Variant report

Variant	rs1624335
Chromosome Location	chr1:114167780-114167781
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10776773	0.88[ASN][1000 genomes]
rs10858006	0.92[ASN][1000 genomes]
rs10858015	0.84[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs11102667	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11102678	0.94[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.83[LWK][hapmap];0.92[MKK][hapmap];0.94[TSI][hapmap]
rs1146183	0.81[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1146184	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1146185	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12026423	0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12138638	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12144309	0.81[GIH][hapmap]
rs1217194	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1217202	0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1217212	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1217224	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1217225	0.87[ASW][hapmap];1.00[YRI][hapmap]
rs1217229	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1217231	1.00[YRI][hapmap]
rs1217238	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1217375	0.94[ASW][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.83[MKK][hapmap];0.80[TSI][hapmap]
rs1217379	0.81[ASW][hapmap]
rs1230673	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1230675	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1230681	0.95[CEU][hapmap]
rs1235000	0.87[ASW][hapmap];0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1237290	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12757859	0.92[ASN][1000 genomes]
rs1343630	0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.86[ASN][1000 genomes]
rs13524	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1743594	1.00[ASW][hapmap];0.91[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1743595	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1777239	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1935836	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[YRI][hapmap]
rs2040041	1.00[CHD][hapmap];0.94[GIH][hapmap];0.81[MKK][hapmap]
rs2476599	0.94[ASW][hapmap];0.81[CEU][hapmap];0.94[GIH][hapmap];0.83[MKK][hapmap];0.80[TSI][hapmap]
rs2636003	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2798137	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3789597	0.95[CEU][hapmap];0.85[CHB][hapmap];0.85[CHD][hapmap];0.97[GIH][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap]
rs3789600	0.81[ASW][hapmap]
rs6537798	0.81[ASW][hapmap]
rs7518766	0.84[ASN][1000 genomes]
rs7522138	0.81[ASW][hapmap]
rs7543121	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7555634	0.81[ASW][hapmap]
rs9429525	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[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	nsv1012324	chr1:114135133-114206843	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv872161	chr1:114162194-114280135	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:114100600-114173400	Weak transcription	Gastric	stomach
2	chr1:114119200-114172400	Weak transcription	Pancreas	Pancrea
3	chr1:114119200-114173000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr1:114124400-114172400	Weak transcription	Aorta	Aorta
5	chr1:114140600-114172800	Weak transcription	Colonic Mucosa	Colon
6	chr1:114151400-114172600	Weak transcription	Ovary	ovary
7	chr1:114153600-114168400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr1:114154000-114172400	Weak transcription	Fetal Stomach	stomach
9	chr1:114156200-114170000	Weak transcription	Small Intestine	intestine
10	chr1:114158800-114168600	Weak transcription	HUVEC	blood vessel
11	chr1:114159000-114168600	Weak transcription	Brain Hippocampus Middle	brain
12	chr1:114159000-114172200	Weak transcription	NH-A	brain
13	chr1:114159000-114173200	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr1:114159000-114195000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr1:114159200-114194800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr1:114160400-114169800	Weak transcription	Rectal Smooth Muscle	rectum
17	chr1:114160600-114168600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr1:114160600-114169000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr1:114160800-114168200	Weak transcription	Primary hematopoietic stem cells	blood
20	chr1:114161200-114168000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr1:114161400-114168600	Weak transcription	Fetal Intestine Small	intestine
22	chr1:114161600-114172400	Weak transcription	Placenta	Placenta
23	chr1:114161600-114184600	Weak transcription	Colon Smooth Muscle	Colon
24	chr1:114161600-114184600	Weak transcription	HepG2	liver
25	chr1:114161800-114168600	Weak transcription	Fetal Muscle Leg	muscle
26	chr1:114161800-114199800	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr1:114162200-114184600	Weak transcription	Left Ventricle	heart
28	chr1:114163200-114168800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr1:114163400-114168800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr1:114164000-114168000	Weak transcription	Psoas Muscle	Psoas
31	chr1:114164000-114168800	Weak transcription	Primary T cells from cord blood	blood
32	chr1:114164000-114168800	Weak transcription	Duodenum Mucosa	Duodenum
33	chr1:114164000-114169200	Weak transcription	Fetal Kidney	kidney
34	chr1:114164000-114170400	Weak transcription	NHDF-Ad	bronchial
35	chr1:114164000-114172600	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr1:114164200-114168000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr1:114164200-114169200	Weak transcription	Fetal Intestine Large	intestine
38	chr1:114165200-114172400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr1:114165600-114168800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr1:114166600-114172800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr1:114166800-114168400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
42	chr1:114167000-114168200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr1:114167000-114168200	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr1:114167000-114168600	Weak transcription	Adipose Nuclei	Adipose
45	chr1:114167000-114171000	Weak transcription	Fetal Lung	lung
46	chr1:114167000-114172600	Weak transcription	Liver	Liver
47	chr1:114167400-114168000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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