Variant report

Variant	rs6820100
Chromosome Location	chr4:187636980-187636981
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:187619254..187623290-chr4:187636723..187640845,3	MCF-7	breast:
2	chr4:187634755..187638971-chr4:187642720..187646926,4	K562	blood:
3	chr4:187635370..187637276-chr4:187647334..187649442,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000083857	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs11433462	1.00[EUR][1000 genomes]
rs11722204	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs907986	1.00[CEU][hapmap]

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	nsv1025088	chr4:187407683-187674585	Genic enhancers Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1025244	chr4:187419770-188284813	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv1034212	chr4:187437895-188030805	Weak transcription Active TSS Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv537438	chr4:187437895-188030805	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
5	nsv532745	chr4:187471692-188205443	Bivalent/Poised TSS Weak transcription Genic enhancers Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv1022262	chr4:187475862-187848284	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv1024705	chr4:187534005-187849091	Enhancers Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	nsv1026970	chr4:187537418-187913351	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
9	nsv596440	chr4:187538133-187848075	Genic enhancers Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	nsv1031603	chr4:187636716-188020741	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:187626400-187643600	Weak transcription	Stomach Mucosa	stomach
2	chr4:187630400-187643600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr4:187630600-187638800	Weak transcription	Gastric	stomach
4	chr4:187630600-187638800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr4:187630600-187641600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr4:187631000-187638400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr4:187631000-187639000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr4:187631000-187639200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr4:187631000-187640000	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr4:187631000-187641200	Weak transcription	Fetal Kidney	kidney
11	chr4:187631000-187643600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr4:187632400-187638800	Weak transcription	A549	lung
13	chr4:187633800-187640000	Weak transcription	NHDF-Ad	bronchial
14	chr4:187634600-187637200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr4:187634600-187637200	Enhancers	Fetal Heart	heart
16	chr4:187634800-187640000	Weak transcription	HSMM	muscle
17	chr4:187634800-187644200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr4:187635000-187639600	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr4:187635400-187644200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr4:187635600-187637600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr4:187635600-187637600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr4:187635600-187637600	Weak transcription	Left Ventricle	heart
23	chr4:187635600-187640800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr4:187635600-187643200	Weak transcription	Right Ventricle	heart
25	chr4:187635800-187637600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr4:187635800-187638000	Weak transcription	NHEK	skin
27	chr4:187635800-187639800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr4:187635800-187643800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr4:187636000-187638400	Weak transcription	Colon Smooth Muscle	Colon
30	chr4:187636200-187639600	Enhancers	HepG2	liver
31	chr4:187636200-187640200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr4:187636400-187637000	Enhancers	Adipose Nuclei	Adipose
33	chr4:187636400-187637200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr4:187636600-187637000	Active TSS	Aorta	Aorta
35	chr4:187636600-187637000	Flanking Active TSS	Ovary	ovary
36	chr4:187636600-187637200	Enhancers	NHLF	lung
37	chr4:187636600-187637400	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr4:187636600-187637400	Enhancers	iPS-15b Cell Line	embryonic stem cell
39	chr4:187636600-187637400	Enhancers	iPS-20b Cell Line	embryonic stem cell
40	chr4:187636600-187637400	Genic enhancers	HMEC	breast
41	chr4:187636600-187637400	Enhancers	NH-A	brain
42	chr4:187636600-187637600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr4:187636600-187637600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr4:187636600-187637600	Weak transcription	Pancreas	Pancrea
45	chr4:187636600-187639000	Enhancers	HUES64 Cell Line	embryonic stem cell
46	chr4:187636800-187637000	Enhancers	HUES6 Cell Line	embryonic stem cell
47	chr4:187636800-187637000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
48	chr4:187636800-187637200	Enhancers	Fetal Lung	lung
49	chr4:187636800-187637200	Enhancers	Rectal Smooth Muscle	rectum
50	chr4:187636800-187637200	Flanking Active TSS	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links