Variant report

Variant	rs6446559
Chromosome Location	chr4:7011186-7011187
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	chr4:7000584..7003824-chr4:7009123..7012546,3	MCF-7	breast:
2	chr4:7004705..7009453-chr4:7009806..7014166,7	K562	blood:

Variant related genes	Relation type
ENSG00000132405	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10012590	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10025310	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10516181	0.81[ASN][1000 genomes]
rs10937776	0.81[ASN][1000 genomes]
rs11938701	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11944897	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12503027	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12512484	0.80[ASN][1000 genomes]
rs13107989	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13122119	0.80[ASN][1000 genomes]
rs13148395	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs13149411	0.80[ASN][1000 genomes]
rs13149923	0.87[ASN][1000 genomes]
rs2301817	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2301818	0.93[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2301819	0.93[ASN][1000 genomes]
rs2359194	0.81[ASN][1000 genomes]
rs3188939	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34221933	0.86[ASN][1000 genomes]
rs34335938	0.80[ASN][1000 genomes]
rs34379427	0.80[ASN][1000 genomes]
rs34463709	0.80[ASN][1000 genomes]
rs34481892	0.80[ASN][1000 genomes]
rs34860182	0.80[ASN][1000 genomes]
rs34959511	0.80[ASN][1000 genomes]
rs34990775	0.80[ASN][1000 genomes]
rs35170004	0.80[ASN][1000 genomes]
rs35680216	0.87[ASN][1000 genomes]
rs3857171	0.81[ASN][1000 genomes]
rs3894945	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4234791	0.80[ASN][1000 genomes]
rs4234793	0.86[ASN][1000 genomes]
rs4544710	0.86[ASN][1000 genomes]
rs4689056	0.80[ASN][1000 genomes]
rs4689560	0.80[ASN][1000 genomes]
rs4689563	0.80[ASN][1000 genomes]
rs4689564	0.80[ASN][1000 genomes]
rs4689565	0.80[ASN][1000 genomes]
rs4689575	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4689577	0.84[EUR][1000 genomes]
rs4689579	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62289166	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs66530709	0.80[ASN][1000 genomes]
rs66640699	0.80[ASN][1000 genomes]
rs66841627	0.87[ASN][1000 genomes]
rs66931928	0.80[ASN][1000 genomes]
rs66992702	0.80[ASN][1000 genomes]
rs6811496	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6818744	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6834102	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6839250	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6840780	0.86[ASN][1000 genomes]
rs6854776	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7655773	0.86[ASN][1000 genomes]
rs7661952	0.86[ASN][1000 genomes]
rs7673901	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7685667	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7693321	0.81[ASN][1000 genomes]
rs9291126	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	esv34033	chr4:6973270-7390621	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv2757919	chr4:6988148-7269901	Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	esv2759221	chr4:6988148-7269901	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	nsv428436	chr4:6988148-7269901	Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv593547	chr4:7002344-7032180	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv469847	chr4:7003525-7168441	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
8	nsv878531	chr4:7006541-7129556	Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv878532	chr4:7010504-7055603	Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:6991000-7021800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:6994000-7035600	Strong transcription	Fetal Stomach	stomach
3	chr4:6994000-7043200	Weak transcription	Right Atrium	heart
4	chr4:6994200-7035400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr4:6994400-7013400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr4:6994600-7021400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:6995000-7020800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr4:6995400-7013600	Strong transcription	Fetal Thymus	thymus
9	chr4:6995800-7032800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr4:6996000-7014800	Strong transcription	Primary B cells from peripheral blood	blood
11	chr4:6996000-7035200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr4:6996400-7034800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr4:6996600-7021400	Strong transcription	Brain Germinal Matrix	brain
14	chr4:6997800-7013800	Strong transcription	Thymus	Thymus
15	chr4:7000200-7021600	Strong transcription	Duodenum Smooth Muscle	Duodenum
16	chr4:7000600-7034400	Strong transcription	Dnd41	blood
17	chr4:7001400-7034600	Strong transcription	Primary T cells from cord blood	blood
18	chr4:7001600-7017200	Strong transcription	Placenta	Placenta
19	chr4:7001600-7035200	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr4:7001600-7035400	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr4:7001800-7020000	Strong transcription	Primary T helper cells PMA-I stimulated	--
22	chr4:7001800-7029000	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr4:7001800-7035000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr4:7002000-7034400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr4:7002200-7020600	Strong transcription	Primary T helper cells fromperipheralblood	blood
26	chr4:7002200-7035400	Strong transcription	Primary neutrophils fromperipheralblood	blood
27	chr4:7002400-7034400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr4:7003400-7013800	Strong transcription	Spleen	Spleen
29	chr4:7003600-7032600	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr4:7004000-7014800	Weak transcription	Fetal Lung	lung
31	chr4:7004400-7011600	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr4:7004400-7016200	Weak transcription	Fetal Kidney	kidney
33	chr4:7005400-7012400	Weak transcription	HUVEC	blood vessel
34	chr4:7006000-7015400	Strong transcription	HSMM	muscle
35	chr4:7006400-7012400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr4:7006400-7014800	Weak transcription	Right Ventricle	heart
37	chr4:7006400-7016000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr4:7006600-7021800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr4:7007400-7013400	Strong transcription	GM12878-XiMat	blood
40	chr4:7007600-7022000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr4:7007800-7013200	Strong transcription	Brain Anterior Caudate	brain
42	chr4:7008000-7013200	Strong transcription	Primary B cells from cord blood	blood
43	chr4:7008000-7017800	Strong transcription	Colon Smooth Muscle	Colon
44	chr4:7008000-7018400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr4:7008000-7022200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr4:7008200-7015400	Strong transcription	A549	lung
47	chr4:7008200-7019600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr4:7008200-7022000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr4:7008200-7034600	Strong transcription	Fetal Brain Female	brain
50	chr4:7008200-7035200	Strong transcription	Rectal Mucosa Donor 29	rectum

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