Variant report

Variant	rs16896390
Chromosome Location	chr6:34982599-34982600
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:34982152..34983781-chr6:35004526..35006125,2	K562	blood:
2	chr6:34980740..34983781-chr6:35003942..35006125,3	K562	blood:
3	chr6:34981724..34983680-chr6:34987265..34989470,3	K562	blood:
4	chr6:34981992..34984484-chr6:34985319..34987073,2	K562	blood:
5	chr6:34976217..34981550-chr6:34982184..34986897,6	K562	blood:
6	chr6:34981452..34983492-chr6:34985048..34986819,2	K562	blood:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10807144	0.82[ASN][1000 genomes]
rs10947536	0.82[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs12212217	0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs12661991	0.81[ASN][1000 genomes]
rs13219624	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs1555107	0.80[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap]
rs1568705	0.81[JPT][hapmap]
rs16896553	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs1737727	0.82[CHB][hapmap]
rs1996913	0.84[GIH][hapmap]
rs2049316	0.90[JPT][hapmap];0.83[MEX][hapmap]
rs2140418	0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2177381	0.82[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs2273006	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs2293242	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs2473613	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs2504162	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs2504168	0.81[ASN][1000 genomes]
rs2985	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs3734262	0.80[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.82[GIH][hapmap];0.82[JPT][hapmap];0.91[MEX][hapmap]
rs3800424	0.91[JPT][hapmap]
rs3800426	0.80[JPT][hapmap]
rs3800430	0.91[JPT][hapmap]
rs3800433	0.83[CHD][hapmap];0.84[GIH][hapmap];0.91[JPT][hapmap];0.83[MEX][hapmap]
rs3800451	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs4432973	0.81[ASN][1000 genomes]
rs6905468	0.80[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.91[MEX][hapmap]
rs6907619	0.86[CHB][hapmap];0.84[CHD][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.91[MEX][hapmap]
rs6918872	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs6932857	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs7759369	0.81[ASN][1000 genomes]
rs820068	0.81[JPT][hapmap]
rs820073	0.84[JPT][hapmap]
rs820074	0.81[JPT][hapmap]
rs820076	0.81[JPT][hapmap]
rs820089	0.81[JPT][hapmap]
rs820094	0.81[JPT][hapmap]
rs820098	0.81[JPT][hapmap]
rs847848	0.86[CHB][hapmap];0.84[CHD][hapmap];0.82[JPT][hapmap]
rs865353	0.81[JPT][hapmap]
rs9296139	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs9357188	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs9357193	0.81[CHB][hapmap];0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs9368834	0.80[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.91[MEX][hapmap]
rs9380482	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469933	0.91[JPT][hapmap]
rs9784818	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34925600-34984800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr6:34926800-34992200	Weak transcription	Small Intestine	intestine
3	chr6:34939400-35016000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr6:34960200-34988200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:34961000-34985200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:34961200-34983400	Weak transcription	Fetal Kidney	kidney
7	chr6:34962200-34984800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr6:34962800-34983600	Weak transcription	Osteobl	bone
9	chr6:34962800-34985200	Weak transcription	Brain Germinal Matrix	brain
10	chr6:34963000-34982600	Weak transcription	Stomach Smooth Muscle	stomach
11	chr6:34963000-34985000	Weak transcription	Fetal Brain Female	brain
12	chr6:34963000-34985200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr6:34963000-34985400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr6:34963000-34985600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr6:34963000-34985600	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:34963000-34985600	Weak transcription	NHEK	skin
17	chr6:34963000-34987800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:34963000-34989400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr6:34963600-34983400	Weak transcription	Colonic Mucosa	Colon
20	chr6:34963600-34990000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:34963600-35006600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr6:34964200-34985400	Weak transcription	Primary B cells from peripheral blood	blood
23	chr6:34965800-34985400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr6:34965800-34985400	Weak transcription	HepG2	liver
25	chr6:34966000-34985400	Weak transcription	Primary hematopoietic stem cells	blood
26	chr6:34966400-34985000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:34967000-34983400	Weak transcription	Ovary	ovary
28	chr6:34967000-34984600	Weak transcription	Duodenum Mucosa	Duodenum
29	chr6:34967000-34985200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:34967000-34985200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr6:34967000-34985200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr6:34967000-34985200	Weak transcription	Thymus	Thymus
33	chr6:34967200-34985600	Weak transcription	Primary B cells from cord blood	blood
34	chr6:34970800-34983400	Weak transcription	Liver	Liver
35	chr6:34971000-34983800	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr6:34971000-34984600	Weak transcription	Primary T cells fromperipheralblood	blood
37	chr6:34971000-34985200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr6:34971000-34988400	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr6:34971200-34983200	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr6:34971200-34984400	Weak transcription	Fetal Intestine Large	intestine
41	chr6:34971200-34984800	Weak transcription	Primary T helper cells fromperipheralblood	blood
42	chr6:34971200-34985000	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr6:34973200-34983800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:34973200-34985400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr6:34975800-34985000	Weak transcription	Primary T cells from cord blood	blood
46	chr6:34977000-34984000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:34978400-34985600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:34978800-34985200	Enhancers	Brain Hippocampus Middle	brain
49	chr6:34979400-34982600	Weak transcription	Fetal Lung	lung
50	chr6:34979400-34985200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links