Variant report

Variant	rs372809308
Chromosome Location	chr6:29692272-29692273
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:33)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:33 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	E2F6	chr6:29691795-29692282	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr6:29690698-29695012	GM18951	blood:	n/a	n/a
3	POLR2A	chr6:29690658-29699867	GM12891	blood:	n/a	n/a
4	POLR2A	chr6:29690711-29694858	GM19099	blood:	n/a	n/a
5	POLR2A	chr6:29690629-29692386	GM12892	blood:	n/a	n/a
6	RFX5	chr6:29690604-29692339	H1-hESC	embryonic stem cell:	n/a	n/a
7	STAT5A	chr6:29690608-29692291	GM12878	blood:	n/a	n/a
8	MXI1	chr6:29691644-29692277	GM12878	blood:	n/a	n/a
9	MTA3	chr6:29690560-29692415	GM12878	blood:	n/a	n/a
10	POLR2A	chr6:29690773-29692323	GM12878	blood:	n/a	n/a
11	POLR2A	chr6:29690692-29694256	GM12892	blood:	n/a	n/a
12	POLR2A	chr6:29690575-29695009	GM12878	blood:	n/a	n/a
13	POLR2A	chr6:29690785-29699707	GM12878	blood:	n/a	n/a
14	POLR2A	chr6:29691899-29694250	GM12891	blood:	n/a	n/a
15	POLR2A	chr6:29690681-29699847	GM12878	blood:	n/a	n/a
16	POLR2A	chr6:29690663-29692513	GM12878	blood:	n/a	n/a
17	POLR2A	chr6:29690708-29699614	GM18505	blood:	n/a	n/a
18	POLR2A	chr6:29690566-29699452	GM12892	blood:	n/a	n/a
19	POLR2A	chr6:29690657-29697457	GM12892	blood:	n/a	n/a
20	POLR2A	chr6:29690680-29694233	GM12891	blood:	n/a	n/a
21	WRNIP1	chr6:29692089-29694213	GM12878	blood:	n/a	n/a
22	POLR2A	chr6:29690622-29694243	GM12891	blood:	n/a	n/a
23	POLR2A	chr6:29690733-29692494	GM12891	blood:	n/a	n/a
24	POLR2A	chr6:29690697-29694189	GM19193	blood:	n/a	n/a
25	POLR2A	chr6:29690618-29699456	GM12892	blood:	n/a	n/a
26	CHD1	chr6:29690782-29692311	GM12878	blood:	n/a	n/a
27	POLR2A	chr6:29690594-29697494	GM12878	blood:	n/a	n/a
28	SIN3A	chr6:29691034-29692287	H1-hESC	embryonic stem cell:	n/a	n/a
29	RUNX3	chr6:29690763-29692303	GM12878	blood:	n/a	n/a
30	POLR2A	chr6:29690778-29692409	GM12878	blood:	n/a	n/a
31	POLR2A	chr6:29690735-29692912	GM15510	blood:	n/a	n/a
32	POLR2A	chr6:29690758-29693733	GM12878	blood:	n/a	n/a
33	POLR2A	chr6:29690694-29694125	GM18526	blood:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:29689319..29693460-chr6:29694038..29698697,5	MCF-7	breast:
2	chr6:29673901..29676614-chr6:29690934..29692528,2	MCF-7	breast:
3	chr6:29691971..29693668-chr6:29693958..29696725,2	K562	blood:
4	chr6:29689852..29692667-chr6:31324164..31326641,2	K562	blood:

No data

Variant related genes	Relation type
HLA-F	TF binding region
HCG4P11	TF binding region
ENSG00000239257	Chromatin interaction
ENSG00000233916	Chromatin interaction
ENSG00000234745	Chromatin interaction
ENSG00000271581	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv20940	chr6:29653954-29923410	Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv428475	chr6:29659525-29763392	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv428139	chr6:29659525-29892317	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
4	nsv427749	chr6:29659525-29975144	Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv508397	chr6:29663132-29761448	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	esv1821077	chr6:29670915-29726207	Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	esv1794141	chr6:29670915-29765814	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
8	nsv462673	chr6:29689590-29700183	Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv601230	chr6:29689590-29700183	Flanking Active TSS Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv970101	chr6:29692268-29695615	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29690400-29692600	Active TSS	Pancreatic Islets	Pancreatic Islet
2	chr6:29690400-29692800	Active TSS	Duodenum Smooth Muscle	Duodenum
3	chr6:29690600-29692400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
4	chr6:29690600-29692400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
5	chr6:29690600-29692400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
6	chr6:29690600-29692400	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:29690600-29692400	Active TSS	Ovary	ovary
8	chr6:29690600-29692600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:29690600-29692600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr6:29690600-29692600	Active TSS	Brain Hippocampus Middle	brain
11	chr6:29690600-29692600	Active TSS	Right Atrium	heart
12	chr6:29690600-29693000	Active TSS	Rectal Smooth Muscle	rectum
13	chr6:29690600-29693000	Active TSS	Small Intestine	intestine
14	chr6:29690600-29694200	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
15	chr6:29690800-29692400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
16	chr6:29690800-29692400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
17	chr6:29690800-29692400	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
18	chr6:29690800-29692400	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
19	chr6:29690800-29692400	Bivalent/Poised TSS	Fetal Thymus	thymus
20	chr6:29690800-29692600	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
21	chr6:29691000-29692400	Bivalent/Poised TSS	Fetal Lung	lung
22	chr6:29691000-29692600	Bivalent/Poised TSS	Psoas Muscle	Psoas
23	chr6:29691200-29692400	Flanking Active TSS	Primary hematopoietic stem cells	blood
24	chr6:29691200-29692400	Flanking Active TSS	Pancreas	Pancrea
25	chr6:29691200-29694000	Transcr. at gene 5' and 3'	Primary T helper naive cells fromperipheralblood	blood
26	chr6:29691200-29695000	Transcr. at gene 5' and 3'	Primary T helper cells fromperipheralblood	blood
27	chr6:29691200-29695400	Transcr. at gene 5' and 3'	Primary T regulatory cells fromperipheralblood	blood
28	chr6:29691400-29692400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr6:29691400-29694000	Transcr. at gene 5' and 3'	Colonic Mucosa	Colon
30	chr6:29691400-29694200	Transcr. at gene 5' and 3'	Primary T helper memory cells from peripheral blood 1	blood
31	chr6:29691400-29694200	Transcr. at gene 5' and 3'	Primary Natural Killer cells fromperipheralblood	blood
32	chr6:29691600-29692400	Active TSS	Osteobl	bone
33	chr6:29691600-29694000	Transcr. at gene 5' and 3'	Primary B cells from peripheral blood	blood
34	chr6:29691800-29692400	Bivalent Enhancer	Fetal Heart	heart
35	chr6:29691800-29692400	Bivalent/Poised TSS	Fetal Intestine Small	intestine
36	chr6:29692000-29692400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:29692000-29692400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
38	chr6:29692000-29692400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
39	chr6:29692000-29692400	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr6:29692000-29692400	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr6:29692000-29692400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr6:29692000-29692400	Flanking Active TSS	Primary T cells from cord blood	blood
43	chr6:29692000-29692400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:29692000-29692400	Flanking Active TSS	Brain Angular Gyrus	brain
45	chr6:29692000-29692400	Flanking Active TSS	Brain Anterior Caudate	brain
46	chr6:29692000-29692400	Flanking Active TSS	Brain Cingulate Gyrus	brain
47	chr6:29692000-29692400	Flanking Active TSS	Brain Substantia Nigra	brain
48	chr6:29692000-29692400	Flanking Bivalent TSS/Enh	Placenta	Placenta
49	chr6:29692000-29692400	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
50	chr6:29692000-29692400	Transcr. at gene 5' and 3'	Skeletal Muscle Female	skeletal muscle

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