Variant report

Variant	rs16872348
Chromosome Location	chr6:12166499-12166500
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs12662314	0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12663812	1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12664121	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12664849	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];0.88[YRI][hapmap];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2157492	0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2157494	0.80[MEX][hapmap]
rs2228211	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.91[ASN][1000 genomes]
rs2327512	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28769650	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3777756	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3777757	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3777764	1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3777767	0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3777772	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];0.88[YRI][hapmap];0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3777774	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3777777	0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3800499	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];0.88[YRI][hapmap];0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4317394	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4443504	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4484521	1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4714187	1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs55637995	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs60122380	0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6910367	0.95[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs6917623	0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6931770	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72828103	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72828104	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs72828110	0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7449638	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7741589	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];0.88[YRI][hapmap];0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7747677	0.82[CEU][hapmap];0.82[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs9380769	0.83[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830586	chr6:12130076-12295334	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12150600-12166800	Weak transcription	Fetal Brain Male	brain
2	chr6:12152000-12166600	Weak transcription	Fetal Heart	heart
3	chr6:12160800-12170800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:12161400-12175800	Weak transcription	Brain Substantia Nigra	brain
5	chr6:12164000-12170600	Weak transcription	Brain Anterior Caudate	brain
6	chr6:12164000-12173200	Weak transcription	NH-A	brain
7	chr6:12164200-12169000	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr6:12164200-12174200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:12164200-12174800	Weak transcription	HMEC	breast
10	chr6:12164400-12167000	Weak transcription	K562	blood
11	chr6:12164400-12167400	Weak transcription	Fetal Lung	lung
12	chr6:12164400-12169000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr6:12164400-12169200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr6:12164400-12169400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr6:12164400-12169600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr6:12164400-12170400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr6:12164400-12174800	Weak transcription	NHEK	skin
18	chr6:12164600-12166800	Weak transcription	Esophagus	oesophagus
19	chr6:12164600-12167000	Weak transcription	Pancreas	Pancrea
20	chr6:12164600-12167000	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr6:12164600-12167200	Weak transcription	Primary B cells from peripheral blood	blood
22	chr6:12164600-12167600	Weak transcription	Left Ventricle	heart
23	chr6:12164600-12167800	Weak transcription	Brain Angular Gyrus	brain
24	chr6:12164600-12168800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr6:12164600-12168800	Weak transcription	Aorta	Aorta
26	chr6:12164600-12169400	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr6:12164600-12170400	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr6:12164600-12170600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:12164600-12170600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr6:12164600-12170600	Weak transcription	Brain Cingulate Gyrus	brain
31	chr6:12164600-12170800	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr6:12164600-12170800	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr6:12164600-12170800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr6:12164600-12171000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr6:12164600-12171800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr6:12164600-12172200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:12164600-12172200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr6:12164600-12173800	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr6:12164600-12174000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:12164600-12175800	Weak transcription	HSMMtube	muscle
41	chr6:12164600-12176000	Weak transcription	Gastric	stomach
42	chr6:12164800-12166600	Weak transcription	Primary neutrophils fromperipheralblood	blood
43	chr6:12164800-12166600	Weak transcription	Spleen	Spleen
44	chr6:12164800-12167000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr6:12164800-12167200	Weak transcription	Primary B cells from cord blood	blood
46	chr6:12164800-12167200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr6:12164800-12167200	Weak transcription	Fetal Intestine Large	intestine
48	chr6:12164800-12167200	Weak transcription	Fetal Muscle Trunk	muscle
49	chr6:12164800-12167200	Weak transcription	Stomach Smooth Muscle	stomach
50	chr6:12164800-12167200	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links