Variant report

Variant	rs58102543
Chromosome Location	chr6:5630399-5630400
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:5626232..5628158-chr6:5628361..5630741,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11962925	1.00[ASN][1000 genomes]
rs11963668	1.00[ASN][1000 genomes]
rs11963691	1.00[ASN][1000 genomes]
rs11963854	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11964213	1.00[ASN][1000 genomes]
rs11966192	1.00[ASN][1000 genomes]
rs2326631	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60597164	0.92[EUR][1000 genomes]
rs6930787	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73360254	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73360255	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7743117	1.00[ASN][1000 genomes]
rs7760430	1.00[ASN][1000 genomes]
rs876783	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs876784	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916361	chr6:5315853-5695486	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv600887	chr6:5545046-5694713	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1016905	chr6:5566364-5639167	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1015549	chr6:5593965-5630468	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5577400-5639800	Weak transcription	Fetal Intestine Small	intestine
2	chr6:5581000-5640400	Weak transcription	Gastric	stomach
3	chr6:5610600-5641000	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:5612600-5640000	Weak transcription	Fetal Stomach	stomach
5	chr6:5613200-5640400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:5614400-5639000	Weak transcription	Lung	lung
7	chr6:5614600-5636600	Weak transcription	Pancreas	Pancrea
8	chr6:5614600-5640000	Weak transcription	Duodenum Mucosa	Duodenum
9	chr6:5614600-5640400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr6:5619800-5636800	Weak transcription	Fetal Muscle Trunk	muscle
11	chr6:5620000-5640400	Weak transcription	Spleen	Spleen
12	chr6:5625400-5630800	Weak transcription	Fetal Heart	heart
13	chr6:5625800-5634600	Weak transcription	Right Atrium	heart
14	chr6:5625800-5636600	Weak transcription	Fetal Muscle Leg	muscle
15	chr6:5626600-5631000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:5626600-5632200	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr6:5627400-5640000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:5627400-5640400	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr6:5627800-5639800	Weak transcription	Thymus	Thymus
20	chr6:5627800-5640400	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr6:5627800-5640800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr6:5628200-5639600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:5628200-5639800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr6:5628200-5640400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr6:5628600-5640200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr6:5629000-5630600	Strong transcription	Primary B cells from cord blood	blood
27	chr6:5629200-5639000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr6:5629200-5639800	Weak transcription	Aorta	Aorta
29	chr6:5629200-5640200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr6:5629200-5645600	Weak transcription	Right Ventricle	heart
31	chr6:5629400-5630400	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr6:5629400-5640000	Weak transcription	Primary T cells from cord blood	blood
33	chr6:5629600-5630400	Weak transcription	GM12878-XiMat	blood
34	chr6:5630200-5631000	Enhancers	Left Ventricle	heart

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