Variant report

Variant	rs436556
Chromosome Location	chr6:5086558-5086559
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:5082094..5085573-chr6:5086074..5088451,3	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs13340416	0.85[ASN][1000 genomes]
rs200852	0.82[ASN][1000 genomes]
rs200853	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs200854	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs200855	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs200856	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs374283	0.85[ASN][1000 genomes]
rs378259	0.85[ASN][1000 genomes]
rs397654	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs398302	0.85[ASN][1000 genomes]
rs421273	0.85[ASN][1000 genomes]
rs9378930	0.85[ASN][1000 genomes]
rs9378931	0.85[ASN][1000 genomes]
rs9392650	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv462622	chr6:4904380-5172009	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv600871	chr6:4904380-5172009	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv600872	chr6:4975313-5342190	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv1031837	chr6:4996667-5418726	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
6	nsv1017380	chr6:5007870-5152551	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
7	nsv1017373	chr6:5066785-5128943	Weak transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv538112	chr6:5066785-5128943	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv1034681	chr6:5070351-5387176	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
10	nsv538113	chr6:5070351-5387176	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
11	nsv1018152	chr6:5077025-5387176	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
12	esv3439309	chr6:5084978-5087526	Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5084200-5087400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr6:5084400-5086600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
3	chr6:5084400-5086600	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
4	chr6:5084400-5086600	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:5084400-5086600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
6	chr6:5084400-5086600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
7	chr6:5084400-5086600	Active TSS	Colon Smooth Muscle	Colon
8	chr6:5084400-5086600	Active TSS	Ovary	ovary
9	chr6:5084400-5086800	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
10	chr6:5084400-5086800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
11	chr6:5084400-5086800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells short term culture	blood
12	chr6:5084400-5086800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr6:5084400-5086800	Active TSS	Brain Anterior Caudate	brain
14	chr6:5084400-5086800	Active TSS	Brain Substantia Nigra	brain
15	chr6:5084400-5086800	Active TSS	Psoas Muscle	Psoas
16	chr6:5084400-5087000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:5084400-5087000	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
18	chr6:5084400-5087000	Bivalent Enhancer	Fetal Brain Male	brain
19	chr6:5084400-5087000	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
20	chr6:5084400-5087200	Active TSS	Rectal Smooth Muscle	rectum
21	chr6:5084600-5086600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:5084600-5086600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:5084600-5086600	Active TSS	Aorta	Aorta
24	chr6:5084600-5086800	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:5084800-5086800	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:5084800-5086800	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:5085000-5087000	Flanking Active TSS	Adipose Nuclei	Adipose
28	chr6:5085200-5086800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr6:5085400-5086600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:5085400-5086600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
31	chr6:5085400-5086600	Bivalent/Poised TSS	NHEK	skin
32	chr6:5085400-5086800	Active TSS	Primary T cells from cord blood	blood
33	chr6:5085400-5086800	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
34	chr6:5085400-5086800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr6:5085400-5086800	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
36	chr6:5085600-5086600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
37	chr6:5085600-5086600	Active TSS	HSMM	muscle
38	chr6:5085600-5086800	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
39	chr6:5085800-5086600	Flanking Active TSS	Pancreas	Pancrea
40	chr6:5085800-5086800	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:5085800-5086800	Flanking Bivalent TSS/Enh	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr6:5085800-5086800	Flanking Bivalent TSS/Enh	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr6:5085800-5086800	Flanking Bivalent TSS/Enh	Breast Myoepithelial Primary Cells	Breast
44	chr6:5085800-5087400	Weak transcription	HepG2	liver
45	chr6:5086000-5086600	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr6:5086000-5086600	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr6:5086000-5086600	Flanking Active TSS	Liver	Liver
48	chr6:5086000-5086600	Weak transcription	Fetal Heart	heart
49	chr6:5086000-5086800	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
50	chr6:5086000-5086800	Flanking Active TSS	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links