Variant report

Variant	rs1919565
Chromosome Location	chr3:82135381-82135382
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:82134680..82135474-chr3:82182067..82182736,2	MCF-7	breast:

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs11127757	0.93[ASN][1000 genomes]
rs11916839	0.96[ASN][1000 genomes]
rs11917041	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11918223	0.93[ASN][1000 genomes]
rs13314987	0.85[ASN][1000 genomes]
rs13321907	0.85[ASN][1000 genomes]
rs13434355	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1534668	1.00[ASN][1000 genomes]
rs17019551	0.84[ASN][1000 genomes]
rs1919559	0.98[ASN][1000 genomes]
rs1919566	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2141489	0.84[ASN][1000 genomes]
rs2178315	0.84[ASN][1000 genomes]
rs2178316	0.98[ASN][1000 genomes]
rs2316703	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28393435	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28455989	0.82[ASN][1000 genomes]
rs28475537	0.84[ASN][1000 genomes]
rs28536106	0.82[ASN][1000 genomes]
rs28561953	0.84[ASN][1000 genomes]
rs28683026	0.96[ASN][1000 genomes]
rs60509851	0.85[ASN][1000 genomes]
rs60782263	0.84[ASN][1000 genomes]
rs61543943	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61679258	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62265755	0.98[ASN][1000 genomes]
rs62265756	0.85[ASN][1000 genomes]
rs62265757	0.85[ASN][1000 genomes]
rs62268572	0.85[ASN][1000 genomes]
rs6548793	0.98[ASN][1000 genomes]
rs6548794	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767358	0.85[ASN][1000 genomes]
rs6769852	0.85[ASN][1000 genomes]
rs6776655	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6778325	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778814	0.98[ASN][1000 genomes]
rs6781140	0.98[ASN][1000 genomes]
rs6792426	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6793519	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6804280	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6805116	0.85[ASN][1000 genomes]
rs7611244	0.84[ASN][1000 genomes]
rs7611492	0.84[ASN][1000 genomes]
rs7614689	0.84[ASN][1000 genomes]
rs7619146	0.98[ASN][1000 genomes]
rs7622355	0.85[ASN][1000 genomes]
rs7623648	0.93[ASN][1000 genomes]
rs7635092	0.98[ASN][1000 genomes]
rs7639020	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7639102	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7639908	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9309885	0.82[ASN][1000 genomes]
rs9811625	0.93[ASN][1000 genomes]
rs9812960	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9814587	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9815442	0.93[ASN][1000 genomes]
rs9817048	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9819290	0.84[ASN][1000 genomes]
rs9820525	1.00[ASN][1000 genomes]
rs9820687	0.98[ASN][1000 genomes]
rs9821368	0.85[ASN][1000 genomes]
rs9821506	0.98[ASN][1000 genomes]
rs9821800	0.84[ASN][1000 genomes]
rs9822483	0.93[ASN][1000 genomes]
rs9831887	0.96[ASN][1000 genomes]
rs9832377	0.85[ASN][1000 genomes]
rs9834983	0.84[ASN][1000 genomes]
rs9836048	0.85[ASN][1000 genomes]
rs9843444	0.84[ASN][1000 genomes]
rs9845227	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9849917	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9853043	0.84[ASN][1000 genomes]
rs9857313	0.98[ASN][1000 genomes]
rs9857742	0.84[ASN][1000 genomes]
rs9857763	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9859766	0.98[ASN][1000 genomes]
rs9863450	0.98[ASN][1000 genomes]
rs9866476	0.93[ASN][1000 genomes]
rs9867563	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9868174	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9869419	0.85[ASN][1000 genomes]
rs9869718	0.85[ASN][1000 genomes]
rs9872972	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9873073	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9875359	0.85[ASN][1000 genomes]
rs9876340	0.84[ASN][1000 genomes]
rs9878115	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9883163	0.98[ASN][1000 genomes]
rs9883264	1.00[CHB][hapmap];1.00[JPT][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	nsv1007167	chr3:82050178-82301466	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv877041	chr3:82074024-82363196	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1008429	chr3:82089650-82510536	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv432460	chr3:82107110-82508010	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:82130800-82136800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:82130800-82136800	Weak transcription	NHEK	skin
3	chr3:82133000-82135400	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr3:82133000-82136800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr3:82133200-82135600	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr3:82133400-82135600	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr3:82133400-82135800	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr3:82133600-82135400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:82133600-82135600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:82133600-82135600	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr3:82133600-82136000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:82133800-82135400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:82134000-82135400	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr3:82134200-82135400	Active TSS	Right Atrium	heart
15	chr3:82134200-82135600	Flanking Active TSS	HUVEC	blood vessel
16	chr3:82134400-82135400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr3:82134400-82135400	Enhancers	HMEC	breast
18	chr3:82134400-82135600	Enhancers	Muscle Satellite Cultured Cells	--
19	chr3:82134600-82136800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr3:82134600-82137000	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr3:82134600-82137000	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr3:82134800-82136600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr3:82134800-82136600	Weak transcription	HSMM	muscle
24	chr3:82134800-82136800	Weak transcription	NH-A	brain
25	chr3:82134800-82137000	Weak transcription	HSMMtube	muscle
26	chr3:82135000-82135800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:82135200-82136800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr3:82135200-82136800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr3:82135200-82137000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr3:82135200-82138000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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