Variant report

Variant	rs57572880
Chromosome Location	chr10:6334774-6334775
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:6332709..6335479-chr10:6337457..6338999,2	MCF-7	breast:
2	chr10:6320265..6323199-chr10:6333392..6336279,3	MCF-7	breast:
3	chr10:6333704..6336118-chr10:6337786..6340640,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs56719282	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56804401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57027903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57388231	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58167910	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60201304	1.00[EUR][1000 genomes]
rs61621320	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6602601	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv1041039	chr10:6217724-6354858	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv894836	chr10:6246678-6435374	Flanking Active TSS Strong transcription Weak transcription Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv430123	chr10:6309402-6448384	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	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

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6318000-6337600	Weak transcription	Primary B cells from cord blood	blood
2	chr10:6318200-6337800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr10:6322600-6337600	Weak transcription	Spleen	Spleen
4	chr10:6322600-6339000	Weak transcription	Esophagus	oesophagus
5	chr10:6332600-6335000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
6	chr10:6332600-6335200	Enhancers	Hela-S3	cervix
7	chr10:6332800-6335000	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr10:6332800-6335600	Enhancers	Monocytes-CD14+_RO01746	blood
9	chr10:6332800-6335800	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr10:6332800-6338800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr10:6333000-6335800	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr10:6333000-6341800	Weak transcription	NHDF-Ad	bronchial
13	chr10:6333400-6337600	Weak transcription	Small Intestine	intestine
14	chr10:6333400-6338400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr10:6333400-6338600	Weak transcription	NHEK	skin
16	chr10:6333400-6338800	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr10:6333400-6341000	Weak transcription	Thymus	Thymus
18	chr10:6333600-6337400	Weak transcription	Fetal Thymus	thymus
19	chr10:6333600-6338800	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr10:6333600-6339000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr10:6333600-6339000	Weak transcription	Adipose Nuclei	Adipose
22	chr10:6333800-6335000	Weak transcription	Fetal Kidney	kidney
23	chr10:6333800-6338200	Weak transcription	Duodenum Mucosa	Duodenum
24	chr10:6333800-6338600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr10:6333800-6338600	Weak transcription	HMEC	breast
26	chr10:6333800-6338800	Weak transcription	Stomach Mucosa	stomach
27	chr10:6333800-6339000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr10:6333800-6339000	Weak transcription	Brain Anterior Caudate	brain
29	chr10:6333800-6339000	Weak transcription	Fetal Lung	lung
30	chr10:6333800-6339000	Weak transcription	HepG2	liver
31	chr10:6333800-6339200	Weak transcription	Fetal Intestine Large	intestine
32	chr10:6333800-6339800	Weak transcription	Brain Substantia Nigra	brain
33	chr10:6333800-6341800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr10:6334000-6341000	Weak transcription	Dnd41	blood
35	chr10:6334000-6341600	Weak transcription	Primary T cells from cord blood	blood
36	chr10:6334000-6341600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr10:6334200-6339000	Weak transcription	Right Atrium	heart
38	chr10:6334200-6341200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr10:6334200-6341600	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr10:6334600-6334800	Enhancers	Primary hematopoietic stem cells	blood
41	chr10:6334600-6334800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
42	chr10:6334600-6334800	Enhancers	Fetal Intestine Small	intestine
43	chr10:6334600-6334800	Flanking Active TSS	A549	lung
44	chr10:6334600-6335200	Enhancers	Muscle Satellite Cultured Cells	--
45	chr10:6334600-6337400	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr10:6334600-6337600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr10:6334600-6341600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
48	chr10:6334600-6341600	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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