Variant report

Variant	rs10516965
Chromosome Location	chr4:96255814-96255815
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10002089	1.00[JPT][hapmap];0.94[YRI][hapmap];1.00[ASN][1000 genomes]
rs10023581	1.00[JPT][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes]
rs10024121	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10029550	1.00[JPT][hapmap];0.86[AFR][1000 genomes]
rs10516964	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11097467	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11728047	1.00[ASN][1000 genomes]
rs11735824	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11943290	1.00[ASN][1000 genomes]
rs1384868	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1586163	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17023493	0.84[ASW][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.82[YRI][hapmap];0.93[AFR][1000 genomes]
rs17023540	1.00[ASW][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17023543	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17023545	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17023617	1.00[JPT][hapmap];0.94[YRI][hapmap];0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17023624	1.00[JPT][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17023627	1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17023644	0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17369242	1.00[ASN][1000 genomes]
rs2621442	1.00[ASN][1000 genomes]
rs2621443	1.00[ASN][1000 genomes]
rs2621446	1.00[ASN][1000 genomes]
rs2626054	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2626055	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2626056	1.00[ASN][1000 genomes]
rs28368523	1.00[ASN][1000 genomes]
rs28369639	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28417701	0.85[AFR][1000 genomes]
rs28475150	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28494154	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28526447	1.00[ASW][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28537146	1.00[ASN][1000 genomes]
rs28621043	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28631733	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2865447	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28687238	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28689658	1.00[ASN][1000 genomes]
rs28692541	1.00[ASN][1000 genomes]
rs6532552	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs66536449	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs66625786	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs66969062	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67577599	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs67681548	0.88[AFR][1000 genomes]
rs67892114	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6816110	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6821360	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6848909	1.00[JPT][hapmap];0.86[LWK][hapmap];0.94[YRI][hapmap];0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6857369	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs72676414	0.88[AFR][1000 genomes]
rs72676415	0.88[AFR][1000 genomes]
rs72676421	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72676441	1.00[ASN][1000 genomes]
rs72676442	1.00[ASN][1000 genomes]
rs7687905	0.83[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9991852	1.00[JPT][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9999043	0.86[AFR][1000 genomes];1.00[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	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1001955	chr4:96216118-96445841	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96239600-96284400	Weak transcription	Aorta	Aorta
2	chr4:96241000-96260800	Weak transcription	Brain Substantia Nigra	brain
3	chr4:96241000-96267600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr4:96242000-96260200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr4:96243000-96259600	Weak transcription	Brain Hippocampus Middle	brain
6	chr4:96243400-96263200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr4:96247200-96265000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr4:96248600-96257800	Weak transcription	Brain Anterior Caudate	brain
9	chr4:96250200-96263200	Weak transcription	Brain Angular Gyrus	brain
10	chr4:96250400-96263000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr4:96250400-96263000	Weak transcription	Fetal Stomach	stomach
12	chr4:96250600-96263200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr4:96254600-96257200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:96255200-96256600	Strong transcription	Fetal Lung	lung
15	chr4:96255400-96258400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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