Variant report

Variant	rs6602704
Chromosome Location	chr10:6487145-6487146
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:6486742..6489552-chr10:6709675..6712349,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs45597734	0.90[ASN][1000 genomes]
rs4750429	0.82[EUR][1000 genomes]
rs4750432	0.82[EUR][1000 genomes]
rs539103	0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs542817	0.85[JPT][hapmap]
rs593608	1.00[EUR][1000 genomes]
rs601512	1.00[EUR][1000 genomes]
rs602419	0.90[EUR][1000 genomes]
rs615256	1.00[EUR][1000 genomes]
rs616080	1.00[EUR][1000 genomes]
rs618020	0.85[JPT][hapmap]
rs619761	0.90[EUR][1000 genomes]
rs629244	1.00[EUR][1000 genomes]
rs630196	1.00[EUR][1000 genomes]
rs636819	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs637297	1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs644180	0.82[JPT][hapmap]
rs648072	0.90[EUR][1000 genomes]
rs651486	1.00[EUR][1000 genomes]
rs658344	1.00[EUR][1000 genomes]
rs663532	1.00[EUR][1000 genomes]
rs73605105	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	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

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6456200-6496600	Weak transcription	Pancreas	Pancrea
2	chr10:6464200-6487200	Strong transcription	Fetal Thymus	thymus
3	chr10:6464600-6490600	Strong transcription	Primary T cells from cord blood	blood
4	chr10:6464800-6487400	Strong transcription	Thymus	Thymus
5	chr10:6465800-6496200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr10:6465800-6496600	Weak transcription	Psoas Muscle	Psoas
7	chr10:6465800-6501400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr10:6466400-6487800	Weak transcription	Fetal Stomach	stomach
9	chr10:6467000-6487200	Strong transcription	Primary T cells fromperipheralblood	blood
10	chr10:6467400-6496200	Weak transcription	Lung	lung
11	chr10:6467600-6487600	Strong transcription	Primary T helper cells fromperipheralblood	blood
12	chr10:6467800-6487400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr10:6467800-6487600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr10:6468000-6487600	Strong transcription	Primary T helper cells PMA-I stimulated	--
15	chr10:6468000-6487800	Weak transcription	Brain Angular Gyrus	brain
16	chr10:6468200-6496800	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr10:6471200-6490200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr10:6473600-6487800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr10:6474200-6490400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr10:6474400-6487400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr10:6477400-6487800	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr10:6477400-6503600	Weak transcription	Gastric	stomach
23	chr10:6478800-6491000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr10:6479200-6487400	Weak transcription	Brain Anterior Caudate	brain
25	chr10:6479800-6487800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr10:6480200-6501000	Weak transcription	Ovary	ovary
27	chr10:6480800-6497600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr10:6481200-6500200	Weak transcription	Fetal Intestine Small	intestine
29	chr10:6481400-6497800	Weak transcription	Fetal Muscle Trunk	muscle
30	chr10:6483200-6487600	Weak transcription	Brain Substantia Nigra	brain
31	chr10:6484000-6489400	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr10:6484000-6489400	Weak transcription	Fetal Muscle Leg	muscle
33	chr10:6484000-6496200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr10:6484200-6487800	Weak transcription	Brain Cingulate Gyrus	brain
35	chr10:6484200-6487800	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr10:6484200-6496200	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr10:6484200-6496400	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr10:6484400-6487800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr10:6484600-6487800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr10:6484600-6489400	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr10:6484600-6496600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr10:6484800-6487400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr10:6485400-6487800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr10:6485400-6487800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr10:6485400-6487800	Weak transcription	K562	blood
46	chr10:6485600-6487800	Weak transcription	Primary hematopoietic stem cells	blood
47	chr10:6485600-6487800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr10:6485800-6487400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr10:6485800-6487800	Weak transcription	Brain Hippocampus Middle	brain
50	chr10:6485800-6488600	Weak transcription	Aorta	Aorta

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