Variant report

Variant	rs3774932
Chromosome Location	chr4:103424193-103424194
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CHD1	chr4:103421293-103425273	IMR90	lung:	n/a	chr4:103422282-103422292 chr4:103423516-103423526 chr4:103422315-103422325
2	CHD1	chr4:103421479-103426461	GM12878	blood:	n/a	chr4:103422282-103422292 chr4:103423516-103423526 chr4:103422315-103422325
3	POLR2A	chr4:103421466-103424476	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr4:103422194..103424603-chr4:103745115..103749014,4	K562	blood:
2	chr2:88927128..88927730-chr4:103423923..103424787,2	Hela-S3	cervix:
3	chr4:103421988..103424318-chr4:103485489..103487632,2	MCF-7	breast:
4	chr4:103264486..103268305-chr4:103421576..103425286,5	K562	blood:
5	chr11:62606453..62609348-chr4:103421636..103424436,2	MCF-7	breast:
6	chr4:103349492..103352803-chr4:103420968..103424398,3	MCF-7	breast:
7	chr4:103421575..103424271-chr4:103788743..103790943,2	K562	blood:
8	chr4:103369853..103371586-chr4:103423446..103426290,2	K562	blood:
9	chr4:103422470..103425654-chr4:103747796..103750322,3	MCF-7	breast:
10	chr4:103421566..103424767-chr4:103746039..103749014,5	K562	blood:
11	chr4:103419957..103425638-chr4:103495824..103504548,11	MCF-7	breast:
12	chr4:103351901..103354156-chr4:103421461..103424407,3	MCF-7	breast:

Variant related genes	Relation type
NFKB1	TF binding region
ENSG00000260651	TF binding region
ENSG00000109332	Chromatin interaction
ENSG00000248161	Chromatin interaction
ENSG00000145354	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000238553	Chromatin interaction
ENSG00000138821	Chromatin interaction
ENSG00000109320	Chromatin interaction
ENSG00000234028	Chromatin interaction
ENSG00000246560	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1054029	0.82[JPT][hapmap]
rs1585214	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1598856	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17033015	0.87[CEU][hapmap];0.90[JPT][hapmap]
rs179195	0.81[JPT][hapmap]
rs227361	0.81[JPT][hapmap]
rs228614	0.81[JPT][hapmap]
rs228617	0.81[JPT][hapmap]
rs228619	0.82[JPT][hapmap]
rs230510	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs230530	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs3774968	0.92[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap]
rs434644	0.86[JPT][hapmap]
rs93059	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]

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	nsv830020	chr4:103387343-103581284	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1003490	chr4:103391483-103521772	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv1004030	chr4:103419352-103504042	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv537203	chr4:103419352-103504042	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:103421200-103424400	Active TSS	Pancreatic Islets	Pancreatic Islet
2	chr4:103421200-103425000	Active TSS	Brain Inferior Temporal Lobe	brain
3	chr4:103421400-103424800	Active TSS	Aorta	Aorta
4	chr4:103421400-103424800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
5	chr4:103421400-103424800	Active TSS	NHDF-Ad	bronchial
6	chr4:103421600-103424600	Active TSS	Fetal Brain Female	brain
7	chr4:103421600-103424800	Active TSS	Duodenum Smooth Muscle	Duodenum
8	chr4:103421600-103424800	Active TSS	Right Ventricle	heart
9	chr4:103421600-103425200	Active TSS	Stomach Smooth Muscle	stomach
10	chr4:103421600-103425600	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
11	chr4:103421600-103426400	Active TSS	Right Atrium	heart
12	chr4:103421800-103424200	Active TSS	Brain Anterior Caudate	brain
13	chr4:103421800-103424400	Active TSS	Brain Hippocampus Middle	brain
14	chr4:103421800-103424600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr4:103421800-103424600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr4:103421800-103424800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr4:103421800-103424800	Active TSS	Sigmoid Colon	Sigmoid Colon
18	chr4:103421800-103425000	Active TSS	Colonic Mucosa	Colon
19	chr4:103421800-103425000	Active TSS	NHLF	lung
20	chr4:103421800-103425200	Active TSS	Fetal Intestine Small	intestine
21	chr4:103421800-103425200	Active TSS	Psoas Muscle	Psoas
22	chr4:103421800-103425400	Active TSS	A549	lung
23	chr4:103421800-103425600	Active TSS	Breast Myoepithelial Primary Cells	Breast
24	chr4:103422000-103424200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr4:103422000-103424200	Active TSS	Brain Cingulate Gyrus	brain
26	chr4:103422000-103424200	Active TSS	Skeletal Muscle Male	skeletal muscle
27	chr4:103422000-103424400	Active TSS	Rectal Mucosa Donor 31	rectum
28	chr4:103422000-103424400	Active TSS	Skeletal Muscle Female	skeletal muscle
29	chr4:103422000-103424600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr4:103422000-103424600	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
31	chr4:103422000-103424600	Active TSS	Primary T helper naive cells from peripheral blood	blood
32	chr4:103422000-103424600	Active TSS	Colon Smooth Muscle	Colon
33	chr4:103422000-103424600	Active TSS	HSMM	muscle
34	chr4:103422000-103424600	Active TSS	K562	blood
35	chr4:103422000-103424800	Active TSS	Rectal Smooth Muscle	rectum
36	chr4:103422000-103425000	Active TSS	Primary T killer naive cells fromperipheralblood	blood
37	chr4:103422000-103425000	Active TSS	Primary T killer memory cells from peripheral blood	blood
38	chr4:103422000-103425000	Active TSS	Brain Angular Gyrus	brain
39	chr4:103422000-103425200	Active TSS	Hela-S3	cervix
40	chr4:103422000-103425200	Active TSS	HepG2	liver
41	chr4:103422000-103425200	Active TSS	NH-A	brain
42	chr4:103422000-103425400	Active TSS	Rectal Mucosa Donor 29	rectum
43	chr4:103422000-103425600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr4:103422000-103426400	Active TSS	HSMMtube	muscle
45	chr4:103422000-103430400	Active TSS	GM12878-XiMat	blood
46	chr4:103422200-103424200	Active TSS	HUES6 Cell Line	embryonic stem cell
47	chr4:103422200-103424600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr4:103422200-103424600	Active TSS	HMEC	breast
49	chr4:103422200-103424800	Active TSS	Fetal Intestine Large	intestine
50	chr4:103422200-103425000	Active TSS	Primary T helper memory cells from peripheral blood 1	blood

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