Variant report

Variant	rs17361665
Chromosome Location	chr6:128738597-128738598
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:128738191..128740264-chr6:128840068..128842572,2	MCF-7	breast:
2	chr6:128737317..128738887-chr6:128739736..128742102,2	MCF-7	breast:
3	chr6:128733005..128734621-chr6:128736673..128739211,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152894	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10428737	0.87[EUR][1000 genomes]
rs11964875	0.80[CEU][hapmap]
rs1339193	0.81[CEU][hapmap]
rs1612415	0.91[CEU][hapmap]
rs17055604	0.83[CEU][hapmap]
rs17055719	0.83[CEU][hapmap]
rs17055854	0.87[EUR][1000 genomes]
rs17430298	1.00[CEU][hapmap]
rs17459362	0.81[EUR][1000 genomes]
rs1891146	0.87[EUR][1000 genomes]
rs1891147	0.87[EUR][1000 genomes]
rs1891148	0.84[EUR][1000 genomes]
rs4466261	0.91[CEU][hapmap]
rs58395468	0.87[EUR][1000 genomes]
rs66843622	0.87[EUR][1000 genomes]
rs6939023	0.81[EUR][1000 genomes]
rs722796	0.87[EUR][1000 genomes]
rs72972098	0.91[AMR][1000 genomes]
rs72974018	0.80[AMR][1000 genomes]
rs72974028	0.91[AMR][1000 genomes]
rs72974031	0.91[AMR][1000 genomes]
rs72974042	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72974046	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72974053	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72974060	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72974074	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72974081	0.94[EUR][1000 genomes]
rs7771630	0.81[CEU][hapmap]
rs961292	0.91[AMR][1000 genomes];0.87[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	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	nsv830800	chr6:128710631-128878435	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128688800-128738800	Weak transcription	Psoas Muscle	Psoas
2	chr6:128698800-128743200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:128703200-128743000	Weak transcription	Pancreas	Pancrea
4	chr6:128710200-128739800	Weak transcription	Fetal Intestine Large	intestine
5	chr6:128715600-128743000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr6:128716600-128739400	Weak transcription	Aorta	Aorta
7	chr6:128717200-128739600	Weak transcription	NH-A	brain
8	chr6:128722000-128738600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:128722400-128740000	Weak transcription	Right Ventricle	heart
10	chr6:128728200-128739000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr6:128728400-128738800	Weak transcription	Stomach Smooth Muscle	stomach
12	chr6:128728600-128739400	Weak transcription	Fetal Intestine Small	intestine
13	chr6:128728600-128742800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:128728800-128748000	Weak transcription	Ovary	ovary
15	chr6:128731000-128753400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:128732200-128738800	Weak transcription	Osteobl	bone
17	chr6:128732200-128739000	Weak transcription	Fetal Thymus	thymus
18	chr6:128732400-128739400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:128732400-128739400	Weak transcription	Left Ventricle	heart
20	chr6:128732400-128752400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr6:128732800-128742800	Weak transcription	Brain Angular Gyrus	brain
22	chr6:128734200-128748400	Weak transcription	Gastric	stomach
23	chr6:128734400-128738800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr6:128734600-128739400	Weak transcription	HSMM	muscle
25	chr6:128734800-128739400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr6:128734800-128742800	Weak transcription	Fetal Lung	lung
27	chr6:128735600-128739400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:128735600-128743400	Weak transcription	NHEK	skin
29	chr6:128736600-128739400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr6:128736800-128740000	Weak transcription	HepG2	liver
31	chr6:128737000-128739000	Weak transcription	Liver	Liver
32	chr6:128737200-128739400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr6:128737200-128742800	Weak transcription	Brain Hippocampus Middle	brain
34	chr6:128737400-128741800	Weak transcription	Brain Substantia Nigra	brain
35	chr6:128737800-128738600	Enhancers	Brain Anterior Caudate	brain
36	chr6:128738200-128739200	Enhancers	HSMMtube	muscle
37	chr6:128738400-128738800	Flanking Active TSS	Fetal Heart	heart

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