Variant report

Variant	rs17023624
Chromosome Location	chr4:96285730-96285731
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10002089	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.89[YRI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10023581	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs10024121	0.89[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10029550	0.83[CEU][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs10516964	1.00[JPT][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10516965	1.00[JPT][hapmap];0.94[YRI][hapmap]
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[JPT][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1586163	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17023493	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.84[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs17023540	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17023543	1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17023545	1.00[ASN][1000 genomes]
rs17023617	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17023627	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17023644	1.00[JPT][hapmap]
rs17023654	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs17369242	0.90[EUR][1000 genomes];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	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28417701	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28475150	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28494154	0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28526447	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28537146	1.00[ASN][1000 genomes]
rs28615872	0.86[EUR][1000 genomes]
rs28621043	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28631733	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][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	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs66625786	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66969062	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs67577599	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67681548	0.81[EUR][1000 genomes]
rs67892114	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6816110	0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6821360	0.86[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6822806	0.85[CEU][hapmap];1.00[MEX][hapmap];0.86[EUR][1000 genomes]
rs6845966	0.86[EUR][1000 genomes]
rs6848909	0.88[ASW][hapmap];1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6857369	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72676414	0.81[EUR][1000 genomes]
rs72676415	0.81[EUR][1000 genomes]
rs72676421	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72676441	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72676442	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7687905	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9991852	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9999043	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][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:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96278800-96295600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:96284400-96291600	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr4:96284600-96285800	Enhancers	Fetal Kidney	kidney
4	chr4:96284800-96285800	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr4:96285000-96285800	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr4:96285200-96285800	Enhancers	Brain Angular Gyrus	brain
7	chr4:96285200-96334600	Weak transcription	Aorta	Aorta
8	chr4:96285400-96285800	Enhancers	Brain Substantia Nigra	brain
9	chr4:96285400-96286000	Enhancers	Brain Cingulate Gyrus	brain
10	chr4:96285400-96286000	Enhancers	Brain Hippocampus Middle	brain
11	chr4:96285400-96291600	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr4:96285400-96291600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr4:96285600-96293200	Weak transcription	Fetal Heart	heart

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