Variant report

Variant	rs1171490
Chromosome Location	chr10:22940973-22940974
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:22937664..22939892-chr10:22939931..22943485,3	MCF-7	breast:
2	chr10:22865070..22867317-chr10:22940531..22942326,2	MCF-7	breast:
3	chr10:22940458..22943239-chr10:22943736..22945993,2	K562	blood:
4	chr10:22938179..22940547-chr10:22940973..22943233,2	K562	blood:

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10764339	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10764344	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10828323	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10828324	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10828325	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10828328	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs11013052	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11013059	0.86[ASN][1000 genomes]
rs11013066	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11013067	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11013068	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11013077	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs11013082	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11013091	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1171489	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1171492	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1171493	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1171494	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1171497	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1171499	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1171503	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs1171504	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1171506	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1171509	0.91[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs12246676	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12253847	1.00[CHB][hapmap]
rs12354766	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12356117	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs12357289	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs12357384	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12357444	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12358560	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12770214	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12774725	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1326342	0.95[YRI][hapmap]
rs1343504	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1409393	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1409394	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1409395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1539628	0.82[EUR][1000 genomes]
rs1614387	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1620658	0.87[YRI][hapmap]
rs1750747	0.92[CEU][hapmap];0.95[EUR][1000 genomes]
rs1750748	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1750767	0.87[YRI][hapmap]
rs1750773	0.91[YRI][hapmap]
rs1750775	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs1750777	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1750778	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1778324	0.95[YRI][hapmap]
rs1778325	0.95[YRI][hapmap]
rs1778326	0.91[YRI][hapmap]
rs1778329	0.95[YRI][hapmap]
rs1778330	0.90[YRI][hapmap]
rs1778332	0.94[YRI][hapmap]
rs1778334	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1778335	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1778338	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1778339	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1778340	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1778342	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs1778345	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1778346	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1778347	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2031620	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2154053	0.92[CEU][hapmap];0.95[EUR][1000 genomes]
rs2559534	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2798981	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34208652	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34786070	0.90[ASN][1000 genomes]
rs35885150	0.86[ASN][1000 genomes]
rs7071306	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7912132	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7921549	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs943196	0.86[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs943197	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs943198	0.90[ASN][1000 genomes]
rs9645524	1.00[JPT][hapmap]

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	esv1830947	chr10:22881196-23004381	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv831809	chr10:22918101-23069676	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22915000-22951800	Weak transcription	Fetal Intestine Small	intestine
2	chr10:22927800-22942800	Enhancers	Brain Anterior Caudate	brain
3	chr10:22929600-22948400	Enhancers	Brain Cingulate Gyrus	brain
4	chr10:22931600-22941000	Enhancers	Brain Angular Gyrus	brain
5	chr10:22932400-22944200	Weak transcription	Brain Germinal Matrix	brain
6	chr10:22933600-22944200	Weak transcription	Fetal Stomach	stomach
7	chr10:22934800-22942400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr10:22935000-22945400	Enhancers	Primary B cells from peripheral blood	blood
9	chr10:22935200-22953000	Enhancers	Brain Substantia Nigra	brain
10	chr10:22936400-22958000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr10:22936600-22942000	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr10:22936600-22943800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr10:22936800-22941800	Weak transcription	Esophagus	oesophagus
14	chr10:22936800-22944600	Weak transcription	Gastric	stomach
15	chr10:22936800-22944800	Enhancers	Primary B cells from cord blood	blood
16	chr10:22937000-22941800	Weak transcription	Aorta	Aorta
17	chr10:22937000-22944800	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr10:22937400-22943200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr10:22937600-22944200	Weak transcription	NHLF	lung
20	chr10:22937800-22944400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr10:22937800-22947800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr10:22937800-22951200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:22937800-22955200	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr10:22938000-22944600	Weak transcription	Fetal Heart	heart
25	chr10:22938200-22947800	Weak transcription	NH-A	brain
26	chr10:22938400-22942000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr10:22938400-22942800	Enhancers	Spleen	Spleen
28	chr10:22938400-22943200	Weak transcription	Fetal Kidney	kidney
29	chr10:22938600-22941800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr10:22938600-22943600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr10:22938600-22944200	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr10:22938600-22944200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr10:22938600-22944200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr10:22938600-22944200	Weak transcription	Stomach Mucosa	stomach
35	chr10:22938600-22944400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr10:22938600-22944400	Weak transcription	Osteobl	bone
37	chr10:22938800-22941000	Weak transcription	Fetal Brain Male	brain
38	chr10:22938800-22941600	Genic enhancers	Primary T cells fromperipheralblood	blood
39	chr10:22938800-22941600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
40	chr10:22938800-22941600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
41	chr10:22938800-22941600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr10:22938800-22942000	Genic enhancers	Brain Hippocampus Middle	brain
43	chr10:22938800-22942200	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr10:22938800-22942200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr10:22938800-22943400	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr10:22938800-22943400	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr10:22938800-22943600	Weak transcription	Fetal Lung	lung
48	chr10:22938800-22944200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr10:22938800-22944600	Weak transcription	Colonic Mucosa	Colon
50	chr10:22938800-22946800	Enhancers	Primary hematopoietic stem cells	blood

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