Variant report

Variant	rs6857306
Chromosome Location	chr4:754000-754001
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:14)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:14 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr4:753809-754048	Hela-S3	cervix:	n/a	n/a
2	SP1	chr4:753491-754125	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr4:753753-754077	K562	blood:	n/a	n/a
4	POLR2A	chr4:753719-754252	U87	brain:	n/a	n/a
5	POLR2A	chr4:753739-764687	K562	blood:	n/a	n/a
6	POLR2A	chr4:753734-759040	MCF10A-Er-Src	breast:	n/a	n/a
7	POLR2A	chr4:753760-754183	MCF-7	breast:	n/a	n/a
8	E2F6	chr4:753649-754094	H1-hESC	embryonic stem cell:	n/a	n/a
9	E2F6	chr4:753669-754012	H1-hESC	embryonic stem cell:	n/a	n/a
10	POLR2A	chr4:753019-754283	K562	blood:	n/a	n/a
11	POLR2A	chr4:753802-754258	HepG2	liver:	n/a	n/a
12	SP1	chr4:753491-754071	H1-hESC	embryonic stem cell:	n/a	n/a
13	POLR2A	chr4:753695-754183	U87	brain:	n/a	n/a
14	POLR2A	chr4:753789-754734	GM12878	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr4:749591..753567-chr4:753955..757140,4	MCF-7	breast:
2	chr4:666788..669425-chr4:753705..755956,2	K562	blood:
3	chr4:745562..749408-chr4:752726..755779,3	MCF-7	breast:
4	chr4:593904..597020-chr4:753917..757326,3	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CPLX1-4	chr4:753969-754335	predAs_ge08_PCGF3_2

No data

Variant related genes	Relation type
ENSG00000272588	TF binding region
ENSG00000215375	Chromatin interaction
ENSG00000272588	Chromatin interaction
ENSG00000169020	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs13117283	1.00[YRI][hapmap]
rs6856839	1.00[YRI][hapmap];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011715	chr4:43860-823487	Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv532702	chr4:72447-755236	Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv1005224	chr4:507005-900281	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Strong transcription Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv536976	chr4:507005-900281	Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	nsv822425	chr4:540105-1413799	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	108 gene(s)	inside rSNPs	diseases
6	esv2757916	chr4:603208-931354	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
7	esv2759217	chr4:603208-931354	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
8	nsv878247	chr4:607202-925149	Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
9	nsv530490	chr4:614355-1399150	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
10	esv1829397	chr4:655939-1041957	Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
11	nsv829834	chr4:665477-775524	Active TSS Genic enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
12	nsv878253	chr4:708932-771587	Strong transcription Genic enhancers Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
13	nsv878254	chr4:708932-899143	Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
14	nsv878255	chr4:708932-1052488	Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
15	nsv878257	chr4:712222-852313	Strong transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
16	nsv878258	chr4:712222-1058358	Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
17	nsv878259	chr4:713920-852313	Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
18	nsv878260	chr4:713920-1052488	Bivalent Enhancer Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
19	nsv4195	chr4:727187-768059	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
20	nsv966467	chr4:744990-760620	Strong transcription Genic enhancers Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
21	esv3515701	chr4:749002-754800	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
22	esv3515702	chr4:749002-754800	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
23	esv3517788	chr4:751652-754800	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
24	esv3517789	chr4:751652-754800	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
25	esv3436991	chr4:751802-754350	Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
26	nsv10418	chr4:752002-755765	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
27	nsv818207	chr4:753944-821490	Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:135 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:702200-754800	Weak transcription	Hela-S3	cervix
2	chr4:727000-767600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr4:728600-755800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr4:728600-763400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr4:729000-754600	Weak transcription	Fetal Kidney	kidney
6	chr4:729000-762600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr4:729600-760800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr4:742600-754400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr4:742600-763600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr4:742800-754200	Weak transcription	Colon Smooth Muscle	Colon
11	chr4:742800-756200	Weak transcription	Stomach Mucosa	stomach
12	chr4:742800-764000	Weak transcription	Small Intestine	intestine
13	chr4:744200-754800	Weak transcription	NHEK	skin
14	chr4:744400-763400	Weak transcription	Right Atrium	heart
15	chr4:744600-754000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr4:745400-754800	Weak transcription	NHDF-Ad	bronchial
17	chr4:746000-754400	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr4:746000-773800	Weak transcription	Fetal Brain Male	brain
19	chr4:746200-754400	Weak transcription	Brain Cingulate Gyrus	brain
20	chr4:746200-758600	Weak transcription	Brain Anterior Caudate	brain
21	chr4:747000-754400	Weak transcription	Primary hematopoietic stem cells	blood
22	chr4:747000-756400	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr4:747200-754400	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr4:748200-763400	Weak transcription	Brain Substantia Nigra	brain
25	chr4:749000-754000	Weak transcription	Primary B cells from cord blood	blood
26	chr4:749000-754400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr4:749000-754400	Weak transcription	Right Ventricle	heart
28	chr4:749000-754600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr4:749200-754000	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr4:749200-754400	Weak transcription	Left Ventricle	heart
31	chr4:749400-754000	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr4:749400-754200	Weak transcription	Gastric	stomach
33	chr4:749400-754200	Weak transcription	Ovary	ovary
34	chr4:749400-754200	Weak transcription	NHLF	lung
35	chr4:749400-754400	Weak transcription	Esophagus	oesophagus
36	chr4:749400-754400	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr4:749400-754400	Weak transcription	Spleen	Spleen
38	chr4:749400-754600	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr4:749400-755800	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr4:749600-754000	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr4:749600-754000	Weak transcription	HSMMtube	muscle
42	chr4:749600-754400	Weak transcription	Brain Hippocampus Middle	brain
43	chr4:749600-754400	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr4:749600-754800	Weak transcription	NH-A	brain
45	chr4:750200-754400	Weak transcription	Rectal Smooth Muscle	rectum
46	chr4:751200-754400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr4:751400-754000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr4:751400-754000	Weak transcription	Fetal Brain Female	brain
49	chr4:751400-754400	Weak transcription	HMEC	breast
50	chr4:751600-754200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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