Variant report

Variant	rs6939138
Chromosome Location	chr6:106581470-106581471
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:106574758..106578826-chr6:106580489..106584982,7	K562	blood:
2	chr6:106566135..106570137-chr6:106580831..106586138,5	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1012894	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1040893	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11152966	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11753719	0.94[ASN][1000 genomes]
rs11753795	0.94[ASN][1000 genomes]
rs11758444	0.94[ASN][1000 genomes]
rs11758474	0.92[ASN][1000 genomes]
rs13193993	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1883231	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2005969	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34408152	0.93[ASN][1000 genomes]
rs4134466	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6568431	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6937876	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs742108	0.98[ASN][1000 genomes]
rs7759216	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7768653	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9320151	0.97[ASN][1000 genomes]
rs9398067	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1025231	chr6:106451012-106634389	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv830755	chr6:106461705-106624202	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1025900	chr6:106529777-106898421	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1018270	chr6:106531658-106908606	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv538399	chr6:106531658-106908606	Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	esv1832544	chr6:106539914-106642993	Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1035110	chr6:106557281-106802212	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	nsv538400	chr6:106557281-106802212	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
10	nsv1022855	chr6:106570926-106802072	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
11	nsv538401	chr6:106570926-106802072	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106553600-106584000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:106575000-106582400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr6:106577600-106582000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:106577800-106583000	Weak transcription	Duodenum Mucosa	Duodenum
5	chr6:106578000-106582000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:106578000-106582000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:106578000-106582200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr6:106578000-106582600	Weak transcription	K562	blood
9	chr6:106578000-106583200	Weak transcription	Fetal Intestine Small	intestine
10	chr6:106578000-106583200	Weak transcription	HSMMtube	muscle
11	chr6:106578200-106582800	Weak transcription	NHLF	lung
12	chr6:106578200-106583000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:106578400-106581800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr6:106578400-106582000	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr6:106578400-106582000	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:106578400-106582000	Weak transcription	HMEC	breast
17	chr6:106578400-106582600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:106578400-106582600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr6:106578400-106582600	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr6:106578400-106582600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:106578400-106582600	Weak transcription	A549	lung
22	chr6:106578400-106585400	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr6:106578600-106582000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr6:106578600-106582000	Weak transcription	NHDF-Ad	bronchial
25	chr6:106578600-106582000	Weak transcription	NHEK	skin
26	chr6:106578600-106582600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:106578600-106582600	Weak transcription	Osteobl	bone
28	chr6:106578600-106582800	Weak transcription	HSMM	muscle
29	chr6:106579000-106582400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr6:106579000-106582800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:106580800-106582000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr6:106580800-106582000	Weak transcription	Placenta	Placenta
33	chr6:106581200-106581800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr6:106581200-106582200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr6:106581400-106581800	Weak transcription	Hela-S3	cervix
36	chr6:106581400-106589400	Weak transcription	Psoas Muscle	Psoas

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