Variant report

Variant	rs10405179
Chromosome Location	chr19:42981029-42981030
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10401178	1.00[CEU][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10402245	1.00[TSI][hapmap]
rs10402853	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10404589	1.00[CEU][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10405037	0.90[AMR][1000 genomes]
rs10405152	1.00[CEU][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10405410	0.81[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap]
rs10406227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10408822	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10412074	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10412173	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10412594	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10414396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10415284	0.90[AMR][1000 genomes]
rs10416108	1.00[CEU][hapmap]
rs10418090	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10418997	0.87[AFR][1000 genomes]
rs10419543	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10420773	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs10422191	0.87[AFR][1000 genomes]
rs10423227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10423370	0.90[AMR][1000 genomes]
rs10424206	1.00[CEU][hapmap];0.89[YRI][hapmap]
rs10425199	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10425666	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10426304	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs11878991	1.00[CEU][hapmap]
rs11880554	1.00[ASW][hapmap];1.00[CEU][hapmap];0.87[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs11880876	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs11881583	1.00[CEU][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11882291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11882701	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11883406	1.00[CEU][hapmap]
rs11883425	1.00[CEU][hapmap]
rs13343840	0.87[AFR][1000 genomes]
rs13345659	1.00[TSI][hapmap]
rs13346522	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs16975750	1.00[TSI][hapmap]
rs16975787	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16975799	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16975815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16975862	0.87[AFR][1000 genomes]
rs28403155	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28425201	0.86[AFR][1000 genomes]
rs28433890	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28602626	0.95[AMR][1000 genomes]
rs28625452	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28635141	0.95[AMR][1000 genomes]
rs28660279	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs41348545	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41381546	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41421250	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs57018456	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58050143	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58162305	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58702905	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60747186	0.85[AMR][1000 genomes]
rs61388144	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs6509015	0.94[ASW][hapmap];1.00[CEU][hapmap];0.80[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6509019	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap]
rs7245385	1.00[TSI][hapmap]
rs7246161	1.00[CEU][hapmap]
rs7246591	1.00[CEU][hapmap]
rs7247278	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7248907	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7249304	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7250501	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7251638	1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap]
rs7252874	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7253634	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7256850	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs7258854	1.00[CEU][hapmap]
rs7259335	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73558492	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs73558498	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs73560408	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs8101378	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8104731	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8105525	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs8106836	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs8107720	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8108992	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs8109086	0.88[AFR][1000 genomes]
rs8110904	1.00[YRI][hapmap];0.89[AMR][1000 genomes]
rs8110922	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8111171	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs8111468	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs8112593	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs8112915	0.90[AMR][1000 genomes]
rs8113154	0.90[AMR][1000 genomes]
rs8113448	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs9749434	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs9916999	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9917002	0.90[AFR][1000 genomes];1.00[EUR][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	nsv526186	chr19:42676481-43203507	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases
2	esv2422471	chr19:42733141-43669485	Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	70 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:42973800-42981400	Enhancers	ES-I3 Cell Line	embryonic stem cell
2	chr19:42974400-42984800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr19:42975000-42981200	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr19:42975000-42981400	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr19:42975600-42981600	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr19:42977400-42984800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr19:42978000-42981200	Enhancers	H1 Cell Line	embryonic stem cell
8	chr19:42978400-42981200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr19:42979400-42982400	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr19:42979400-42985000	Weak transcription	Brain Substantia Nigra	brain
11	chr19:42979400-42990800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr19:42979800-42984200	Weak transcription	Brain Hippocampus Middle	brain
13	chr19:42979800-42984800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr19:42980000-42981400	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr19:42980000-42981400	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr19:42980200-42981200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr19:42980200-42981200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr19:42980400-42984600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr19:42980800-42983800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr19:42981000-42981400	Enhancers	Adipose Nuclei	Adipose

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