Variant report

Variant	rs17166414
Chromosome Location	chr5:98202363-98202364
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10039507	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs10040675	0.85[EUR][1000 genomes]
rs10041263	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs10041335	0.89[EUR][1000 genomes]
rs10054523	0.85[EUR][1000 genomes]
rs10055595	0.89[EUR][1000 genomes]
rs10056842	0.89[EUR][1000 genomes]
rs10056918	0.89[EUR][1000 genomes]
rs10061406	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs10062455	0.85[EUR][1000 genomes]
rs10064594	0.87[EUR][1000 genomes]
rs10065808	0.89[EUR][1000 genomes]
rs10067635	0.89[EUR][1000 genomes]
rs10067866	0.89[EUR][1000 genomes]
rs10068003	0.89[EUR][1000 genomes]
rs10068917	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs10077697	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10085106	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10085145	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10479350	0.80[EUR][1000 genomes]
rs10479351	0.85[EUR][1000 genomes]
rs10479352	0.85[EUR][1000 genomes]
rs10479353	0.80[EUR][1000 genomes]
rs10515284	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.82[EUR][1000 genomes]
rs11948998	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11952820	0.91[EUR][1000 genomes]
rs11953096	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11956636	1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes]
rs11958835	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs12332280	0.89[EUR][1000 genomes]
rs12332340	0.89[EUR][1000 genomes]
rs12332364	0.87[EUR][1000 genomes]
rs12332383	0.89[EUR][1000 genomes]
rs161742	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs17166423	1.00[CEU][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17166428	1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[TSI][hapmap];0.93[EUR][1000 genomes]
rs17166439	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs17166455	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs17166484	0.93[EUR][1000 genomes]
rs17166575	0.89[EUR][1000 genomes]
rs17166578	0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];0.85[EUR][1000 genomes]
rs17663317	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs2164986	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28555343	0.85[EUR][1000 genomes]
rs28656032	0.85[EUR][1000 genomes]
rs2963709	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs3179904	1.00[CEU][hapmap];1.00[MEX][hapmap];0.82[EUR][1000 genomes]
rs327810	0.91[EUR][1000 genomes]
rs36011435	1.00[EUR][1000 genomes]
rs44070	0.91[EUR][1000 genomes]
rs55780476	0.89[EUR][1000 genomes]
rs55821667	0.89[EUR][1000 genomes]
rs55854720	0.87[EUR][1000 genomes]
rs56086412	0.89[EUR][1000 genomes]
rs56096102	0.87[EUR][1000 genomes]
rs56115002	0.89[EUR][1000 genomes]
rs56153113	0.89[EUR][1000 genomes]
rs56159022	0.87[EUR][1000 genomes]
rs56160758	0.89[EUR][1000 genomes]
rs56232429	0.87[EUR][1000 genomes]
rs56246849	0.85[EUR][1000 genomes]
rs56331326	0.95[EUR][1000 genomes]
rs56331947	0.93[EUR][1000 genomes]
rs56400831	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58479016	0.89[EUR][1000 genomes]
rs58771325	0.83[EUR][1000 genomes]
rs6596659	0.85[EUR][1000 genomes]
rs6866527	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs6866629	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6867271	0.85[EUR][1000 genomes]
rs6880359	0.93[EUR][1000 genomes]
rs6883467	0.88[CEU][hapmap];0.89[EUR][1000 genomes]
rs6889590	0.80[AFR][1000 genomes]
rs6890358	0.89[EUR][1000 genomes]
rs6893282	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6895358	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs727637	1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[TSI][hapmap];0.93[EUR][1000 genomes]
rs73776004	0.81[EUR][1000 genomes]
rs73776005	0.81[EUR][1000 genomes]
rs73776017	0.93[EUR][1000 genomes]
rs73776027	0.93[EUR][1000 genomes]
rs73776028	0.93[EUR][1000 genomes]
rs7705786	0.82[EUR][1000 genomes]
rs7708436	0.93[EUR][1000 genomes]
rs7719375	0.85[EUR][1000 genomes]
rs7726329	0.93[EUR][1000 genomes]
rs7737402	0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];0.91[EUR][1000 genomes]
rs9327950	0.89[EUR][1000 genomes]
rs9327954	0.89[EUR][1000 genomes]
rs9327955	0.89[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	nsv882415	chr5:98134186-98312447	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv882416	chr5:98146106-98312447	Bivalent/Poised TSS Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:98180200-98213600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr5:98182400-98203600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr5:98182600-98205000	Weak transcription	NHEK	skin
4	chr5:98185200-98203400	Weak transcription	Pancreas	Pancrea
5	chr5:98186200-98213400	Weak transcription	Esophagus	oesophagus
6	chr5:98188400-98247000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:98189200-98205000	Weak transcription	NHLF	lung
8	chr5:98189400-98205800	Weak transcription	Fetal Heart	heart
9	chr5:98189400-98227400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr5:98189600-98213800	Weak transcription	HSMMtube	muscle
11	chr5:98189600-98215400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr5:98189600-98241000	Strong transcription	HUES48 Cell Line	embryonic stem cell
13	chr5:98189800-98241000	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr5:98189800-98241400	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr5:98189800-98241400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
16	chr5:98189800-98241800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:98190000-98203400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr5:98190000-98240600	Strong transcription	Primary neutrophils fromperipheralblood	blood
19	chr5:98190000-98240800	Strong transcription	Primary B cells from peripheral blood	blood
20	chr5:98190000-98240800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr5:98190200-98203600	Weak transcription	Right Ventricle	heart
22	chr5:98190200-98204200	Weak transcription	Brain Substantia Nigra	brain
23	chr5:98190200-98240600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr5:98190200-98240600	Strong transcription	Liver	Liver
25	chr5:98190200-98241000	Strong transcription	Primary monocytes fromperipheralblood	blood
26	chr5:98190400-98203400	Weak transcription	Spleen	Spleen
27	chr5:98190400-98203600	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr5:98190400-98203600	Weak transcription	Gastric	stomach
29	chr5:98190400-98205400	Weak transcription	Rectal Smooth Muscle	rectum
30	chr5:98190400-98212400	Weak transcription	Small Intestine	intestine
31	chr5:98190400-98213200	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr5:98190400-98214600	Weak transcription	Aorta	Aorta
33	chr5:98190400-98224200	Strong transcription	Placenta	Placenta
34	chr5:98190400-98234600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr5:98190400-98238200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr5:98190400-98238800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr5:98190400-98240000	Weak transcription	Stomach Mucosa	stomach
38	chr5:98190400-98240400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr5:98190400-98240600	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr5:98190400-98240800	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr5:98190400-98241200	Strong transcription	Fetal Thymus	thymus
42	chr5:98190400-98243800	Strong transcription	Dnd41	blood
43	chr5:98190600-98209400	Strong transcription	Cortex derived primary cultured neurospheres	brain
44	chr5:98190600-98240600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr5:98190600-98240800	Strong transcription	Primary T helper cells fromperipheralblood	blood
46	chr5:98190600-98240800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr5:98190600-98241000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr5:98190800-98203600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr5:98190800-98209800	Strong transcription	Adipose Nuclei	Adipose
50	chr5:98190800-98216200	Strong transcription	Primary T helper cells PMA-I stimulated	--

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