Variant report

Variant	rs582052
Chromosome Location	chr10:6469155-6469156
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:6460876..6462689-chr10:6466756..6469527,2	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10906534	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10906557	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10906558	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10906559	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11591682	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11592152	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11599634	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12413321	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12784332	0.96[CEU][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1889001	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2093711	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2296126	0.87[GIH][hapmap]
rs4748073	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4750438	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56122085	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs588200	0.87[EUR][1000 genomes]
rs589142	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7070193	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7100817	1.00[CEU][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats 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	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv430125	chr10:6322167-6477267	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1053440	chr10:6354798-6669469	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	nsv1053177	chr10:6453307-6473114	Weak transcription Enhancers Strong transcription Bivalent Enhancer Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6452600-6478600	Weak transcription	Brain Anterior Caudate	brain
2	chr10:6452600-6481400	Weak transcription	Brain Substantia Nigra	brain
3	chr10:6453200-6469200	Weak transcription	Dnd41	blood
4	chr10:6453200-6470800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr10:6454000-6472800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr10:6456200-6496600	Weak transcription	Pancreas	Pancrea
7	chr10:6459800-6469200	Weak transcription	Fetal Muscle Leg	muscle
8	chr10:6459800-6472600	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr10:6460600-6481200	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr10:6460800-6472600	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr10:6461000-6469200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr10:6462400-6469200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr10:6464200-6487200	Strong transcription	Fetal Thymus	thymus
14	chr10:6464400-6485800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr10:6464600-6490600	Strong transcription	Primary T cells from cord blood	blood
16	chr10:6464800-6487400	Strong transcription	Thymus	Thymus
17	chr10:6465200-6469200	Weak transcription	Fetal Muscle Trunk	muscle
18	chr10:6465800-6481000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr10:6465800-6486600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr10:6465800-6496200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr10:6465800-6496600	Weak transcription	Psoas Muscle	Psoas
22	chr10:6465800-6501400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr10:6466000-6475000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr10:6466000-6486600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr10:6466200-6469800	Weak transcription	Brain Hippocampus Middle	brain
26	chr10:6466400-6487800	Weak transcription	Fetal Stomach	stomach
27	chr10:6467000-6469200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr10:6467000-6487200	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr10:6467200-6469200	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr10:6467400-6469200	Weak transcription	Brain Cingulate Gyrus	brain
31	chr10:6467400-6496200	Weak transcription	Lung	lung
32	chr10:6467600-6481000	Weak transcription	Fetal Intestine Small	intestine
33	chr10:6467600-6487600	Strong transcription	Primary T helper cells fromperipheralblood	blood
34	chr10:6467800-6469600	Genic enhancers	Skeletal Muscle Male	skeletal muscle
35	chr10:6467800-6471400	Strong transcription	Skeletal Muscle Female	skeletal muscle
36	chr10:6467800-6473600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr10:6467800-6486000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr10:6467800-6487000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr10:6467800-6487400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr10:6467800-6487600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr10:6468000-6473800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr10:6468000-6483800	Weak transcription	K562	blood
43	chr10:6468000-6487600	Strong transcription	Primary T helper cells PMA-I stimulated	--
44	chr10:6468000-6487800	Weak transcription	Brain Angular Gyrus	brain
45	chr10:6468200-6473600	Strong transcription	Primary hematopoietic stem cells	blood
46	chr10:6468200-6496800	Weak transcription	H1 Cell Line	embryonic stem cell
47	chr10:6468400-6477600	Weak transcription	Duodenum Mucosa	Duodenum
48	chr10:6468400-6478800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr10:6468400-6484600	Weak transcription	Spleen	Spleen
50	chr10:6469000-6471200	Strong transcription	Primary T killer memory cells from peripheral blood	blood

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