Variant report

Variant	rs6804188
Chromosome Location	chr3:155509663-155509664
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:155508129..155511910-chr3:155589025..155592150,5	K562	blood:
2	chr3:155508855..155510377-chr3:155571116..155573552,2	K562	blood:
3	chr3:155462546..155464118-chr3:155507587..155510459,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169359	Chromatin interaction
ENSG00000114805	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10936019	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11712034	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs168587	0.82[CEU][hapmap];0.86[TSI][hapmap];0.86[EUR][1000 genomes]
rs35293225	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs358701	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs358718	0.82[CEU][hapmap];0.93[MEX][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes]
rs358730	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MKK][hapmap];0.97[TSI][hapmap];0.82[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs358733	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs358735	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs389893	0.82[CEU][hapmap];0.93[MEX][hapmap];0.85[TSI][hapmap];0.88[EUR][1000 genomes]
rs392068	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs398320	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs416063	0.82[CEU][hapmap];0.83[TSI][hapmap];0.88[EUR][1000 genomes]
rs6764439	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs6776241	0.85[EUR][1000 genomes]
rs7637461	0.82[CEU][hapmap];0.93[MEX][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes]
rs9812038	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877680	chr3:155438022-155723064	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1009635	chr3:155475438-155515484	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1007915	chr3:155476547-155513397	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv592080	chr3:155479222-155511844	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	esv14416	chr3:155479247-155512774	ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv1006439	chr3:155481097-155515484	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv1014031	chr3:155481097-155524777	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
8	nsv999641	chr3:155481097-155534616	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
9	nsv1001756	chr3:155487190-155515484	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	esv2753744	chr3:155487298-155707298	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155487000-155510600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
2	chr3:155487000-155511400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr3:155487600-155524200	Weak transcription	Fetal Heart	heart
4	chr3:155488200-155523200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:155489000-155523200	Weak transcription	Thymus	Thymus
6	chr3:155491600-155523200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:155494400-155523600	Weak transcription	Small Intestine	intestine
8	chr3:155500400-155523200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr3:155500600-155513600	Weak transcription	Brain Substantia Nigra	brain
10	chr3:155500800-155522600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr3:155504200-155510600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr3:155504200-155511600	Weak transcription	HSMMtube	muscle
13	chr3:155505000-155509800	Strong transcription	Fetal Intestine Small	intestine
14	chr3:155506600-155523000	Weak transcription	Colon Smooth Muscle	Colon
15	chr3:155506800-155523200	Weak transcription	Fetal Kidney	kidney
16	chr3:155507000-155511400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:155507400-155522800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr3:155508200-155509800	Strong transcription	Primary T cells from cord blood	blood
19	chr3:155508400-155509800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr3:155508400-155509800	Strong transcription	Fetal Intestine Large	intestine
21	chr3:155508400-155510000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr3:155508400-155510000	Strong transcription	HepG2	liver
23	chr3:155508600-155509800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:155508600-155509800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr3:155508600-155509800	Strong transcription	Aorta	Aorta
26	chr3:155508600-155509800	Strong transcription	Dnd41	blood
27	chr3:155508600-155510000	Strong transcription	Brain Inferior Temporal Lobe	brain
28	chr3:155508600-155510000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr3:155508600-155510000	Strong transcription	Fetal Stomach	stomach
30	chr3:155508600-155510000	ZNF genes & repeats	Lung	lung
31	chr3:155508600-155510200	Strong transcription	Cortex derived primary cultured neurospheres	brain
32	chr3:155508600-155510600	Strong transcription	Brain Angular Gyrus	brain
33	chr3:155508800-155509800	Strong transcription	Fetal Lung	lung
34	chr3:155508800-155509800	Strong transcription	Sigmoid Colon	Sigmoid Colon
35	chr3:155508800-155510000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr3:155508800-155510000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr3:155508800-155510000	Strong transcription	Liver	Liver
38	chr3:155508800-155510000	Strong transcription	Ovary	ovary
39	chr3:155508800-155510000	Strong transcription	Skeletal Muscle Male	skeletal muscle
40	chr3:155508800-155510000	Strong transcription	Stomach Smooth Muscle	stomach
41	chr3:155508800-155510200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr3:155508800-155510600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
43	chr3:155508800-155510800	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr3:155508800-155511000	Strong transcription	Brain Hippocampus Middle	brain
45	chr3:155508800-155522800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:155508800-155523200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr3:155509000-155509800	Strong transcription	Pancreas	Pancrea
48	chr3:155509000-155509800	Strong transcription	Right Ventricle	heart
49	chr3:155509000-155510000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr3:155509000-155510000	Strong transcription	Adipose Nuclei	Adipose

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