Variant report

Variant	rs13099587
Chromosome Location	chr3:146268616-146268617
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	chr3:146260480..146262748-chr3:146268445..146271020,2	K562	blood:
2	chr3:146262497..146265789-chr3:146267406..146270879,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000188313	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1061307	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1079369	0.89[CHB][hapmap];0.83[LWK][hapmap];0.82[YRI][hapmap]
rs13064509	0.89[CHB][hapmap]
rs13069082	0.89[CHB][hapmap]
rs13080178	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1443827	0.89[CHB][hapmap]
rs16858420	0.89[CHB][hapmap]
rs1997601	0.88[CHB][hapmap]
rs34009190	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34598718	0.85[ASN][1000 genomes]
rs35214899	0.91[AFR][1000 genomes]
rs35766154	0.94[ASN][1000 genomes]
rs3773521	0.85[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs60601385	0.85[ASN][1000 genomes]
rs66639703	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6799809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7615988	0.89[CHB][hapmap]
rs7625626	0.88[CEU][hapmap];0.84[CHB][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7625713	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7647634	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9815834	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9850802	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9861142	0.89[CHB][hapmap]
rs9876886	0.89[ASW][hapmap];0.89[CHB][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes]
rs9880682	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9883058	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014493	chr3:146255594-146288414	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:146263200-146268800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr3:146263200-146268800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr3:146263200-146270800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:146263800-146271800	Weak transcription	K562	blood
5	chr3:146265600-146269400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:146267000-146269000	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr3:146267000-146269200	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr3:146267000-146269200	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr3:146267200-146271600	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr3:146267600-146269400	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr3:146267600-146269600	Enhancers	GM12878-XiMat	blood
12	chr3:146267600-146270200	Enhancers	Muscle Satellite Cultured Cells	--
13	chr3:146267600-146270200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:146267600-146270200	Enhancers	NHEK	skin
15	chr3:146267800-146268800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:146267800-146268800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
17	chr3:146267800-146269000	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr3:146267800-146269000	Enhancers	Primary T killer memory cells from peripheral blood	blood
19	chr3:146267800-146269200	Enhancers	Primary T helper naive cells from peripheral blood	blood
20	chr3:146267800-146269600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
21	chr3:146267800-146272000	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr3:146268000-146268800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr3:146268000-146269200	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr3:146268000-146269400	Enhancers	Placenta Amnion	Placenta Amnion
25	chr3:146268000-146269600	Enhancers	Osteobl	bone
26	chr3:146268000-146270200	Enhancers	HMEC	breast
27	chr3:146268200-146269200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr3:146268200-146270800	Weak transcription	Primary hematopoietic stem cells	blood
29	chr3:146268200-146271200	Weak transcription	Primary B cells from cord blood	blood
30	chr3:146268200-146272200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr3:146268400-146268800	Enhancers	Primary T helper cells fromperipheralblood	blood
32	chr3:146268400-146269000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr3:146268400-146269000	Weak transcription	A549	lung
34	chr3:146268400-146269200	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr3:146268400-146269200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr3:146268400-146269200	Enhancers	Dnd41	blood
37	chr3:146268400-146270800	Enhancers	NHDF-Ad	bronchial
38	chr3:146268600-146268800	Enhancers	iPS-20b Cell Line	embryonic stem cell
39	chr3:146268600-146268800	Flanking Active TSS	NHLF	lung
40	chr3:146268600-146269200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
41	chr3:146268600-146269200	Enhancers	Colon Smooth Muscle	Colon
42	chr3:146268600-146269400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr3:146268600-146269800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr3:146268600-146271600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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