Variant report

Variant	rs169098
Chromosome Location	chr6:143074700-143074701
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12199482	0.81[EUR][1000 genomes]
rs197462	0.84[CEU][hapmap];0.92[GIH][hapmap];0.93[JPT][hapmap];0.81[MEX][hapmap]
rs197472	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs197475	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs197476	0.97[EUR][1000 genomes]
rs197477	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs197482	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs197491	0.85[EUR][1000 genomes]
rs3383	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.94[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3900201	0.83[EUR][1000 genomes]
rs4895597	0.80[EUR][1000 genomes]
rs4896592	0.84[EUR][1000 genomes]
rs4896593	0.83[EUR][1000 genomes]
rs517096	0.89[EUR][1000 genomes]
rs56146803	0.82[EUR][1000 genomes]
rs57584479	0.84[EUR][1000 genomes]
rs7349872	0.80[EUR][1000 genomes]
rs9373358	0.82[EUR][1000 genomes]
rs9390022	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830828	chr6:142970134-143116517	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv830829	chr6:143058408-143218077	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143059400-143080600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:143066200-143079000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:143067600-143080600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:143068000-143075000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:143068200-143077400	Weak transcription	Fetal Lung	lung
6	chr6:143068200-143079600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:143071600-143080600	Weak transcription	Colonic Mucosa	Colon
8	chr6:143072000-143076200	Weak transcription	Primary B cells from cord blood	blood
9	chr6:143072200-143080600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr6:143072400-143077400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:143072400-143080600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr6:143072800-143075200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:143072800-143075200	Strong transcription	Stomach Smooth Muscle	stomach
14	chr6:143072800-143075800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr6:143072800-143077000	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr6:143072800-143077800	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr6:143072800-143078000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr6:143072800-143079400	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr6:143072800-143080600	Weak transcription	Colon Smooth Muscle	Colon
20	chr6:143072800-143094800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr6:143072800-143095200	Strong transcription	Fetal Thymus	thymus
22	chr6:143072800-143095400	Weak transcription	Fetal Kidney	kidney
23	chr6:143073000-143075000	Strong transcription	HSMMtube	muscle
24	chr6:143073000-143077000	Weak transcription	Fetal Heart	heart
25	chr6:143073000-143080400	Weak transcription	Rectal Smooth Muscle	rectum
26	chr6:143073000-143083800	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr6:143073000-143090800	Weak transcription	Right Atrium	heart
28	chr6:143073000-143096000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:143073200-143075800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:143073200-143078000	Weak transcription	Fetal Brain Male	brain
31	chr6:143073400-143075000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:143073600-143074800	Strong transcription	NHDF-Ad	bronchial
33	chr6:143073600-143075000	Strong transcription	Duodenum Mucosa	Duodenum
34	chr6:143073600-143086400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr6:143073800-143075000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
36	chr6:143073800-143075200	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr6:143073800-143075200	Strong transcription	Primary B cells from peripheral blood	blood
38	chr6:143073800-143077000	Strong transcription	Primary T helper cells fromperipheralblood	blood
39	chr6:143073800-143077800	Weak transcription	Hela-S3	cervix
40	chr6:143074000-143074800	Strong transcription	NH-A	brain
41	chr6:143074000-143075000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr6:143074000-143075000	Strong transcription	Fetal Intestine Large	intestine
43	chr6:143074000-143075000	Strong transcription	Sigmoid Colon	Sigmoid Colon
44	chr6:143074000-143075200	Strong transcription	Primary T cells from cord blood	blood
45	chr6:143074000-143075200	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr6:143074000-143077000	Strong transcription	Primary T helper cells PMA-I stimulated	--
47	chr6:143074000-143086600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:143074000-143086800	Strong transcription	Adipose Nuclei	Adipose
49	chr6:143074000-143094000	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr6:143074200-143074800	Strong transcription	Primary T killer memory cells from peripheral blood	blood

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