Variant report

Variant	rs648822
Chromosome Location	chr1:47116439-47116440
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10890410	0.88[ASN][1000 genomes]
rs10890414	0.86[ASN][1000 genomes]
rs11211332	1.00[EUR][1000 genomes]
rs11211343	0.86[ASN][1000 genomes]
rs11801744	0.86[ASN][1000 genomes]
rs12562113	0.85[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs12566278	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12568734	0.86[ASN][1000 genomes]
rs1258055	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1258058	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1258063	0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs1258064	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1258065	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1258066	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1258068	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1258072	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1268714	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1273237	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13374909	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1745376	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1933932	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2146560	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2181412	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2241863	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2241864	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2439442	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2476153	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2476155	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2476156	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2476157	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2476159	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2486160	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2486162	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3011290	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3766218	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3766220	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3766221	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3766222	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3766223	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56771521	0.86[ASN][1000 genomes]
rs57495753	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs582269	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs582323	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs582760	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs583649	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58678760	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59479990	0.86[ASN][1000 genomes]
rs596794	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs597221	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs604233	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs604264	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs611919	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs629412	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs631368	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs631840	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs636082	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs636122	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs636424	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs654544	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs655369	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs657166	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs669647	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs673134	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs675731	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs678466	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs683585	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs689300	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs723333	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs724309	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72896683	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72900715	0.86[ASN][1000 genomes]
rs736188	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9094	0.89[EUR][1000 genomes];0.88[ASN][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	nsv1001455	chr1:46828004-47326539	Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv534950	chr1:46828004-47326539	Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1007280	chr1:47088116-47129588	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:47088200-47131600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr1:47090200-47121400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr1:47094600-47119200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr1:47101600-47130000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr1:47101600-47133000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr1:47101800-47119000	Weak transcription	Colonic Mucosa	Colon
7	chr1:47101800-47121200	Weak transcription	HUVEC	blood vessel
8	chr1:47102000-47122400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr1:47102400-47121400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr1:47103000-47132800	Weak transcription	Spleen	Spleen
11	chr1:47105000-47132800	Weak transcription	Stomach Mucosa	stomach
12	chr1:47108200-47123400	Weak transcription	K562	blood
13	chr1:47109400-47129800	Weak transcription	Pancreas	Pancrea
14	chr1:47109400-47132600	Weak transcription	Hela-S3	cervix
15	chr1:47109600-47123400	Weak transcription	NH-A	brain
16	chr1:47109600-47132600	Weak transcription	HMEC	breast
17	chr1:47109800-47116600	Strong transcription	Left Ventricle	heart
18	chr1:47109800-47123200	Weak transcription	HepG2	liver
19	chr1:47112200-47125600	Strong transcription	Liver	Liver
20	chr1:47112400-47116600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr1:47112400-47126800	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr1:47112600-47116600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr1:47112600-47116800	Strong transcription	Skeletal Muscle Female	skeletal muscle
24	chr1:47112800-47116600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr1:47112800-47116800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr1:47112800-47125400	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr1:47112800-47125800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr1:47113000-47116600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr1:47113000-47116600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
30	chr1:47113000-47124400	Strong transcription	H1 Cell Line	embryonic stem cell
31	chr1:47113200-47116600	ZNF genes & repeats	Fetal Brain Female	brain
32	chr1:47113200-47116600	ZNF genes & repeats	Fetal Muscle Leg	muscle
33	chr1:47113400-47116600	ZNF genes & repeats	Fetal Muscle Trunk	muscle
34	chr1:47113600-47121800	Weak transcription	NHEK	skin
35	chr1:47113800-47116600	ZNF genes & repeats	Fetal Intestine Large	intestine
36	chr1:47113800-47118400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr1:47114400-47116600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr1:47114600-47116600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr1:47114600-47116800	Strong transcription	Muscle Satellite Cultured Cells	--
40	chr1:47114600-47124600	Strong transcription	Fetal Thymus	thymus
41	chr1:47114800-47116600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr1:47115000-47116600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
43	chr1:47115000-47116600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
44	chr1:47115000-47116600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr1:47115000-47116600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
46	chr1:47115000-47116600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
47	chr1:47115000-47116600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr1:47115000-47116600	ZNF genes & repeats	Fetal Kidney	kidney
49	chr1:47115000-47116600	ZNF genes & repeats	Fetal Lung	lung
50	chr1:47115000-47116600	Strong transcription	Rectal Mucosa Donor 31	rectum

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