016-150328017
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:150319883..150326696-chr3:150327224..150333205,16	MCF-7	breast:
2	chr3:150319130..150324790-chr3:150327939..150333389,12	K562	blood:

Variant related genes	Relation type
ENSG00000198843	Chromatin interaction
ENSG00000120742	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1133494	0.84[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs13097283	0.93[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1464517	1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs16862785	0.86[YRI][hapmap]
rs1915942	0.81[AFR][1000 genomes]
rs1915943	1.00[CEU][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2049229	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2204112	0.87[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs2868947	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs6440688	0.81[YRI][hapmap]
rs6779448	0.84[AFR][1000 genomes]
rs6790726	0.86[YRI][hapmap]
rs6801796	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7433606	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7638500	0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs7642917	0.84[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs9809820	1.00[CEU][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9819287	0.88[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs9836797	0.88[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs9842446	0.86[EUR][1000 genomes]
rs9865177	0.81[AFR][1000 genomes]
rs9874800	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]

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	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150322200-150329400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:150322200-150336400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:150322200-150347000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:150322400-150329000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr3:150322400-150336200	Weak transcription	Fetal Kidney	kidney
6	chr3:150322400-150344000	Weak transcription	HSMMtube	muscle
7	chr3:150322400-150350800	Weak transcription	Colonic Mucosa	Colon
8	chr3:150322400-150353000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr3:150322600-150329400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:150322600-150329400	Weak transcription	Fetal Stomach	stomach
11	chr3:150322600-150329600	Weak transcription	Fetal Intestine Large	intestine
12	chr3:150322600-150329600	Weak transcription	Placenta	Placenta
13	chr3:150322800-150329600	Weak transcription	Fetal Muscle Trunk	muscle
14	chr3:150322800-150329600	Weak transcription	Fetal Muscle Leg	muscle
15	chr3:150322800-150341200	Weak transcription	HSMM	muscle
16	chr3:150323000-150341200	Weak transcription	Adipose Nuclei	Adipose
17	chr3:150323000-150343800	Weak transcription	HMEC	breast
18	chr3:150323000-150348200	Weak transcription	Fetal Brain Male	brain
19	chr3:150323000-150348200	Weak transcription	Fetal Lung	lung
20	chr3:150323200-150328400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr3:150323200-150330200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:150323600-150334600	Weak transcription	Brain Germinal Matrix	brain
23	chr3:150323800-150330200	Weak transcription	HUVEC	blood vessel
24	chr3:150323800-150341000	Weak transcription	A549	lung
25	chr3:150324000-150329000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr3:150324000-150330800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:150324000-150341600	Weak transcription	Rectal Smooth Muscle	rectum
28	chr3:150324200-150329400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr3:150324200-150329400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
30	chr3:150324200-150330800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:150324200-150336000	Weak transcription	Osteobl	bone
32	chr3:150324200-150342400	Weak transcription	NHDF-Ad	bronchial
33	chr3:150324400-150329200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
34	chr3:150324400-150329400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:150324600-150328400	Weak transcription	Stomach Smooth Muscle	stomach
36	chr3:150324600-150339000	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr3:150324800-150329400	Weak transcription	Thymus	Thymus
38	chr3:150325400-150328400	Weak transcription	Primary hematopoietic stem cells	blood
39	chr3:150325400-150329200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr3:150325400-150329200	Enhancers	Primary T helper cells fromperipheralblood	blood
41	chr3:150325400-150329400	Enhancers	Primary T helper naive cells from peripheral blood	blood
42	chr3:150325400-150330800	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr3:150325600-150328200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr3:150325600-150328600	Enhancers	Dnd41	blood
45	chr3:150325600-150328800	Enhancers	Primary T helper cells PMA-I stimulated	--
46	chr3:150325600-150329200	Weak transcription	H1 Cell Line	embryonic stem cell
47	chr3:150325600-150329200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr3:150325600-150329400	Enhancers	Primary T killer memory cells from peripheral blood	blood
49	chr3:150325600-150329400	Weak transcription	Ovary	ovary
50	chr3:150325600-150330200	Weak transcription	NH-A	brain

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