Variant report

Variant	rs28682539
Chromosome Location	chr4:10449087-10449088
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	chr4:10441157..10443033-chr4:10448668..10450839,2	K562	blood:
2	chr4:10447047..10450143-chr4:10544780..10547664,3	K562	blood:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10007352	0.89[ASN][1000 genomes]
rs10010865	0.82[ASN][1000 genomes]
rs10016702	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10021506	0.95[ASN][1000 genomes]
rs10433818	0.86[ASN][1000 genomes]
rs11945424	0.95[ASN][1000 genomes]
rs11945639	0.83[ASN][1000 genomes]
rs11947336	0.85[ASN][1000 genomes]
rs28427256	0.86[ASN][1000 genomes]
rs28519672	0.94[ASN][1000 genomes]
rs28526383	0.89[ASN][1000 genomes]
rs28553891	0.94[ASN][1000 genomes]
rs28671654	0.85[ASN][1000 genomes]
rs4075869	0.94[EUR][1000 genomes]
rs4333175	0.85[ASN][1000 genomes]
rs4386599	0.83[ASN][1000 genomes]
rs4495033	0.85[ASN][1000 genomes]
rs4501216	0.90[ASN][1000 genomes]
rs55826923	0.94[EUR][1000 genomes]
rs6811292	0.93[ASN][1000 genomes]
rs6833104	0.85[ASN][1000 genomes]
rs6843262	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6846032	0.94[ASN][1000 genomes]
rs6858510	0.84[ASN][1000 genomes]
rs73090004	0.85[ASN][1000 genomes]
rs73090005	0.85[ASN][1000 genomes]
rs73226405	0.88[EUR][1000 genomes]
rs7694496	0.86[ASN][1000 genomes]
rs9994013	0.86[ASN][1000 genomes]
rs9996956	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:24 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997941	chr4:9805223-10493388	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	54 gene(s)	inside rSNPs	diseases
2	nsv1008649	chr4:9805223-10589802	Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	56 gene(s)	inside rSNPs	diseases
3	nsv1000587	chr4:9805223-10610752	Flanking Active TSS Enhancers Genic enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	56 gene(s)	inside rSNPs	diseases
4	nsv537022	chr4:9805223-10610752	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	56 gene(s)	inside rSNPs	diseases
5	nsv1003454	chr4:9805223-10710990	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	58 gene(s)	inside rSNPs	diseases
6	nsv537023	chr4:9805223-10710990	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	58 gene(s)	inside rSNPs	diseases
7	nsv1004801	chr4:9814720-10674528	Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
8	nsv537024	chr4:9814720-10674528	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
9	nsv931483	chr4:9814721-10716463	Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	58 gene(s)	inside rSNPs	diseases
10	nsv1009972	chr4:9903566-10710990	Genic enhancers Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	58 gene(s)	inside rSNPs	diseases
11	nsv537027	chr4:9903566-10710990	Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	58 gene(s)	inside rSNPs	diseases
12	nsv1010620	chr4:9937123-10686682	Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
13	nsv530280	chr4:9947818-10940041	Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	66 gene(s)	inside rSNPs	diseases
14	nsv532706	chr4:9948018-10451450	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	50 gene(s)	inside rSNPs	diseases
15	nsv869057	chr4:10013411-10875454	Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	65 gene(s)	inside rSNPs	diseases
16	nsv997936	chr4:10040713-11009045	Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	65 gene(s)	inside rSNPs	diseases
17	nsv1000177	chr4:10212245-10557776	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
18	nsv537037	chr4:10212245-10557776	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
19	nsv829858	chr4:10300236-10492716	Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
20	esv2757921	chr4:10343699-10545800	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
21	esv2759223	chr4:10343699-10545800	Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Weak transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
22	nsv593727	chr4:10397327-10694991	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
23	nsv517971	chr4:10399068-10893253	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
24	nsv878694	chr4:10407572-10783606	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:10443200-10457000	ZNF genes & repeats	Brain Germinal Matrix	brain
2	chr4:10443400-10457000	ZNF genes & repeats	Fetal Brain Female	brain
3	chr4:10443800-10456400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr4:10443800-10456800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr4:10444000-10453800	ZNF genes & repeats	Primary T cells from cord blood	blood
6	chr4:10444200-10450200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:10444400-10449200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
8	chr4:10444600-10450400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:10444600-10451000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:10444600-10456600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr4:10444800-10449200	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr4:10444800-10449200	ZNF genes & repeats	Aorta	Aorta
13	chr4:10444800-10449200	ZNF genes & repeats	Ovary	ovary
14	chr4:10444800-10450400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr4:10444800-10451000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr4:10444800-10454000	ZNF genes & repeats	Fetal Lung	lung
17	chr4:10444800-10457000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr4:10445000-10449200	ZNF genes & repeats	Fetal Muscle Trunk	muscle
19	chr4:10445000-10449200	Strong transcription	HSMMtube	muscle
20	chr4:10445000-10450800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr4:10445200-10450400	ZNF genes & repeats	Adipose Nuclei	Adipose
22	chr4:10445200-10450800	Strong transcription	Muscle Satellite Cultured Cells	--
23	chr4:10445200-10454200	ZNF genes & repeats	Fetal Muscle Leg	muscle
24	chr4:10445200-10454600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr4:10445400-10449200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr4:10445400-10449200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
27	chr4:10445400-10449400	ZNF genes & repeats	Fetal Intestine Small	intestine
28	chr4:10445400-10450400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr4:10445400-10450400	ZNF genes & repeats	Left Ventricle	heart
30	chr4:10445400-10454600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
31	chr4:10445600-10449200	ZNF genes & repeats	Duodenum Mucosa	Duodenum
32	chr4:10445600-10449200	ZNF genes & repeats	Fetal Kidney	kidney
33	chr4:10445600-10453000	Strong transcription	Thymus	Thymus
34	chr4:10445800-10450600	ZNF genes & repeats	Liver	Liver
35	chr4:10445800-10454000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr4:10446000-10451000	ZNF genes & repeats	Fetal Intestine Large	intestine
37	chr4:10446000-10456600	Strong transcription	HSMM	muscle
38	chr4:10446200-10449200	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
39	chr4:10446200-10449200	ZNF genes & repeats	Primary T helper 17 cells PMA-I stimulated	--
40	chr4:10446200-10449200	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
41	chr4:10446200-10453600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
42	chr4:10446400-10450600	Strong transcription	Primary B cells from peripheral blood	blood
43	chr4:10446400-10452400	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
44	chr4:10446600-10449200	ZNF genes & repeats	Colon Smooth Muscle	Colon
45	chr4:10446600-10450000	ZNF genes & repeats	Fetal Brain Male	brain
46	chr4:10446600-10454000	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
47	chr4:10446800-10449200	ZNF genes & repeats	Colonic Mucosa	Colon
48	chr4:10446800-10449800	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
49	chr4:10446800-10450400	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
50	chr4:10446800-10451000	ZNF genes & repeats	Stomach Smooth Muscle	stomach

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