Variant report

Variant	rs10161549
Chromosome Location	chr12:62988288-62988289
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	chr12:62982029..62985002-chr12:62986611..62990117,5	K562	blood:
2	chr12:62987951..62990003-chr12:62990210..62991811,2	MCF-7	breast:

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10128830	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.98[LWK][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10128959	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10219555	0.94[ASW][hapmap];0.84[CEU][hapmap];0.88[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.95[LWK][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];0.92[YRI][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10219765	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10735907	0.85[EUR][1000 genomes]
rs10735909	0.85[EUR][1000 genomes]
rs10747963	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs10747966	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10784299	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10784302	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10784303	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10784306	0.96[CEU][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10784307	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10877860	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10877863	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10877865	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10877866	0.84[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.82[YRI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10877868	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10877869	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10877872	0.89[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs10877873	0.87[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10877876	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10877878	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10877880	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10877882	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10877883	0.92[CEU][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10877885	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10877886	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10877887	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10877888	0.81[CEU][hapmap];0.95[CHB][hapmap];0.89[MKK][hapmap];0.86[ASN][1000 genomes]
rs11174493	0.92[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.82[YRI][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11174497	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11174507	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11174513	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11174520	0.84[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11174534	0.88[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11174538	0.89[CHB][hapmap];0.90[CHD][hapmap];0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs11174539	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11174540	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11174541	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11174542	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11174545	0.84[ASN][1000 genomes]
rs11174550	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11174559	0.83[ASN][1000 genomes]
rs11495588	0.81[ASN][1000 genomes]
rs12227568	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12300696	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.97[TSI][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12305077	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12308140	0.94[MKK][hapmap];0.81[YRI][hapmap]
rs12309683	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12357	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.83[MKK][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12371971	0.84[JPT][hapmap]
rs12371972	0.84[JPT][hapmap]
rs12578200	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12580048	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12581171	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12809279	0.80[ASN][1000 genomes]
rs12810119	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12829103	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1498713	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2029937	0.85[EUR][1000 genomes]
rs2047478	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2047479	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2220980	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35409044	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4763021	0.84[CEU][hapmap];0.88[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.83[LWK][hapmap];0.82[MKK][hapmap];0.93[TSI][hapmap];0.82[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4763174	0.91[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.89[YRI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4763177	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.89[JPT][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4763179	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4763180	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6581452	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6581454	0.88[CHB][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs7134302	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7136993	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71453871	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7294404	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7298782	0.84[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7302027	0.84[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7308021	0.83[CHB][hapmap];0.83[CHD][hapmap];0.89[JPT][hapmap]
rs7316612	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7957417	0.82[ASW][hapmap];0.88[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.93[LWK][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];0.86[YRI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7958597	0.83[CHB][hapmap]
rs7963657	0.92[CEU][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7975183	0.93[ASW][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7975560	0.84[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.81[LWK][hapmap];0.87[MKK][hapmap];0.95[TSI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][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	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
2	nsv821671	chr12:62794304-63007964	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:62917200-62995000	Weak transcription	Fetal Heart	heart
2	chr12:62928800-62995800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr12:62938000-62995400	Weak transcription	Stomach Mucosa	stomach
4	chr12:62944600-62989000	Weak transcription	Colonic Mucosa	Colon
5	chr12:62950400-62995600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr12:62950600-62991200	Weak transcription	Gastric	stomach
7	chr12:62950600-62996200	Weak transcription	Small Intestine	intestine
8	chr12:62950800-62995000	Weak transcription	NHEK	skin
9	chr12:62951000-62995600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr12:62951200-62988600	Weak transcription	Spleen	Spleen
11	chr12:62951200-62995200	Weak transcription	Hela-S3	cervix
12	chr12:62951200-62995600	Weak transcription	HSMMtube	muscle
13	chr12:62951400-62995000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr12:62953400-62996000	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr12:62954800-62989000	Weak transcription	Lung	lung
16	chr12:62954800-62995600	Weak transcription	Brain Anterior Caudate	brain
17	chr12:62955200-62995200	Weak transcription	HepG2	liver
18	chr12:62955600-62995600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr12:62957000-62995600	Weak transcription	Fetal Brain Male	brain
20	chr12:62957200-62995600	Weak transcription	Brain Hippocampus Middle	brain
21	chr12:62959600-62995600	Weak transcription	NHLF	lung
22	chr12:62961200-62995600	Weak transcription	Brain Cingulate Gyrus	brain
23	chr12:62961400-62989200	Weak transcription	Psoas Muscle	Psoas
24	chr12:62961400-62995600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr12:62961400-62995600	Weak transcription	Brain Germinal Matrix	brain
26	chr12:62961600-62995600	Weak transcription	Fetal Brain Female	brain
27	chr12:62961800-62995600	Weak transcription	Brain Substantia Nigra	brain
28	chr12:62962000-62995600	Weak transcription	HMEC	breast
29	chr12:62963200-62995600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr12:62964000-62995800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr12:62965400-62992800	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr12:62966200-62995600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr12:62966200-62995600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr12:62966400-62995600	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr12:62966400-62995600	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr12:62966600-62991000	Weak transcription	Adipose Nuclei	Adipose
37	chr12:62966600-62995600	Weak transcription	Thymus	Thymus
38	chr12:62966600-62996000	Weak transcription	Esophagus	oesophagus
39	chr12:62969000-62995600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr12:62969000-62996000	Weak transcription	Left Ventricle	heart
41	chr12:62969000-62996000	Weak transcription	Ovary	ovary
42	chr12:62970000-62995200	Weak transcription	Fetal Lung	lung
43	chr12:62972200-62988800	Strong transcription	Monocytes-CD14+_RO01746	blood
44	chr12:62977200-62993400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr12:62978200-62995600	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr12:62978400-62990400	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr12:62979200-62995600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr12:62980000-62993400	Weak transcription	GM12878-XiMat	blood
49	chr12:62980000-62993600	Weak transcription	K562	blood
50	chr12:62980000-62995600	Weak transcription	Primary T cells from cord blood	blood

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