Variant report

Variant	rs9346853
Chromosome Location	chr6:161856562-161856563
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:161827499..161830369-chr6:161855859..161857703,2	MCF-7	breast:
2	chr6:161855024..161858360-chr6:161858723..161860898,4	MCF-7	breast:
3	chr5:153090609..153093589-chr6:161855798..161858427,3	MCF-7	breast:
4	chr6:161855223..161857273-chr6:161905432..161907491,2	MCF-7	breast:
5	chr3:161087670..161090609-chr6:161855286..161856788,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196542	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12661014	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2872894	0.86[EUR][1000 genomes]
rs4709525	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4709526	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62435941	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9347510	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9347511	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9347512	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9355900	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:26 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv481931	chr6:161647026-161961906	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv1031234	chr6:161676768-162250726	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv886819	chr6:161712035-162520133	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv886820	chr6:161712880-162184932	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv830854	chr6:161739926-161927515	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv518931	chr6:161793319-162406335	Enhancers Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv481861	chr6:161802883-162160197	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1033192	chr6:161812419-161860010	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv886821	chr6:161812626-161859628	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv1024921	chr6:161814295-161860636	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	esv2761040	chr6:161814307-161860636	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv520078	chr6:161814907-161860010	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv605066	chr6:161814907-161860010	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv481930	chr6:161815297-161860058	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	nsv605067	chr6:161816660-161860010	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	nsv1022345	chr6:161816661-161860010	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	nsv1018065	chr6:161816661-161860169	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
19	nsv1018466	chr6:161816661-161860636	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
20	nsv605068	chr6:161817168-161860010	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
21	nsv1023319	chr6:161817703-161860636	Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
22	nsv481981	chr6:161829077-162215745	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
23	nsv1015211	chr6:161836242-161860636	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
24	nsv1033603	chr6:161844266-162001436	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
25	nsv481750	chr6:161850976-161996586	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
26	esv3324364	chr6:161856187-161858510	Flanking Active TSS Weak transcription Enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161855000-161856800	Enhancers	Fetal Stomach	stomach
2	chr6:161855200-161856600	Active TSS	Psoas Muscle	Psoas
3	chr6:161855200-161856800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:161855200-161856800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr6:161855200-161856800	Enhancers	Fetal Lung	lung
6	chr6:161855200-161856800	Enhancers	NHEK	skin
7	chr6:161855200-161857000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
8	chr6:161855200-161857800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:161855200-161858000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:161855400-161856600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
11	chr6:161855400-161856800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr6:161855400-161856800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:161855400-161856800	Enhancers	Fetal Intestine Large	intestine
14	chr6:161855400-161856800	Enhancers	Fetal Kidney	kidney
15	chr6:161855400-161856800	Enhancers	Rectal Smooth Muscle	rectum
16	chr6:161855400-161857000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:161855400-161857000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:161855400-161857000	Enhancers	Fetal Muscle Leg	muscle
19	chr6:161855600-161856600	Enhancers	Brain Angular Gyrus	brain
20	chr6:161855600-161856600	Weak transcription	Fetal Muscle Trunk	muscle
21	chr6:161855600-161856800	Enhancers	Fetal Intestine Small	intestine
22	chr6:161855600-161857000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr6:161855600-161857000	Enhancers	HMEC	breast
24	chr6:161855600-161857600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:161855600-161857600	Weak transcription	Pancreas	Pancrea
26	chr6:161855600-161864400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr6:161855800-161856600	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
28	chr6:161855800-161856800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr6:161855800-161856800	Enhancers	Fetal Heart	heart
30	chr6:161855800-161856800	Enhancers	Osteobl	bone
31	chr6:161855800-161857600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr6:161855800-161860200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr6:161856000-161856600	Enhancers	HUES64 Cell Line	embryonic stem cell
34	chr6:161856000-161856600	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr6:161856000-161856800	Enhancers	Brain Cingulate Gyrus	brain
36	chr6:161856000-161857000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr6:161856000-161859800	Enhancers	NHDF-Ad	bronchial
38	chr6:161856000-161860000	Enhancers	NH-A	brain
39	chr6:161856000-161861600	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr6:161856200-161856600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:161856200-161856600	Flanking Active TSS	Adipose Nuclei	Adipose
42	chr6:161856200-161856600	Enhancers	Brain Anterior Caudate	brain
43	chr6:161856200-161856600	Enhancers	Brain Inferior Temporal Lobe	brain
44	chr6:161856200-161856600	Enhancers	Brain Substantia Nigra	brain
45	chr6:161856200-161856600	Enhancers	Stomach Mucosa	stomach
46	chr6:161856200-161856600	Flanking Active TSS	HSMM	muscle
47	chr6:161856200-161856600	Flanking Active TSS	NHLF	lung
48	chr6:161856200-161856800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr6:161856200-161859800	Enhancers	Brain Germinal Matrix	brain
50	chr6:161856200-161860200	Weak transcription	Left Ventricle	heart

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