Variant report

Variant	rs13209168
Chromosome Location	chr6:11712013-11712014
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11710777..11713015-chr6:11730009..11731518,2	K562	blood:
2	chr6:11710372..11713269-chr6:11723329..11725416,2	K562	blood:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11753766	0.83[CEU][hapmap]
rs11754465	0.83[CEU][hapmap]
rs11755870	0.80[CEU][hapmap]
rs11757650	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13192105	0.80[CEU][hapmap]
rs13193682	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13196141	0.80[CEU][hapmap]
rs13201084	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13206650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13210680	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13215825	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13219857	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1413346	0.91[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17480539	0.80[CEU][hapmap]
rs760790	1.00[CEU][hapmap];0.83[YRI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758036	chr6:11679753-11822351	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759407	chr6:11679753-11822351	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv428470	chr6:11686198-11747850	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv462637	chr6:11710554-11733777	Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv600990	chr6:11710554-11733777	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11701800-11713000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:11703600-11712600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:11704200-11714800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:11708200-11714800	Enhancers	Primary T cells fromperipheralblood	blood
5	chr6:11708400-11716800	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr6:11709000-11714800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:11709000-11715800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr6:11709000-11716400	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr6:11709800-11716400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:11710000-11712200	Enhancers	Fetal Stomach	stomach
11	chr6:11710000-11715200	Enhancers	Fetal Thymus	thymus
12	chr6:11710400-11712200	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr6:11710400-11712800	Enhancers	NHEK	skin
14	chr6:11710400-11713200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:11710400-11713400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:11710400-11713400	Enhancers	Spleen	Spleen
17	chr6:11710400-11713600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:11710600-11712800	Enhancers	Fetal Lung	lung
19	chr6:11710600-11713200	Enhancers	HMEC	breast
20	chr6:11710800-11712200	Enhancers	Brain Hippocampus Middle	brain
21	chr6:11710800-11712600	Enhancers	Esophagus	oesophagus
22	chr6:11710800-11712800	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr6:11710800-11713600	Enhancers	NHLF	lung
24	chr6:11710800-11731000	Weak transcription	Gastric	stomach
25	chr6:11711000-11712200	Enhancers	Fetal Brain Male	brain
26	chr6:11711000-11712200	Enhancers	NH-A	brain
27	chr6:11711000-11712800	Enhancers	Right Atrium	heart
28	chr6:11711200-11713000	Enhancers	NHDF-Ad	bronchial
29	chr6:11711200-11715400	Flanking Active TSS	GM12878-XiMat	blood
30	chr6:11711200-11731000	Weak transcription	Fetal Intestine Small	intestine
31	chr6:11711400-11712200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
32	chr6:11711400-11712200	Enhancers	Muscle Satellite Cultured Cells	--
33	chr6:11711400-11712200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr6:11711400-11712200	Weak transcription	Left Ventricle	heart
35	chr6:11711400-11712400	Enhancers	HSMM	muscle
36	chr6:11711400-11712600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr6:11711400-11712800	Enhancers	Primary hematopoietic stem cells	blood
38	chr6:11711400-11713000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr6:11711400-11713200	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr6:11711400-11713400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr6:11711400-11713400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr6:11711400-11713800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:11711400-11715400	Enhancers	Primary B cells from cord blood	blood
44	chr6:11711400-11718400	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr6:11711400-11719200	Weak transcription	Duodenum Mucosa	Duodenum
46	chr6:11711600-11712200	Enhancers	Brain Germinal Matrix	brain
47	chr6:11711600-11712400	Enhancers	Primary T helper cells PMA-I stimulated	--
48	chr6:11711600-11713800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr6:11711600-11715200	Enhancers	Primary B cells from peripheral blood	blood
50	chr6:11711600-11731800	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links