Variant report

Variant	rs9841531
Chromosome Location	chr3:59863811-59863812
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:42)

rs_ID	r²[population]
rs11915344	0.83[ASN][1000 genomes]
rs11920587	0.83[ASN][1000 genomes]
rs17061316	1.00[ASN][1000 genomes]
rs17061318	1.00[ASN][1000 genomes]
rs17061320	1.00[ASN][1000 genomes]
rs17061321	1.00[ASN][1000 genomes]
rs17061322	1.00[ASN][1000 genomes]
rs17061326	1.00[ASN][1000 genomes]
rs17061331	1.00[ASN][1000 genomes]
rs17061340	0.83[ASN][1000 genomes]
rs17061346	0.83[ASN][1000 genomes]
rs17061373	0.83[ASN][1000 genomes]
rs17061385	0.83[ASN][1000 genomes]
rs17061428	0.83[ASN][1000 genomes]
rs1817587	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs294451	0.83[ASN][1000 genomes]
rs56122642	0.83[ASN][1000 genomes]
rs56838688	0.83[ASN][1000 genomes]
rs59843181	0.83[ASN][1000 genomes]
rs604398	1.00[ASN][1000 genomes]
rs628404	1.00[ASN][1000 genomes]
rs6446087	0.83[ASN][1000 genomes]
rs72872953	1.00[ASN][1000 genomes]
rs72888555	0.83[ASN][1000 genomes]
rs73839551	0.83[ASN][1000 genomes]
rs73839564	1.00[ASN][1000 genomes]
rs73839568	0.83[ASN][1000 genomes]
rs73839569	0.83[ASN][1000 genomes]
rs73839584	0.83[ASN][1000 genomes]
rs73839586	0.83[ASN][1000 genomes]
rs73839587	0.83[ASN][1000 genomes]
rs73839592	0.83[ASN][1000 genomes]
rs73839594	0.83[ASN][1000 genomes]
rs73839596	0.83[ASN][1000 genomes]
rs9284900	0.83[ASN][1000 genomes]
rs9311733	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9311738	0.83[ASN][1000 genomes]
rs9311739	0.83[ASN][1000 genomes]
rs9844365	0.83[ASN][1000 genomes]
rs9851805	0.83[ASN][1000 genomes]
rs9871827	0.83[ASN][1000 genomes]
rs9968157	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv460564	chr3:59821071-59927727	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv590384	chr3:59821071-59927727	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv460565	chr3:59842644-59877988	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv470616	chr3:59842644-59877988	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv590385	chr3:59842644-59877988	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv590386	chr3:59846067-59912377	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59850000-59864000	Weak transcription	Fetal Thymus	thymus
2	chr3:59854800-59867000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr3:59854800-59870800	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr3:59855000-59865200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr3:59858000-59865800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr3:59858200-59865000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr3:59859400-59864800	Weak transcription	Thymus	Thymus
8	chr3:59859400-59865000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr3:59859800-59864200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr3:59861400-59864000	Weak transcription	Primary T cells from cord blood	blood
11	chr3:59862000-59865200	Enhancers	K562	blood
12	chr3:59862400-59864600	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr3:59862600-59868800	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr3:59863000-59864000	Weak transcription	Dnd41	blood
15	chr3:59863000-59864200	Enhancers	Fetal Intestine Small	intestine
16	chr3:59863000-59864600	Enhancers	HMEC	breast
17	chr3:59863000-59865200	Enhancers	NHEK	skin
18	chr3:59863200-59864000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr3:59863200-59864400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr3:59863200-59864600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr3:59863200-59865200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:59863400-59864200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:59863600-59864200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr3:59863600-59865200	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr3:59863600-59865200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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