Variant report

Variant	rs154460
Chromosome Location	chr5:95217430-95217431
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:95209193..95210942-chr5:95216807..95218472,2	MCF-7	breast:
2	chr5:95211012..95214579-chr5:95216579..95219270,4	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10035477	0.85[CHB][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10069748	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10070197	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1043381	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1057963	0.81[EUR][1000 genomes]
rs1057964	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11135442	0.85[CHB][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11738768	0.81[EUR][1000 genomes]
rs11739652	0.81[EUR][1000 genomes]
rs11741563	0.82[EUR][1000 genomes]
rs11741590	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11744881	0.81[EUR][1000 genomes]
rs1423268	0.88[YRI][hapmap]
rs1458017	0.91[YRI][hapmap]
rs147295	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17085231	0.85[CHB][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17085249	0.81[EUR][1000 genomes]
rs1841010	0.80[EUR][1000 genomes]
rs2042340	0.81[EUR][1000 genomes]
rs2348984	0.86[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2546191	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3777196	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3777197	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3777200	0.81[EUR][1000 genomes]
rs3777201	0.81[EUR][1000 genomes]
rs3777202	0.81[EUR][1000 genomes]
rs3777203	0.81[EUR][1000 genomes]
rs3777204	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3815768	0.81[EUR][1000 genomes]
rs4642392	0.87[YRI][hapmap]
rs56156268	0.80[EUR][1000 genomes]
rs56219066	0.81[EUR][1000 genomes]
rs6556893	0.86[CHB][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6879652	0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6890954	0.86[CHB][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7702674	0.81[EUR][1000 genomes]
rs7716691	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs889302	0.81[YRI][hapmap]
rs967546	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015180	chr5:95134357-95286446	Strong transcription Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1019566	chr5:95180352-95300677	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:95206600-95218800	Weak transcription	HSMM	muscle
2	chr5:95207400-95218000	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr5:95207400-95219000	Weak transcription	Psoas Muscle	Psoas
4	chr5:95208800-95217600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr5:95210200-95220000	Weak transcription	Right Ventricle	heart
6	chr5:95210600-95221800	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr5:95211000-95218400	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr5:95212000-95224000	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr5:95212400-95223800	Weak transcription	Brain Substantia Nigra	brain
10	chr5:95212600-95219800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr5:95213000-95244600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr5:95214000-95219200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr5:95214200-95217800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr5:95214200-95218000	Enhancers	NHEK	skin
15	chr5:95214200-95219000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr5:95214400-95224800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr5:95214400-95234200	Weak transcription	Fetal Brain Female	brain
18	chr5:95214400-95247800	Weak transcription	Rectal Smooth Muscle	rectum
19	chr5:95214400-95251800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr5:95214600-95222000	Weak transcription	Left Ventricle	heart
21	chr5:95214600-95225000	Weak transcription	Duodenum Mucosa	Duodenum
22	chr5:95214600-95230400	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr5:95214800-95217600	Weak transcription	Right Atrium	heart
24	chr5:95214800-95217800	Weak transcription	Fetal Heart	heart
25	chr5:95214800-95219000	Weak transcription	K562	blood
26	chr5:95214800-95226000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr5:95215000-95230200	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr5:95215200-95223600	Weak transcription	A549	lung
29	chr5:95215200-95234200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr5:95215400-95217600	Weak transcription	Stomach Smooth Muscle	stomach
31	chr5:95215400-95219600	Weak transcription	Fetal Intestine Small	intestine
32	chr5:95215600-95217600	Weak transcription	Spleen	Spleen
33	chr5:95215600-95226000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr5:95215600-95226000	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr5:95215800-95218600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr5:95215800-95218800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr5:95215800-95218800	Weak transcription	Esophagus	oesophagus
38	chr5:95215800-95218800	Weak transcription	Gastric	stomach
39	chr5:95215800-95219000	Weak transcription	GM12878-XiMat	blood
40	chr5:95215800-95244600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr5:95216000-95219000	Weak transcription	HMEC	breast
42	chr5:95216200-95218600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr5:95216200-95221600	Enhancers	HepG2	liver
44	chr5:95216200-95222000	Weak transcription	Fetal Thymus	thymus
45	chr5:95216600-95217600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
46	chr5:95216600-95217600	Weak transcription	Pancreas	Pancrea
47	chr5:95216600-95220200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr5:95216600-95222000	Weak transcription	Fetal Intestine Large	intestine
49	chr5:95216600-95225800	Weak transcription	Colonic Mucosa	Colon
50	chr5:95216800-95223600	Weak transcription	Sigmoid Colon	Sigmoid Colon

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