Variant report

Variant	rs6929462
Chromosome Location	chr6:161443739-161443740
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	chr6:161443448..161446128-chr6:161454619..161456351,3	K562	blood:
2	chr6:161411372..161413087-chr6:161442452..161444110,2	K562	blood:

Variant related genes	Relation type
ENSG00000085511	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1001809	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11754459	1.00[JPT][hapmap]
rs11963931	1.00[JPT][hapmap]
rs13194157	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1464779	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1464780	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1543261	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1562026	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1982291	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2275925	1.00[JPT][hapmap]
rs2275926	1.00[JPT][hapmap]
rs2872613	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs4472323	0.90[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs4559074	1.00[ASN][1000 genomes]
rs4708898	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4709486	0.91[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709489	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709490	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709491	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4709493	1.00[ASN][1000 genomes]
rs4709495	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs4709496	0.91[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs587501	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs615269	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs619393	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs628430	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs628923	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6455701	0.90[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs645718	1.00[ASN][1000 genomes]
rs655605	0.86[EUR][1000 genomes]
rs657551	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs662541	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs668638	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs682110	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs683549	1.00[ASN][1000 genomes]
rs6900500	0.90[CEU][hapmap];1.00[JPT][hapmap]
rs6902332	1.00[ASN][1000 genomes]
rs6902760	1.00[ASN][1000 genomes]
rs6905942	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6908283	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6913706	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914092	1.00[JPT][hapmap]
rs6918476	1.00[ASN][1000 genomes]
rs6919831	1.00[ASN][1000 genomes]
rs6923835	0.90[CEU][hapmap];1.00[JPT][hapmap]
rs6925502	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6925800	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6933810	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs705829	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs705830	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7738762	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7753585	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7760056	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9346846	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9355330	0.90[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9355332	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9355867	0.83[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9355872	1.00[ASN][1000 genomes]
rs9355873	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9364585	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9364586	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9365248	0.91[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9458126	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030045	chr6:161359075-161562255	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1023982	chr6:161382188-161549831	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers 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 target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161414200-161458200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:161414400-161469600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr6:161414600-161457400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:161415600-161450000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr6:161416600-161475200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:161417400-161449000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:161418000-161448800	Weak transcription	Lung	lung
8	chr6:161428600-161455800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr6:161432200-161450000	Weak transcription	HMEC	breast
10	chr6:161432200-161450400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:161432200-161451200	Weak transcription	NHEK	skin
12	chr6:161432600-161455400	Weak transcription	Fetal Intestine Large	intestine
13	chr6:161433000-161449000	Weak transcription	HSMM	muscle
14	chr6:161433000-161458000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr6:161433200-161448800	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:161433200-161450000	Weak transcription	Aorta	Aorta
17	chr6:161433200-161459200	Weak transcription	Fetal Stomach	stomach
18	chr6:161433400-161446200	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr6:161433400-161450000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:161433400-161455600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr6:161433400-161455800	Weak transcription	Fetal Muscle Leg	muscle
22	chr6:161433400-161455800	Weak transcription	Stomach Smooth Muscle	stomach
23	chr6:161433400-161459000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr6:161433600-161458200	Weak transcription	Fetal Brain Female	brain
25	chr6:161433600-161459600	Weak transcription	Brain Germinal Matrix	brain
26	chr6:161433800-161444400	Weak transcription	NHDF-Ad	bronchial
27	chr6:161433800-161448400	Weak transcription	NH-A	brain
28	chr6:161433800-161451000	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr6:161434000-161449800	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr6:161434000-161455600	Weak transcription	Adipose Nuclei	Adipose
31	chr6:161434000-161459000	Weak transcription	Brain Hippocampus Middle	brain
32	chr6:161434200-161443800	Weak transcription	Osteobl	bone
33	chr6:161434200-161450000	Weak transcription	Primary B cells from peripheral blood	blood
34	chr6:161434800-161458200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr6:161435000-161448800	Weak transcription	Gastric	stomach
36	chr6:161435000-161448800	Weak transcription	Pancreas	Pancrea
37	chr6:161435000-161449600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr6:161435000-161452200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr6:161435000-161458000	Weak transcription	Fetal Muscle Trunk	muscle
40	chr6:161435000-161458800	Weak transcription	Duodenum Mucosa	Duodenum
41	chr6:161435000-161490400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr6:161435200-161446800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr6:161435200-161446800	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr6:161435200-161450400	Weak transcription	Primary neutrophils fromperipheralblood	blood
45	chr6:161435200-161454800	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr6:161435200-161455800	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr6:161435400-161450400	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr6:161436800-161455600	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr6:161437000-161444400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr6:161437000-161451200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links