Variant report

Variant	rs16890298
Chromosome Location	chr6:37955639-37955640
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:37919246..37922240-chr6:37953708..37956298,2	K562	blood:
2	chr6:37954058..37955830-chr6:37961204..37963273,2	K562	blood:

Extended variants
information (count: 143 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:134)

rs_ID	r²[population]
rs10485030	0.85[CHB][hapmap]
rs10498739	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10498740	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10947702	0.86[CHB][hapmap]
rs10947704	0.85[CHB][hapmap]
rs10947710	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11750950	0.95[CHB][hapmap];0.89[JPT][hapmap];0.97[ASN][1000 genomes]
rs11751781	0.86[CHB][hapmap]
rs11752521	0.86[CHB][hapmap]
rs11752863	0.94[ASN][1000 genomes]
rs11753054	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11755629	0.86[CHB][hapmap]
rs11756713	0.86[CHB][hapmap]
rs11756902	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs11757072	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs11757323	0.94[ASN][1000 genomes]
rs11758095	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs11759483	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs11759725	0.93[ASN][1000 genomes]
rs11759826	0.86[CHB][hapmap]
rs12660221	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12660498	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12660732	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12660773	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12660922	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12661073	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12661109	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12661129	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12661378	0.85[CHB][hapmap]
rs12661480	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12662305	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12662426	0.85[CHB][hapmap]
rs12662823	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12663086	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12663207	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs12663427	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12663957	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12664091	0.85[CHB][hapmap]
rs12664768	0.86[CHB][hapmap]
rs12664900	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs13206035	0.85[CHB][hapmap]
rs16890168	0.87[JPT][hapmap]
rs16890175	0.90[CHB][hapmap]
rs16890177	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs16890181	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs16890215	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs16890247	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs16890299	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16890301	0.90[CHB][hapmap];0.85[ASN][1000 genomes]
rs16890305	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs16890307	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs16890309	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs16890341	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs16890362	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16890370	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1885324	0.90[CHB][hapmap]
rs2055207	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2055208	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2064795	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2145887	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2273441	0.85[CHB][hapmap]
rs2274090	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2274091	0.85[CHB][hapmap]
rs2395689	0.90[CHB][hapmap]
rs2395692	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2395693	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2645111	0.81[ASN][1000 genomes]
rs2645125	0.84[ASN][1000 genomes]
rs2842510	0.85[CHB][hapmap]
rs2842511	0.90[CHB][hapmap]
rs2842521	0.85[CHB][hapmap];0.84[ASN][1000 genomes]
rs28740822	0.94[ASN][1000 genomes]
rs34370874	0.94[ASN][1000 genomes]
rs35051126	0.81[ASN][1000 genomes]
rs3800364	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs3844314	0.86[CHB][hapmap]
rs3852216	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4524602	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs55786703	0.98[ASN][1000 genomes]
rs56348433	0.94[ASN][1000 genomes]
rs56390138	0.94[ASN][1000 genomes]
rs57160603	0.94[ASN][1000 genomes]
rs57198506	1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs57276677	0.93[ASN][1000 genomes]
rs57458792	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57591988	0.96[ASN][1000 genomes]
rs57911756	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs57995712	0.94[ASN][1000 genomes]
rs58084785	1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs58320470	1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs58473303	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs58692659	1.00[AMR][1000 genomes]
rs59036086	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs59103990	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs59649654	1.00[AMR][1000 genomes]
rs59769374	0.94[ASN][1000 genomes]
rs59859268	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs59996041	0.99[ASN][1000 genomes]
rs60141491	0.80[ASN][1000 genomes]
rs60284537	1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs60404082	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs60508820	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs60637081	1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs60883115	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61090283	1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs61108907	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs61277916	1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs61332486	1.00[AMR][1000 genomes]
rs61466900	1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6458032	0.86[CHB][hapmap]
rs6906289	0.80[CHB][hapmap]
rs6911716	0.86[CHB][hapmap]
rs71569402	0.82[ASN][1000 genomes]
rs73421436	0.94[ASN][1000 genomes]
rs73421439	0.94[ASN][1000 genomes]
rs752110	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs7739801	0.94[CHB][hapmap];0.88[ASN][1000 genomes]
rs7742226	0.85[CHB][hapmap]
rs7746266	0.85[CHB][hapmap]
rs7748312	0.86[CHB][hapmap]
rs7748392	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7756261	0.86[CHB][hapmap]
rs7759792	0.85[CHB][hapmap]
rs7761561	0.81[CHB][hapmap]
rs7764130	0.86[CHB][hapmap]
rs7773419	0.85[CHB][hapmap]
rs7775794	0.86[CHB][hapmap]
rs874095	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs876818	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs9470772	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9470777	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9470784	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9470794	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9470798	0.95[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers 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
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1018711	chr6:37813397-37981590	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv602956	chr6:37909084-37986489	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	esv2761037	chr6:37930659-37966762	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37922800-37957600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:37922800-37958600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:37942800-37956800	Weak transcription	Aorta	Aorta
4	chr6:37943000-37955800	Weak transcription	Fetal Heart	heart
5	chr6:37946800-37955800	Weak transcription	Primary B cells from cord blood	blood
6	chr6:37948000-37956800	Weak transcription	Pancreas	Pancrea
7	chr6:37948400-37957600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr6:37948400-37958600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr6:37948600-37957800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:37949800-37956800	Weak transcription	Right Atrium	heart
11	chr6:37949800-37962000	Weak transcription	Small Intestine	intestine
12	chr6:37950000-37963600	Weak transcription	Spleen	Spleen
13	chr6:37950400-37956000	Weak transcription	Brain Cingulate Gyrus	brain
14	chr6:37950400-37957000	Weak transcription	Duodenum Mucosa	Duodenum
15	chr6:37950400-37958800	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr6:37951800-37959800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr6:37952200-37961400	Enhancers	Liver	Liver
18	chr6:37952600-37957800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:37952600-37958600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:37953400-37955800	Enhancers	Primary T helper cells fromperipheralblood	blood
21	chr6:37953400-37956000	Weak transcription	K562	blood
22	chr6:37953400-37957200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
23	chr6:37953400-37958600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr6:37953400-37960400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr6:37953400-37962600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr6:37953400-37962600	Weak transcription	Lung	lung
27	chr6:37953400-37965200	Weak transcription	Esophagus	oesophagus
28	chr6:37953600-37957200	Enhancers	HepG2	liver
29	chr6:37953600-37958600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:37953800-37956600	Enhancers	Pancreatic Islets	Pancreatic Islet
31	chr6:37953800-37956600	Enhancers	Stomach Mucosa	stomach
32	chr6:37953800-37957600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr6:37954000-37956800	Enhancers	Osteobl	bone
34	chr6:37954000-37958000	Enhancers	Fetal Lung	lung
35	chr6:37954000-37958800	Enhancers	Brain Anterior Caudate	brain
36	chr6:37954000-37959600	Enhancers	HSMMtube	muscle
37	chr6:37954000-37960200	Enhancers	Colon Smooth Muscle	Colon
38	chr6:37954000-37960600	Enhancers	HSMM	muscle
39	chr6:37954200-37956000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr6:37954200-37956600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr6:37954200-37957200	Enhancers	NH-A	brain
42	chr6:37954200-37957400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr6:37954200-37963000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr6:37954400-37956000	Weak transcription	GM12878-XiMat	blood
45	chr6:37954400-37956400	Enhancers	A549	lung
46	chr6:37954400-37956800	Weak transcription	Psoas Muscle	Psoas
47	chr6:37954400-37957200	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr6:37954400-37960200	Enhancers	Muscle Satellite Cultured Cells	--
49	chr6:37954600-37957800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr6:37954600-37960200	Enhancers	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links