Variant report

Variant	rs3798925
Chromosome Location	chr6:161601836-161601837
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:161590074..161592745-chr6:161601272..161602964,2	K562	blood:
2	chr6:161601030..161602968-chr6:161618366..161620488,2	K562	blood:
3	chr6:161601048..161605032-chr6:161608423..161610075,3	K562	blood:
4	chr6:161601048..161604055-chr6:161608351..161610075,3	K562	blood:
5	chr6:161600837..161603020-chr6:161625885..161628074,2	K562	blood:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11751856	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753162	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11754766	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16892229	1.00[CHD][hapmap];0.81[ASN][1000 genomes]
rs2018762	0.81[ASN][1000 genomes]
rs2064718	0.84[ASN][1000 genomes]
rs2314375	0.81[ASN][1000 genomes]
rs3798920	1.00[CHD][hapmap];0.81[ASN][1000 genomes]
rs3798922	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3798923	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs3798924	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs61552758	0.81[ASN][1000 genomes]
rs6924597	0.84[ASN][1000 genomes]
rs73786014	0.81[ASN][1000 genomes]
rs73786018	0.98[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7775897	0.84[ASN][1000 genomes]
rs940520	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv949397	chr6:161592100-161812932	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv2752091	chr6:161592100-161855785	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 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	chr6:161585600-161626000	Weak transcription	Right Atrium	heart
2	chr6:161587400-161607000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr6:161590000-161611600	Weak transcription	HSMMtube	muscle
4	chr6:161590200-161607600	Weak transcription	HSMM	muscle
5	chr6:161590400-161606800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:161591000-161607000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:161591400-161626200	Weak transcription	Stomach Smooth Muscle	stomach
8	chr6:161591600-161615400	Weak transcription	Fetal Heart	heart
9	chr6:161591800-161607000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr6:161592000-161607000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:161592000-161609600	Weak transcription	Fetal Brain Male	brain
12	chr6:161592200-161602200	Weak transcription	Brain Anterior Caudate	brain
13	chr6:161592200-161606600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:161598400-161602000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
15	chr6:161598400-161602200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:161598600-161602400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
17	chr6:161598600-161602600	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
18	chr6:161598800-161602400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr6:161599400-161606800	Weak transcription	Osteobl	bone
20	chr6:161599600-161602200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
21	chr6:161599800-161647600	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr6:161600000-161602600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr6:161600000-161604800	Weak transcription	Spleen	Spleen
24	chr6:161600000-161607200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr6:161600200-161606800	Weak transcription	NHDF-Ad	bronchial
26	chr6:161600200-161610000	Weak transcription	Primary T cells from cord blood	blood
27	chr6:161600400-161602200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:161600400-161602200	Weak transcription	Esophagus	oesophagus
29	chr6:161600400-161607000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr6:161600400-161619400	Weak transcription	Fetal Lung	lung
31	chr6:161600400-161626000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr6:161600600-161603400	Weak transcription	Fetal Muscle Trunk	muscle
33	chr6:161600600-161607000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr6:161600600-161613000	Weak transcription	Primary B cells from cord blood	blood
35	chr6:161600600-161613800	Weak transcription	Fetal Brain Female	brain
36	chr6:161600800-161602000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr6:161600800-161603800	Strong transcription	Fetal Stomach	stomach
38	chr6:161600800-161607200	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr6:161600800-161607600	Weak transcription	Ovary	ovary
40	chr6:161600800-161608400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr6:161601000-161605400	Enhancers	Brain Substantia Nigra	brain
42	chr6:161601200-161602800	Strong transcription	Cortex derived primary cultured neurospheres	brain
43	chr6:161601200-161604400	Enhancers	Brain Hippocampus Middle	brain
44	chr6:161601400-161602000	Strong transcription	Brain Germinal Matrix	brain
45	chr6:161601400-161602200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:161601400-161602200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:161601400-161602800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr6:161601400-161602800	Strong transcription	Fetal Muscle Leg	muscle
49	chr6:161601400-161603600	Weak transcription	Lung	lung
50	chr6:161601400-161608000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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