Variant report

Variant	rs3922730
Chromosome Location	chr3:142202857-142202858
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 100 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10935461	0.86[CHB][hapmap]
rs10935465	0.88[EUR][1000 genomes]
rs1129393	0.88[EUR][1000 genomes]
rs11925693	0.81[AMR][1000 genomes]
rs13061823	0.91[CHB][hapmap]
rs13065075	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13067795	0.89[EUR][1000 genomes]
rs13075471	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13079246	0.82[CEU][hapmap]
rs13085998	0.89[EUR][1000 genomes]
rs13093869	0.81[EUR][1000 genomes]
rs13098343	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1357530	0.93[CEU][hapmap]
rs16852486	0.81[CEU][hapmap]
rs1983434	0.92[CEU][hapmap]
rs2030613	0.93[CEU][hapmap];0.82[JPT][hapmap]
rs2049325	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs2140432	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs2227928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[EUR][1000 genomes]
rs2227930	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2862743	0.91[CHB][hapmap]
rs2862745	0.91[CHB][hapmap]
rs2883380	0.81[CEU][hapmap]
rs3816805	0.86[CHB][hapmap]
rs4273389	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4413348	0.92[CEU][hapmap];0.81[JPT][hapmap]
rs4441672	0.92[CHB][hapmap]
rs4597728	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4683688	0.81[CEU][hapmap]
rs4683690	0.82[CEU][hapmap]
rs6440078	0.91[CHB][hapmap];1.00[YRI][hapmap]
rs6440082	0.91[CHB][hapmap];0.86[YRI][hapmap]
rs6440086	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6440087	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6440088	0.88[EUR][1000 genomes]
rs6440089	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[EUR][1000 genomes]
rs6440090	0.83[EUR][1000 genomes]
rs6440091	0.80[EUR][1000 genomes]
rs6440092	0.82[EUR][1000 genomes]
rs6440093	0.82[EUR][1000 genomes]
rs6440094	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs6440098	0.92[CEU][hapmap]
rs6768093	0.87[EUR][1000 genomes]
rs6769786	0.92[CHB][hapmap];0.80[YRI][hapmap]
rs6770155	0.83[EUR][1000 genomes]
rs6772400	0.92[CHB][hapmap];0.80[YRI][hapmap];0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6775583	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6775718	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6775813	0.93[CEU][hapmap]
rs6780250	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6782400	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.87[EUR][1000 genomes]
rs6785675	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6791816	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6792259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs6798232	0.81[CEU][hapmap]
rs6799752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs6800695	0.91[CHB][hapmap]
rs6802631	0.87[CHB][hapmap]
rs6808205	0.81[CEU][hapmap]
rs7430429	0.81[CEU][hapmap]
rs7610557	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs7615316	0.93[CEU][hapmap]
rs7623524	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7630130	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7631313	0.93[CEU][hapmap]
rs7634158	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7641330	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7647573	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7651071	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9289647	0.92[CHB][hapmap]
rs9289648	0.91[CHB][hapmap]
rs9683085	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9808914	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9808943	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9816736	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9820770	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9821271	0.90[CHB][hapmap]
rs9825207	0.87[EUR][1000 genomes]
rs9826786	0.86[CHB][hapmap]
rs9828178	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9832606	0.82[CEU][hapmap]
rs9843148	0.87[CHB][hapmap]
rs9846960	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs9847364	0.91[CHB][hapmap]
rs9855140	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9855919	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9861997	0.92[CHB][hapmap]
rs9862919	0.91[CEU][hapmap];0.81[JPT][hapmap]
rs9866958	0.92[CEU][hapmap];0.82[JPT][hapmap]
rs9869842	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9871402	0.82[EUR][1000 genomes]
rs9876254	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9879995	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877556	chr3:141898980-142331360	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv523945	chr3:141933649-142219542	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv877558	chr3:142123841-142331360	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv877559	chr3:142132749-142331360	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv877560	chr3:142132749-142362179	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
6	nsv877561	chr3:142152925-142331360	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
7	nsv528954	chr3:142164017-142219542	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	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	chr3:142167400-142234600	Weak transcription	Psoas Muscle	Psoas
2	chr3:142167600-142203000	Weak transcription	Brain Angular Gyrus	brain
3	chr3:142170600-142203200	Weak transcription	Spleen	Spleen
4	chr3:142192800-142203000	Weak transcription	Pancreas	Pancrea
5	chr3:142198400-142214400	Weak transcription	Stomach Mucosa	stomach
6	chr3:142198800-142203000	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr3:142199000-142203600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr3:142199200-142204400	Strong transcription	Skeletal Muscle Male	skeletal muscle
9	chr3:142199200-142216000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:142200000-142215200	Weak transcription	NHLF	lung
11	chr3:142200000-142223200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr3:142200200-142206400	Weak transcription	HepG2	liver
13	chr3:142200400-142203000	Weak transcription	Right Ventricle	heart
14	chr3:142200400-142203200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr3:142200400-142203400	Weak transcription	Brain Anterior Caudate	brain
16	chr3:142200400-142204400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr3:142200400-142243800	Weak transcription	Fetal Heart	heart
18	chr3:142200600-142203000	Weak transcription	Brain Hippocampus Middle	brain
19	chr3:142200600-142203000	Weak transcription	Brain Substantia Nigra	brain
20	chr3:142200600-142203000	Weak transcription	Rectal Smooth Muscle	rectum
21	chr3:142200600-142203000	Weak transcription	Hela-S3	cervix
22	chr3:142200600-142203200	Weak transcription	Aorta	Aorta
23	chr3:142200600-142203200	Weak transcription	Brain Cingulate Gyrus	brain
24	chr3:142200600-142203200	Weak transcription	HSMMtube	muscle
25	chr3:142200600-142203400	Weak transcription	Stomach Smooth Muscle	stomach
26	chr3:142200600-142203400	Weak transcription	Osteobl	bone
27	chr3:142200600-142203600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr3:142200600-142204400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr3:142200600-142204800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr3:142200600-142205400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr3:142200600-142205400	Strong transcription	Primary T helper cells PMA-I stimulated	--
32	chr3:142200600-142208200	Weak transcription	NHDF-Ad	bronchial
33	chr3:142200600-142210000	Weak transcription	HUVEC	blood vessel
34	chr3:142200600-142271800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr3:142200800-142203200	Weak transcription	Gastric	stomach
36	chr3:142200800-142204400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr3:142200800-142206400	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr3:142200800-142213400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr3:142200800-142214000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr3:142200800-142219800	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr3:142201000-142203000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr3:142201000-142203000	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr3:142201000-142203000	Weak transcription	Thymus	Thymus
44	chr3:142201000-142203200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr3:142201000-142203200	Weak transcription	Lung	lung
46	chr3:142201000-142203800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr3:142201000-142204200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr3:142201000-142204200	Strong transcription	Fetal Stomach	stomach
49	chr3:142201000-142204200	Strong transcription	HSMM	muscle
50	chr3:142201000-142204600	Strong transcription	Duodenum Smooth Muscle	Duodenum

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