Variant report

Variant	rs17669102
Chromosome Location	chr6:16687493-16687494
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:16685801..16692739-chr6:16758144..16765867,9	MCF-7	breast:
2	chr6:16676211..16678704-chr6:16685852..16687907,2	MCF-7	breast:
3	chr6:16686582..16688248-chr6:16689561..16691595,2	MCF-7	breast:
4	chr6:16686617..16690881-chr6:16767347..16770603,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229931	Chromatin interaction
ENSG00000124788	Chromatin interaction
ENSG00000272341	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10484365	1.00[CHD][hapmap]
rs1535602	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16878738	1.00[CHD][hapmap]
rs17667167	1.00[ASN][1000 genomes]
rs2209026	1.00[CHD][hapmap]
rs2327995	0.82[ASW][hapmap];0.95[CEU][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.95[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	nsv532022	chr6:16448152-16825567	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031423	chr6:16467215-16823725	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1015992	chr6:16469059-16846847	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv538148	chr6:16469059-16846847	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:16662200-16699600	Weak transcription	Fetal Intestine Large	intestine
2	chr6:16662400-16699600	Weak transcription	Fetal Intestine Small	intestine
3	chr6:16671400-16694800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr6:16671800-16687600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr6:16673200-16700400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:16678000-16687600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr6:16678000-16700400	Weak transcription	Ovary	ovary
8	chr6:16681800-16693000	Weak transcription	Gastric	stomach
9	chr6:16683400-16688800	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr6:16683600-16691200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr6:16683800-16687600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr6:16684200-16690400	Weak transcription	Esophagus	oesophagus
13	chr6:16684400-16689000	Weak transcription	Brain Angular Gyrus	brain
14	chr6:16684400-16693000	Weak transcription	Spleen	Spleen
15	chr6:16684400-16695200	Weak transcription	Fetal Muscle Leg	muscle
16	chr6:16684600-16695000	Weak transcription	Right Ventricle	heart
17	chr6:16684800-16688600	Weak transcription	HUVEC	blood vessel
18	chr6:16684800-16689000	Weak transcription	Thymus	Thymus
19	chr6:16684800-16690400	Weak transcription	Brain Hippocampus Middle	brain
20	chr6:16684800-16691000	Weak transcription	Lung	lung
21	chr6:16684800-16698000	Weak transcription	Fetal Stomach	stomach
22	chr6:16685000-16687800	Weak transcription	Brain Substantia Nigra	brain
23	chr6:16685000-16688200	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr6:16685000-16700800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr6:16685400-16688200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr6:16685400-16695000	Weak transcription	Right Atrium	heart
27	chr6:16685400-16697800	Weak transcription	Liver	Liver
28	chr6:16685600-16688600	Weak transcription	Adipose Nuclei	Adipose
29	chr6:16685600-16688800	Weak transcription	HSMMtube	muscle
30	chr6:16685600-16689200	Weak transcription	Left Ventricle	heart
31	chr6:16685600-16691000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr6:16685600-16691200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr6:16685600-16697800	Weak transcription	Fetal Lung	lung
34	chr6:16685600-16699800	Weak transcription	Primary T cells from cord blood	blood
35	chr6:16685800-16687600	Weak transcription	Stomach Mucosa	stomach
36	chr6:16685800-16688000	Weak transcription	Primary B cells from cord blood	blood
37	chr6:16685800-16688600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr6:16685800-16688600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr6:16685800-16688600	Weak transcription	NH-A	brain
40	chr6:16685800-16688800	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr6:16685800-16688800	Weak transcription	HSMM	muscle
42	chr6:16685800-16689000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:16685800-16689000	Weak transcription	Hela-S3	cervix
44	chr6:16685800-16690400	Weak transcription	Primary B cells from peripheral blood	blood
45	chr6:16685800-16690400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr6:16685800-16690600	Weak transcription	Small Intestine	intestine
47	chr6:16685800-16695200	Weak transcription	Psoas Muscle	Psoas
48	chr6:16686000-16687600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr6:16686000-16688400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr6:16686000-16688400	Weak transcription	HMEC	breast

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