Variant report

Variant	rs9290213
Chromosome Location	chr3:100478751-100478752
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:100476994..100479281-chr3:100486300..100488381,2	K562	blood:
2	chr3:100473925..100475796-chr3:100476025..100478809,2	MCF-7	breast:
3	chr3:100477781..100481491-chr3:100485242..100489259,3	K562	blood:
4	chr3:100468860..100470969-chr3:100476440..100479062,2	K562	blood:
5	chr3:100477399..100478933-chr3:100482930..100484757,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000154175	Chromatin interaction

Extended variants
information (count: 160 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:157)

rs_ID	r²[population]
rs1027703	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10451918	1.00[CEU][hapmap]
rs1144116	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs1144117	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs1144118	0.84[EUR][1000 genomes]
rs1144119	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs1144121	0.84[EUR][1000 genomes]
rs1145344	0.84[EUR][1000 genomes]
rs1319005	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13315123	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13316513	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13317522	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13317752	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13318765	1.00[AMR][1000 genomes]
rs13318793	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13319530	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13325014	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13326828	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13327329	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13433681	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13433684	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13434023	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16842455	0.91[EUR][1000 genomes]
rs16842458	0.91[EUR][1000 genomes]
rs16842471	0.91[EUR][1000 genomes]
rs16842472	0.91[EUR][1000 genomes]
rs16842478	0.91[EUR][1000 genomes]
rs16842638	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs16842679	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16842705	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16847405	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2128224	0.83[AMR][1000 genomes]
rs2128225	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2128226	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28380383	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28469597	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28523825	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28530760	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35606932	0.91[EUR][1000 genomes]
rs35648279	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41272969	0.91[EUR][1000 genomes]
rs41272973	0.91[EUR][1000 genomes]
rs41272977	0.91[EUR][1000 genomes]
rs41272979	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41272989	0.91[EUR][1000 genomes]
rs41273547	0.91[EUR][1000 genomes]
rs4317136	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55865709	0.91[EUR][1000 genomes]
rs56254963	0.91[EUR][1000 genomes]
rs56384617	0.91[EUR][1000 genomes]
rs57687306	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57808154	0.91[EUR][1000 genomes]
rs58073790	0.91[EUR][1000 genomes]
rs58121738	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59374249	0.91[EUR][1000 genomes]
rs60162187	1.00[AMR][1000 genomes]
rs60359060	0.91[EUR][1000 genomes]
rs72917383	0.83[AMR][1000 genomes]
rs72919417	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72919423	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72919426	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72919429	1.00[AMR][1000 genomes]
rs72919433	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72928625	1.00[AMR][1000 genomes]
rs72928626	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72928628	1.00[AMR][1000 genomes]
rs72928630	1.00[AMR][1000 genomes]
rs72928632	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72928634	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72928641	1.00[AMR][1000 genomes]
rs72928658	1.00[AMR][1000 genomes]
rs72928662	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72928677	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72928680	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72928681	1.00[AMR][1000 genomes]
rs72928697	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72928698	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72928991	1.00[AMR][1000 genomes]
rs72929000	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72930607	0.83[AMR][1000 genomes]
rs72930614	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72930617	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72930638	1.00[AMR][1000 genomes]
rs72930658	0.91[EUR][1000 genomes]
rs72930661	0.91[EUR][1000 genomes]
rs72930666	0.91[EUR][1000 genomes]
rs72930669	0.91[EUR][1000 genomes]
rs72930671	0.91[EUR][1000 genomes]
rs72930673	0.91[EUR][1000 genomes]
rs72930674	0.91[EUR][1000 genomes]
rs72930679	0.91[EUR][1000 genomes]
rs72930703	1.00[AMR][1000 genomes]
rs72930713	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72930716	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72930730	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72930734	1.00[AMR][1000 genomes]
rs7628074	0.91[EUR][1000 genomes]
rs7628965	0.91[EUR][1000 genomes]
rs7637207	0.91[EUR][1000 genomes]
rs7647983	0.91[EUR][1000 genomes]
rs9290170	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9631470	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs967308	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs967309	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9809520	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs9811997	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9813673	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9813730	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9817424	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9817550	1.00[AMR][1000 genomes]
rs9817756	1.00[AMR][1000 genomes]
rs9817778	1.00[CEU][hapmap]
rs9818055	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9818126	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9822139	0.83[AMR][1000 genomes]
rs9823506	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9824297	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9825075	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9826446	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9832907	1.00[EUR][1000 genomes]
rs9833043	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9833524	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9834987	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9839133	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9840416	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9842040	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9843775	0.83[AMR][1000 genomes]
rs9849252	0.83[AMR][1000 genomes]
rs9850735	1.00[AMR][1000 genomes]
rs9851573	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9853377	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9853496	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9853591	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9853596	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9855255	1.00[AMR][1000 genomes]
rs9856442	1.00[EUR][1000 genomes]
rs9856776	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9859204	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9859445	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9859523	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9859730	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9861416	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9864113	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9865004	1.00[AMR][1000 genomes]
rs9866866	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9867888	1.00[CEU][hapmap]
rs9868472	1.00[AMR][1000 genomes]
rs9870028	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9871767	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9876678	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9877317	0.91[EUR][1000 genomes]
rs9877865	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9878155	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9879396	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9881780	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9881943	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9883418	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2751969	chr3:100312499-100479384	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	esv2751972	chr3:100342493-100493062	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv432469	chr3:100342493-100493062	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100441000-100479400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:100450000-100501000	Weak transcription	Esophagus	oesophagus
3	chr3:100453200-100479000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr3:100457200-100480200	Weak transcription	Brain Angular Gyrus	brain
5	chr3:100467400-100497600	Weak transcription	Fetal Intestine Small	intestine
6	chr3:100468200-100488600	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:100469400-100480200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:100469600-100479200	Weak transcription	Fetal Brain Male	brain
9	chr3:100469800-100498200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr3:100469800-100501400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr3:100470200-100498400	Weak transcription	Right Ventricle	heart
12	chr3:100471000-100495800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr3:100471200-100480200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:100471600-100500400	Weak transcription	Lung	lung
15	chr3:100471800-100479400	Weak transcription	Fetal Kidney	kidney
16	chr3:100471800-100486200	Weak transcription	Brain Substantia Nigra	brain
17	chr3:100471800-100494600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr3:100471800-100502000	Weak transcription	Brain Anterior Caudate	brain
19	chr3:100472600-100484600	Weak transcription	NHEK	skin
20	chr3:100472800-100482800	Weak transcription	NHLF	lung
21	chr3:100472800-100494400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr3:100473000-100479800	Weak transcription	GM12878-XiMat	blood
23	chr3:100473000-100480400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr3:100473400-100480200	Weak transcription	A549	lung
25	chr3:100473400-100488400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr3:100473600-100480000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr3:100473600-100488600	Weak transcription	Fetal Muscle Trunk	muscle
28	chr3:100473600-100488800	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr3:100473600-100489200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr3:100473800-100484600	Weak transcription	HMEC	breast
31	chr3:100473800-100496400	Weak transcription	Fetal Intestine Large	intestine
32	chr3:100474000-100488800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr3:100474200-100482400	Weak transcription	Stomach Smooth Muscle	stomach
34	chr3:100474400-100478800	Weak transcription	Duodenum Mucosa	Duodenum
35	chr3:100474400-100480600	Weak transcription	Primary T cells from cord blood	blood
36	chr3:100474400-100484800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr3:100474400-100494200	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr3:100474400-100500200	Weak transcription	HSMM	muscle
39	chr3:100474400-100501200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
40	chr3:100474800-100482800	Weak transcription	HSMMtube	muscle
41	chr3:100475000-100488000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr3:100475000-100499000	Weak transcription	Placenta	Placenta
43	chr3:100475600-100485600	Weak transcription	Left Ventricle	heart
44	chr3:100475600-100487600	Weak transcription	NHDF-Ad	bronchial
45	chr3:100475600-100520000	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr3:100475800-100479400	Weak transcription	Adipose Nuclei	Adipose
47	chr3:100477200-100480400	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr3:100477200-100484800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr3:100477400-100480400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr3:100477600-100479000	Genic enhancers	Osteobl	bone

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