Variant report

Variant	rs6941859
Chromosome Location	chr6:15421404-15421405
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	chr6:15418815..15421161-chr6:15421182..15423587,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10484355	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11756544	0.95[ASN][1000 genomes]
rs11757415	0.95[ASN][1000 genomes]
rs13192347	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13194410	0.86[EUR][1000 genomes]
rs13195950	0.95[ASN][1000 genomes]
rs13205396	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13205612	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13208486	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13214720	0.88[EUR][1000 genomes]
rs16876354	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17576233	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17576436	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17576710	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17638192	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17638720	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2237146	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2299051	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2299057	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34002211	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34764533	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35047303	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35139070	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35364784	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35629999	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35734069	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35918625	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56123857	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60416461	0.86[AFR][1000 genomes]
rs61296041	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66478504	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72836327	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7747437	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7767966	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15401200-15426200	Weak transcription	Pancreas	Pancrea
2	chr6:15403000-15422000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr6:15404800-15427600	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:15404800-15429000	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr6:15405600-15422000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:15409200-15426200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr6:15410600-15422000	Weak transcription	Gastric	stomach
8	chr6:15412200-15421600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr6:15414200-15422000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr6:15414200-15422000	Weak transcription	Right Ventricle	heart
11	chr6:15414200-15427200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr6:15414200-15427400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:15414200-15429200	Weak transcription	HSMM	muscle
14	chr6:15414600-15427800	Weak transcription	Fetal Brain Male	brain
15	chr6:15415000-15422200	Weak transcription	Brain Hippocampus Middle	brain
16	chr6:15415600-15423400	Weak transcription	Right Atrium	heart
17	chr6:15417000-15452200	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr6:15417800-15426800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr6:15418000-15423200	Weak transcription	Fetal Stomach	stomach
20	chr6:15419000-15421600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:15420000-15422000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr6:15420000-15422400	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr6:15420200-15423200	Weak transcription	HMEC	breast
24	chr6:15420400-15422600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr6:15420400-15422800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:15420400-15424000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr6:15420400-15425600	Weak transcription	NHEK	skin
28	chr6:15420400-15427400	Weak transcription	K562	blood
29	chr6:15420600-15422800	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr6:15420600-15424200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
31	chr6:15420600-15426400	Weak transcription	HepG2	liver
32	chr6:15420800-15421800	Enhancers	HUES48 Cell Line	embryonic stem cell
33	chr6:15420800-15421800	Flanking Active TSS	Primary B cells from cord blood	blood
34	chr6:15420800-15422000	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr6:15420800-15422200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
36	chr6:15420800-15422400	Enhancers	Fetal Heart	heart
37	chr6:15420800-15422400	Enhancers	Fetal Lung	lung
38	chr6:15420800-15422600	Enhancers	HUES6 Cell Line	embryonic stem cell
39	chr6:15420800-15422600	Enhancers	Primary hematopoietic stem cells	blood
40	chr6:15420800-15423000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
41	chr6:15420800-15423000	Enhancers	Brain Angular Gyrus	brain
42	chr6:15420800-15423200	Flanking Active TSS	GM12878-XiMat	blood
43	chr6:15420800-15423400	Enhancers	Fetal Kidney	kidney
44	chr6:15420800-15423600	Enhancers	iPS-20b Cell Line	embryonic stem cell
45	chr6:15420800-15423600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
46	chr6:15420800-15424000	Enhancers	Primary monocytes fromperipheralblood	blood
47	chr6:15420800-15424000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:15420800-15424600	Enhancers	Primary B cells from peripheral blood	blood
49	chr6:15421000-15421600	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr6:15421000-15421600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived

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