Variant report

Variant	rs189911
Chromosome Location	chr6:25965942-25965943
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:25909186..25911727-chr6:25964970..25966788,2	K562	blood:
2	chr6:25965821..25967948-chr6:25973131..25975661,2	MCF-7	breast:
3	chr6:25959676..25961946-chr6:25964772..25967357,2	K562	blood:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs129129	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs175319	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs199725	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs199726	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs199734	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs199736	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs199737	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs199739	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2051540	0.82[ASN][1000 genomes]
rs442601	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9379811	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1030351	chr6:25813178-26352046	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1189 gene(s)	inside rSNPs	diseases
4	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1201 gene(s)	inside rSNPs	diseases
5	nsv1025237	chr6:25874326-26280867	Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
6	nsv538163	chr6:25874326-26280867	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
7	esv2755446	chr6:25924513-25981648	Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	nsv432857	chr6:25957109-26072445	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	451 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25963400-25970800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr6:25964000-25966400	Weak transcription	Gastric	stomach
3	chr6:25964000-25966600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:25964000-25967200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:25964200-25966200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr6:25964200-25966600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr6:25964200-25966600	Weak transcription	Esophagus	oesophagus
8	chr6:25964400-25966200	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr6:25964400-25966400	Weak transcription	A549	lung
10	chr6:25964400-25966400	Weak transcription	HepG2	liver
11	chr6:25964400-25966600	Weak transcription	Colonic Mucosa	Colon
12	chr6:25964400-25966600	Weak transcription	Left Ventricle	heart
13	chr6:25964400-25966600	Weak transcription	Ovary	ovary
14	chr6:25964400-25966600	Weak transcription	Pancreas	Pancrea
15	chr6:25964400-25966800	Weak transcription	Brain Anterior Caudate	brain
16	chr6:25964400-25966800	Weak transcription	Right Ventricle	heart
17	chr6:25964400-25967000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr6:25964400-25971000	Weak transcription	NH-A	brain
19	chr6:25964400-25974600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr6:25964400-25981400	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr6:25964600-25966200	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr6:25964600-25966400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr6:25964600-25966600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr6:25964600-25968400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr6:25964600-25968600	Genic enhancers	Primary T cells fromperipheralblood	blood
26	chr6:25964600-25971400	Genic enhancers	Primary T helper cells fromperipheralblood	blood
27	chr6:25964800-25966200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr6:25964800-25966400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr6:25964800-25966400	Enhancers	Primary T killer memory cells from peripheral blood	blood
30	chr6:25964800-25966600	Weak transcription	Right Atrium	heart
31	chr6:25964800-25966800	Weak transcription	K562	blood
32	chr6:25964800-25967400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr6:25964800-25968000	Weak transcription	Fetal Kidney	kidney
34	chr6:25964800-25968600	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr6:25964800-25968600	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr6:25964800-25969400	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
37	chr6:25964800-25969600	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr6:25964800-25978800	Strong transcription	Fetal Thymus	thymus
39	chr6:25965000-25966000	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
40	chr6:25965000-25966000	Weak transcription	Thymus	Thymus
41	chr6:25965000-25966200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr6:25965000-25966400	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr6:25965000-25966400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
44	chr6:25965000-25966400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr6:25965000-25966400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:25965000-25966400	Weak transcription	Fetal Lung	lung
47	chr6:25965000-25966400	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr6:25965000-25966400	Weak transcription	HMEC	breast
49	chr6:25965000-25966600	Weak transcription	Primary hematopoietic stem cells	blood
50	chr6:25965000-25966600	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links