Variant report

Variant	rs10431509
Chromosome Location	chr12:62705886-62705887
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:62700290..62703932-chr12:62705141..62707434,3	MCF-7	breast:
2	chr12:62704272..62709649-chr12:62710111..62714099,4	K562	blood:

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10160868	0.82[AFR][1000 genomes]
rs10160955	0.82[AFR][1000 genomes]
rs10431510	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10431565	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10459253	0.91[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs10506440	0.89[JPT][hapmap];0.91[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10747958	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10784292	0.86[JPT][hapmap];0.89[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs10877819	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10877820	0.89[JPT][hapmap];0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10877824	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10877826	0.86[JPT][hapmap];0.89[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10877829	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10877831	0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10877834	0.89[JPT][hapmap];0.84[AFR][1000 genomes]
rs11174397	0.89[JPT][hapmap];0.87[AFR][1000 genomes]
rs11174398	0.89[JPT][hapmap];0.86[AFR][1000 genomes]
rs11174399	0.82[JPT][hapmap];0.87[AFR][1000 genomes]
rs11174401	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11174404	0.81[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11174408	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11174409	0.83[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs11174410	0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs11174411	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11174412	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11174416	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11174417	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11174418	0.91[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs11174420	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11174423	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11174424	0.88[CHB][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11174428	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11174431	0.89[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs11174433	0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11174435	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11174436	0.89[JPT][hapmap];0.89[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs11174437	0.89[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs11174438	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11174446	0.89[JPT][hapmap]
rs11174449	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11174458	0.89[JPT][hapmap];0.84[AFR][1000 genomes]
rs11504121	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11504122	0.87[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs11561463	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11830242	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11836268	0.89[JPT][hapmap];0.87[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12228015	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12229271	0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs12231778	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12297474	0.88[JPT][hapmap];0.91[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12297480	0.82[AFR][1000 genomes]
rs12299072	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12306066	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12307900	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12308455	0.82[AFR][1000 genomes]
rs12310318	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12310616	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12310651	0.89[JPT][hapmap];0.89[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12311259	0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs12311279	0.88[JPT][hapmap];0.87[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs12315645	0.91[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12317437	0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs12318287	0.84[JPT][hapmap];0.89[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1376342	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1496859	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1901239	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2122660	0.81[AFR][1000 genomes]
rs2131434	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2131435	0.91[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2132651	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2167287	0.89[JPT][hapmap];0.84[AFR][1000 genomes]
rs2242032	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs28526400	0.89[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs35634758	0.89[ASN][1000 genomes]
rs3803106	0.89[JPT][hapmap];0.88[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs6581444	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs66507062	0.84[AFR][1000 genomes]
rs67044039	0.91[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs67853252	0.91[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs7132814	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7133294	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7137068	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7295013	0.88[JPT][hapmap];0.93[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs7298827	0.86[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs7300928	0.89[JPT][hapmap];0.93[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs7302033	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7302617	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7309209	0.89[JPT][hapmap]
rs73136889	0.82[AFR][1000 genomes]
rs73321563	0.89[AFR][1000 genomes]
rs767391	0.89[JPT][hapmap];0.89[AFR][1000 genomes]
rs7953967	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7956332	0.89[AFR][1000 genomes]
rs7963950	0.89[JPT][hapmap];0.84[AFR][1000 genomes]
rs7965326	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7971588	0.84[AFR][1000 genomes]
rs7974973	0.86[AFR][1000 genomes]
rs7976058	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7976608	0.89[JPT][hapmap];0.83[AFR][1000 genomes]
rs902971	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9634284	0.89[JPT][hapmap];0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035150	chr12:62615347-62785005	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv1049465	chr12:62657011-62785005	Weak transcription ZNF genes & repeats Enhancers Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv1053403	chr12:62657011-62809413	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv530690	chr12:62678463-62999462	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription 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 miRNA target site	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:62684000-62716200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr12:62686200-62720200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr12:62686400-62736400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr12:62687200-62718200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr12:62687400-62720600	Weak transcription	Right Ventricle	heart
6	chr12:62689400-62716000	Weak transcription	Colonic Mucosa	Colon
7	chr12:62689600-62717400	Weak transcription	Brain Angular Gyrus	brain
8	chr12:62691200-62716400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr12:62691200-62736400	Weak transcription	Esophagus	oesophagus
10	chr12:62691200-62736600	Weak transcription	Lung	lung
11	chr12:62691800-62706000	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr12:62693200-62711800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr12:62696200-62706400	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr12:62698400-62717600	Weak transcription	Brain Germinal Matrix	brain
15	chr12:62698400-62741800	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr12:62698600-62707600	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr12:62698600-62707800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr12:62698600-62707800	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr12:62698600-62712000	Weak transcription	Small Intestine	intestine
20	chr12:62698600-62715200	Weak transcription	Colon Smooth Muscle	Colon
21	chr12:62698600-62716400	Weak transcription	HepG2	liver
22	chr12:62698600-62720800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr12:62698600-62725800	Weak transcription	Brain Cingulate Gyrus	brain
24	chr12:62698600-62745800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr12:62698800-62728600	Weak transcription	Fetal Heart	heart
26	chr12:62699400-62707800	Weak transcription	NHDF-Ad	bronchial
27	chr12:62699800-62715200	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr12:62699800-62715400	Weak transcription	Rectal Smooth Muscle	rectum
29	chr12:62699800-62736400	Weak transcription	Aorta	Aorta
30	chr12:62700000-62711800	Weak transcription	Ovary	ovary
31	chr12:62700000-62715200	Weak transcription	Brain Anterior Caudate	brain
32	chr12:62700000-62715400	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr12:62700000-62719000	Weak transcription	Fetal Brain Female	brain
34	chr12:62700000-62726600	Weak transcription	HSMMtube	muscle
35	chr12:62700000-62736400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr12:62700000-62736400	Weak transcription	Fetal Stomach	stomach
37	chr12:62700000-62737000	Weak transcription	NHLF	lung
38	chr12:62700000-62757000	Weak transcription	HUVEC	blood vessel
39	chr12:62700200-62707800	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr12:62700200-62711400	Weak transcription	Hela-S3	cervix
41	chr12:62700200-62712600	Weak transcription	Brain Hippocampus Middle	brain
42	chr12:62700200-62715000	Weak transcription	NH-A	brain
43	chr12:62700200-62715400	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr12:62700200-62716000	Weak transcription	Osteobl	bone
45	chr12:62700200-62716400	Weak transcription	Brain Substantia Nigra	brain
46	chr12:62700200-62717800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr12:62700600-62716000	Weak transcription	HMEC	breast
48	chr12:62701000-62712800	Weak transcription	Fetal Intestine Small	intestine
49	chr12:62701600-62709600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr12:62701600-62712000	Weak transcription	Muscle Satellite Cultured Cells	--

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