Variant report

Variant	rs6087169
Chromosome Location	chr20:29622854-29622855
allele	C/T
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	TCF12	chr20:29622458-29622876	HepG2	liver:	n/a	n/a
2	SIX5	chr20:29622509-29622916	K562	blood:	n/a	n/a
3	POLR2A	chr20:29621122-29623076	K562	blood:	n/a	n/a
4	FOSL2	chr20:29622446-29623015	HepG2	liver:	n/a	n/a
5	RXRA	chr20:29622458-29622931	HepG2	liver:	n/a	n/a
6	ARID3A	chr20:29622471-29622991	HepG2	liver:	n/a	n/a
7	SIN3AK20	chr20:29622501-29622897	HepG2	liver:	n/a	n/a
8	HEY1	chr20:29622492-29622895	K562	blood:	n/a	n/a
9	FOXA1	chr20:29622318-29623258	HepG2	liver:	n/a	n/a
10	HNF4A	chr20:29622501-29622860	HepG2	liver:	n/a	n/a
11	USF1	chr20:29622484-29622859	HepG2	liver:	n/a	n/a
12	RXRA	chr20:29622306-29623489	HepG2	liver:	n/a	n/a
13	CEBPB	chr20:29622313-29622992	HepG2	liver:	n/a	n/a
14	JUND	chr20:29622470-29622940	HepG2	liver:	n/a	n/a
15	EP300	chr20:29622615-29623009	HepG2	liver:	n/a	n/a
16	SP1	chr20:29622396-29623435	HepG2	liver:	n/a	chr20:29623277-29623290
17	POU2F2	chr20:29622476-29622974	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
FRG1B	TF binding region

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1985639	0.89[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs4528842	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6057185	0.94[YRI][hapmap]
rs6057365	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs6119074	0.88[JPT][hapmap]
rs6119075	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6119135	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6141198	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6567465	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs8119782	0.88[JPT][hapmap]
rs9917470	0.95[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758518	chr20:29419570-29653908	Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	esv2758791	chr20:29419570-29653908	ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv428028	chr20:29419570-29653908	Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv428376	chr20:29419570-29653908	Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1062766	chr20:29420340-29635454	ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv833950	chr20:29472154-29638425	Weak transcription ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv1058387	chr20:29479828-29651199	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	esv2756736	chr20:29493193-29630695	ZNF genes & repeats Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv1067193	chr20:29525410-29651199	Enhancers ZNF genes & repeats Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
10	esv11674	chr20:29528011-29653880	Weak transcription ZNF genes & repeats Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
11	nsv965870	chr20:29570138-29652376	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
12	esv3359503	chr20:29579591-29639989	ZNF genes & repeats Weak transcription Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
13	esv3336027	chr20:29579691-29639889	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
14	esv3337149	chr20:29579691-29639889	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
15	esv3343795	chr20:29579691-29639889	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
16	esv3380005	chr20:29579691-29639889	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
17	esv3441285	chr20:29579691-29639889	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
18	esv15335	chr20:29580700-29653880	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
19	nsv585870	chr20:29603773-29648195	Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
20	nsv585871	chr20:29612406-29648195	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
21	nsv585872	chr20:29612406-29648263	ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
22	nsv585873	chr20:29616742-29651821	ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:29613200-29634400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr20:29613600-29630600	Weak transcription	Colon Smooth Muscle	Colon
3	chr20:29613600-29634200	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr20:29613600-29634400	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr20:29613600-29634600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr20:29616000-29625200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
7	chr20:29616400-29626600	Weak transcription	Brain Substantia Nigra	brain
8	chr20:29616400-29626600	Weak transcription	HSMMtube	muscle
9	chr20:29618600-29629600	Weak transcription	Ovary	ovary
10	chr20:29619200-29625600	Weak transcription	A549	lung
11	chr20:29619800-29623000	ZNF genes & repeats	HepG2	liver
12	chr20:29620400-29625800	Weak transcription	GM12878-XiMat	blood
13	chr20:29620800-29623800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr20:29621000-29623800	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
15	chr20:29621000-29628800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr20:29621000-29630600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr20:29621200-29628400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr20:29621400-29624200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr20:29621400-29625200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr20:29621400-29625400	Weak transcription	Psoas Muscle	Psoas
21	chr20:29621400-29625800	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr20:29622000-29630600	Weak transcription	Stomach Mucosa	stomach
23	chr20:29622000-29630600	Weak transcription	Stomach Smooth Muscle	stomach
24	chr20:29622200-29623000	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
25	chr20:29622200-29623400	ZNF genes & repeats	Primary B cells from peripheral blood	blood
26	chr20:29622400-29623000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
27	chr20:29622400-29623000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
28	chr20:29622400-29623000	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
29	chr20:29622400-29623000	ZNF genes & repeats	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr20:29622400-29623000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr20:29622400-29623000	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
32	chr20:29622400-29623000	ZNF genes & repeats	Gastric	stomach
33	chr20:29622400-29623000	ZNF genes & repeats	Thymus	Thymus
34	chr20:29622400-29623000	ZNF genes & repeats	Dnd41	blood
35	chr20:29622400-29623000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
36	chr20:29622400-29623000	ZNF genes & repeats	NHLF	lung
37	chr20:29622400-29623200	ZNF genes & repeats	Primary T cells from cord blood	blood
38	chr20:29622400-29623200	ZNF genes & repeats	NH-A	brain
39	chr20:29622400-29623400	ZNF genes & repeats	Primary B cells from cord blood	blood
40	chr20:29622400-29623400	ZNF genes & repeats	Fetal Kidney	kidney
41	chr20:29622400-29623400	ZNF genes & repeats	Right Ventricle	heart
42	chr20:29622400-29623800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
43	chr20:29622400-29623800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
44	chr20:29622400-29624600	Strong transcription	Duodenum Smooth Muscle	Duodenum
45	chr20:29622400-29624600	Strong transcription	Rectal Mucosa Donor 29	rectum
46	chr20:29622400-29625200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr20:29622400-29634600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr20:29622600-29623000	ZNF genes & repeats	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr20:29622600-29623000	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr20:29622600-29623000	ZNF genes & repeats	Primary hematopoietic stem cells	blood

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