Variant report

Variant	rs6820200
Chromosome Location	chr4:106643445-106643446
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:106637256..106639993-chr4:106642352..106643866,2	K562	blood:
2	chr4:106635589..106638418-chr4:106642806..106645316,2	K562	blood:

Variant related genes	Relation type
ENSG00000138780	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10025790	0.80[CEU][hapmap];0.84[JPT][hapmap]
rs10516523	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11722731	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11933386	0.81[EUR][1000 genomes]
rs11933466	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs11934139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11941690	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12639750	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1294667	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1294669	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1294670	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1294673	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13120110	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13147012	0.85[ASN][1000 genomes]
rs13148869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17036098	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17262764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2044536	0.81[CEU][hapmap]
rs2080789	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2544395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2544398	1.00[CEU][hapmap];0.82[CHB][hapmap];0.81[EUR][1000 genomes]
rs2544404	0.81[EUR][1000 genomes]
rs2544405	0.81[EUR][1000 genomes]
rs2544406	0.82[CHB][hapmap]
rs2544408	0.82[CHB][hapmap]
rs2544409	0.82[CHB][hapmap]
rs2544412	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2544413	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2544425	0.82[CHB][hapmap]
rs2553432	0.81[EUR][1000 genomes]
rs2553436	0.81[EUR][1000 genomes]
rs2553438	0.80[EUR][1000 genomes]
rs2553441	0.81[EUR][1000 genomes]
rs2553449	0.92[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2553453	0.82[CHB][hapmap]
rs2553458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2553462	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2553468	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28628106	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3756260	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699196	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6533218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7680134	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7684442	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7684839	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7685231	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][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	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv879700	chr4:106643445-106745057	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106630600-106650600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr4:106630600-106656200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:106630600-106656200	Weak transcription	Esophagus	oesophagus
4	chr4:106630800-106648000	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr4:106630800-106649200	Weak transcription	Small Intestine	intestine
6	chr4:106630800-106656000	Weak transcription	Ovary	ovary
7	chr4:106630800-106656200	Weak transcription	Left Ventricle	heart
8	chr4:106630800-106656200	Weak transcription	Thymus	Thymus
9	chr4:106630800-106658400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr4:106631000-106648800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr4:106631000-106648800	Weak transcription	Brain Germinal Matrix	brain
12	chr4:106631000-106650600	Weak transcription	Fetal Brain Female	brain
13	chr4:106631000-106654600	Weak transcription	Fetal Intestine Large	intestine
14	chr4:106631000-106656000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr4:106631000-106656200	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr4:106631000-106658200	Weak transcription	Right Ventricle	heart
17	chr4:106631000-106659000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr4:106631000-106663000	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr4:106631000-106669400	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr4:106631200-106651800	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr4:106631400-106656000	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr4:106631400-106658800	Weak transcription	A549	lung
23	chr4:106631600-106645400	Weak transcription	Fetal Brain Male	brain
24	chr4:106632000-106646400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr4:106632000-106648800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr4:106634000-106655800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr4:106634000-106655800	Weak transcription	Liver	Liver
28	chr4:106634000-106693200	Weak transcription	K562	blood
29	chr4:106634600-106656200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr4:106635600-106647400	Weak transcription	NH-A	brain
31	chr4:106635600-106651200	Weak transcription	Brain Hippocampus Middle	brain
32	chr4:106635600-106651600	Weak transcription	NHLF	lung
33	chr4:106635600-106655600	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr4:106635600-106656200	Weak transcription	Aorta	Aorta
35	chr4:106635600-106656200	Weak transcription	Brain Anterior Caudate	brain
36	chr4:106635600-106656800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr4:106635600-106658400	Weak transcription	Osteobl	bone
38	chr4:106635600-106665000	Weak transcription	HUVEC	blood vessel
39	chr4:106635600-106669800	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr4:106636200-106658800	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr4:106636400-106647000	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr4:106636400-106647200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr4:106636400-106650000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr4:106636400-106650600	Weak transcription	Primary hematopoietic stem cells	blood
45	chr4:106636400-106651600	Weak transcription	HMEC	breast
46	chr4:106636400-106651600	Weak transcription	NHDF-Ad	bronchial
47	chr4:106636400-106653200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr4:106636400-106656800	Weak transcription	NHEK	skin
49	chr4:106637200-106648600	Weak transcription	Primary B cells from cord blood	blood
50	chr4:106637200-106660800	Weak transcription	Stomach Smooth Muscle	stomach

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