Variant report

Variant	rs10006104
Chromosome Location	chr4:86841160-86841161
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10018236	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10026288	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1016510	1.00[CEU][hapmap];0.87[MEX][hapmap];0.97[TSI][hapmap];0.95[EUR][1000 genomes]
rs10516766	0.87[CHB][hapmap]
rs11930286	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12651053	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1467072	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1473009	1.00[CEU][hapmap];0.87[MEX][hapmap];0.82[MKK][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1473011	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1510580	1.00[CEU][hapmap];0.87[MEX][hapmap];0.97[TSI][hapmap];0.87[EUR][1000 genomes]
rs1510582	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17011172	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17011185	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1848917	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1961436	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28566811	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28572751	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28713621	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2904082	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2904083	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs346510	0.83[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs346513	0.88[ASN][1000 genomes]
rs346517	0.82[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs61561733	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6531877	0.87[EUR][1000 genomes]
rs6531882	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6810816	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6811531	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6819930	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6820175	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6824722	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6850630	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6851522	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7654702	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7666429	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs7669712	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7685704	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7690939	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7692633	0.87[EUR][1000 genomes]
rs7692989	0.87[EUR][1000 genomes]
rs7693039	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7699391	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9307011	0.83[EUR][1000 genomes]
rs9307013	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9790433	0.87[EUR][1000 genomes]
rs9990941	0.87[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830000	chr4:86745341-86909059	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv879519	chr4:86786204-86871282	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	esv2753470	chr4:86804078-86844350	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv879520	chr4:86829529-86918232	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86791200-86844400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr4:86808200-86846000	Weak transcription	HUVEC	blood vessel
3	chr4:86815800-86842800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr4:86826800-86845400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr4:86827600-86850600	Weak transcription	Spleen	Spleen
6	chr4:86829600-86843800	Weak transcription	Primary B cells from cord blood	blood
7	chr4:86831200-86851000	Weak transcription	Aorta	Aorta
8	chr4:86832400-86842800	Weak transcription	Pancreas	Pancrea
9	chr4:86832400-86843800	Weak transcription	Primary B cells from peripheral blood	blood
10	chr4:86836000-86848800	Weak transcription	Fetal Kidney	kidney
11	chr4:86839200-86846000	Weak transcription	HSMM	muscle
12	chr4:86839800-86844200	Weak transcription	Fetal Muscle Leg	muscle
13	chr4:86840400-86841200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr4:86840400-86841600	Enhancers	Pancreatic Islets	Pancreatic Islet
15	chr4:86840400-86841600	Enhancers	Stomach Mucosa	stomach
16	chr4:86840600-86849800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr4:86840800-86841400	Enhancers	NHDF-Ad	bronchial
18	chr4:86841000-86841400	Enhancers	A549	lung
19	chr4:86841000-86844000	Weak transcription	Gastric	stomach

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