Variant report

Variant	rs9841588
Chromosome Location	chr3:50979146-50979147
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:50978925..50980444-chr8:43095229..43096751,2	K562	blood:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs13314195	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs13314257	1.00[AFR][1000 genomes]
rs13316002	1.00[YRI][hapmap]
rs13320650	1.00[AFR][1000 genomes]
rs13325993	0.87[AFR][1000 genomes]
rs13326451	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs28368540	1.00[AFR][1000 genomes]
rs28396534	1.00[AFR][1000 genomes]
rs28464421	1.00[AFR][1000 genomes]
rs28470802	0.87[AFR][1000 genomes]
rs28558907	1.00[AFR][1000 genomes]
rs28620855	1.00[AFR][1000 genomes]
rs28650958	1.00[AFR][1000 genomes]
rs28651223	1.00[AFR][1000 genomes]
rs28672954	0.87[AFR][1000 genomes]
rs28683561	1.00[AFR][1000 genomes]
rs28739431	1.00[AFR][1000 genomes]
rs9311459	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9808930	1.00[AFR][1000 genomes]
rs9810177	0.87[AFR][1000 genomes]
rs9810834	1.00[AFR][1000 genomes]
rs9811552	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs9813134	0.87[AFR][1000 genomes]
rs9814288	0.87[AFR][1000 genomes]
rs9817243	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9817755	1.00[AFR][1000 genomes]
rs9817912	0.87[AFR][1000 genomes]
rs9818282	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9820588	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs9820926	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9821821	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9823104	0.87[AFR][1000 genomes]
rs9829027	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap]
rs9830477	0.87[AFR][1000 genomes]
rs9831449	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9832673	0.87[AFR][1000 genomes]
rs9835512	1.00[AFR][1000 genomes]
rs9843246	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9843508	0.87[AFR][1000 genomes]
rs9844965	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9845360	1.00[AFR][1000 genomes]
rs9846448	0.87[AFR][1000 genomes]
rs9846899	0.87[AFR][1000 genomes]
rs9846949	1.00[AFR][1000 genomes]
rs9847649	0.87[AFR][1000 genomes]
rs9848930	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs9849326	1.00[AFR][1000 genomes]
rs9849728	0.87[AFR][1000 genomes]
rs9851205	0.87[AFR][1000 genomes]
rs9854772	0.87[AFR][1000 genomes]
rs9854979	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap]
rs9856440	0.87[AFR][1000 genomes]
rs9860659	0.87[AFR][1000 genomes]
rs9863694	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9869000	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9869541	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs9870101	1.00[AFR][1000 genomes]
rs9870326	0.87[AFR][1000 genomes]
rs9872828	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs9873164	1.00[AFR][1000 genomes]
rs9875271	1.00[AFR][1000 genomes]
rs9876984	1.00[AFR][1000 genomes]
rs9878306	1.00[AFR][1000 genomes]
rs9878542	1.00[AFR][1000 genomes]
rs9879398	0.87[AFR][1000 genomes]
rs9879630	0.87[AFR][1000 genomes]
rs9880318	1.00[YRI][hapmap]
rs9989957	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9989974	1.00[AFR][1000 genomes]

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	nsv491647	chr3:50856276-51245158	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1004881	chr3:50900793-51032918	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv536568	chr3:50900793-51032918	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv1803890	chr3:50966037-50987194	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:50973200-50979200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:50973200-50983400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:50974000-50991200	Weak transcription	HUES64 Cell Line	embryonic stem cell

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