Variant report

Variant	rs6921303
Chromosome Location	chr6:109952733-109952734
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 196 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:187)

rs_ID	r²[population]
rs10457201	0.82[EUR][1000 genomes]
rs10872041	0.80[EUR][1000 genomes]
rs10872047	0.80[EUR][1000 genomes]
rs10872051	0.82[EUR][1000 genomes]
rs10872052	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs1096136	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1096138	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1096139	0.81[EUR][1000 genomes]
rs1096142	0.81[EUR][1000 genomes]
rs11153193	0.81[EUR][1000 genomes]
rs11153200	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs11153201	0.84[EUR][1000 genomes]
rs1115977	0.84[EUR][1000 genomes]
rs11751112	0.82[YRI][hapmap]
rs11753828	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs11754263	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757485	0.82[CEU][hapmap];1.00[CHB][hapmap];0.80[YRI][hapmap]
rs11968485	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs12200787	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12204769	0.82[EUR][1000 genomes]
rs12215867	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs12524352	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs12663674	0.80[EUR][1000 genomes]
rs1321327	0.81[CEU][hapmap];0.83[EUR][1000 genomes]
rs1406957	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs1474959	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs1570011	0.81[EUR][1000 genomes]
rs1570012	0.82[EUR][1000 genomes]
rs1570013	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs1575109	0.85[EUR][1000 genomes]
rs17540056	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs17612758	0.82[CEU][hapmap];1.00[CHB][hapmap];0.84[YRI][hapmap]
rs17612996	0.83[YRI][hapmap]
rs1925921	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1967725	0.84[EUR][1000 genomes]
rs1969710	0.83[EUR][1000 genomes]
rs1969711	0.84[EUR][1000 genomes]
rs2016207	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs2064820	0.80[EUR][1000 genomes]
rs2064822	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2145144	0.81[CEU][hapmap]
rs2232448	0.83[YRI][hapmap]
rs2357123	0.80[EUR][1000 genomes]
rs2357125	0.82[EUR][1000 genomes]
rs2357127	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2357130	0.82[EUR][1000 genomes]
rs2884101	0.82[EUR][1000 genomes]
rs4296926	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4454170	0.82[EUR][1000 genomes]
rs4523125	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs4946982	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946986	0.80[EUR][1000 genomes]
rs4946987	0.80[EUR][1000 genomes]
rs4946989	0.82[EUR][1000 genomes]
rs4946991	0.82[EUR][1000 genomes]
rs4946992	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs4946995	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946996	0.84[EUR][1000 genomes]
rs4946997	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946998	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946999	0.82[EUR][1000 genomes]
rs4947002	0.81[EUR][1000 genomes]
rs4947003	0.81[EUR][1000 genomes]
rs4947004	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4947006	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56125306	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56264193	0.81[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61170920	0.83[EUR][1000 genomes]
rs62437563	0.87[EUR][1000 genomes]
rs6568578	1.00[CHB][hapmap]
rs6568579	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6568582	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6568583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6568586	0.82[EUR][1000 genomes]
rs6568590	0.81[EUR][1000 genomes]
rs6568591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6568595	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs6568601	0.87[EUR][1000 genomes]
rs6900133	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6900187	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6911851	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6912368	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6916239	0.85[CEU][hapmap]
rs6917300	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924269	0.82[CEU][hapmap]
rs6924436	0.88[EUR][1000 genomes]
rs6925886	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6929823	0.81[EUR][1000 genomes]
rs6931630	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6932774	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6938741	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6942171	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[YRI][hapmap];0.87[EUR][1000 genomes]
rs731879	0.81[EUR][1000 genomes]
rs7450970	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs7453835	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs7454678	0.83[EUR][1000 genomes]
rs7744981	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs7745469	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs7749386	0.84[EUR][1000 genomes]
rs7749910	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs7754118	0.84[EUR][1000 genomes]
rs7754606	0.84[EUR][1000 genomes]
rs7756284	0.82[CEU][hapmap];0.83[YRI][hapmap]
rs7761008	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs7764783	0.81[EUR][1000 genomes]
rs7765265	0.82[EUR][1000 genomes]
rs7769789	1.00[CHB][hapmap]
rs7771729	0.89[EUR][1000 genomes]
rs7772109	0.87[EUR][1000 genomes]
rs7773915	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7775420	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs829815	0.81[EUR][1000 genomes]
rs829816	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs829817	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs911022	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs911023	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9320290	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9320299	0.81[EUR][1000 genomes]
rs9320300	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9320303	1.00[CEU][hapmap]
rs9320304	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs9320305	0.84[EUR][1000 genomes]
rs9372216	0.81[EUR][1000 genomes]
rs9372220	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9372221	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs9372222	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs9374095	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs9374096	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374097	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs9374099	0.80[EUR][1000 genomes]
rs9374108	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs9374110	0.80[CEU][hapmap]
rs9374113	0.81[EUR][1000 genomes]
rs9374114	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs9384713	0.80[EUR][1000 genomes]
rs9384715	0.81[EUR][1000 genomes]
rs9384716	0.82[EUR][1000 genomes]
rs9384720	0.81[EUR][1000 genomes]
rs9386812	0.80[EUR][1000 genomes]
rs9386813	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs9386814	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9386816	0.81[EUR][1000 genomes]
rs9386818	0.80[CEU][hapmap];0.84[EUR][1000 genomes]
rs9386823	0.84[EUR][1000 genomes]
rs9386824	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs9386825	0.84[EUR][1000 genomes]
rs9386826	0.85[EUR][1000 genomes]
rs9398206	0.82[EUR][1000 genomes]
rs9400289	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9400291	0.80[EUR][1000 genomes]
rs9400294	0.80[EUR][1000 genomes]
rs9400295	0.80[EUR][1000 genomes]
rs9400300	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9400301	0.84[EUR][1000 genomes]
rs9400307	0.82[EUR][1000 genomes]
rs9400310	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs9400312	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs9400313	0.80[CEU][hapmap];0.81[EUR][1000 genomes]
rs9400315	0.81[EUR][1000 genomes]
rs9400316	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs9480973	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs9480974	0.80[EUR][1000 genomes]
rs9480976	0.80[EUR][1000 genomes]
rs9480982	0.84[EUR][1000 genomes]
rs9480984	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs9480985	0.84[EUR][1000 genomes]
rs9480986	0.82[EUR][1000 genomes]
rs9480991	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs9487141	0.80[EUR][1000 genomes]
rs9487148	0.80[EUR][1000 genomes]
rs9487156	0.82[EUR][1000 genomes]
rs9487160	0.84[EUR][1000 genomes]
rs9487164	0.83[EUR][1000 genomes]
rs9487170	0.84[EUR][1000 genomes]
rs9487171	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs9487172	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs9487175	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs9487176	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs9487178	0.84[EUR][1000 genomes]
rs9487179	0.80[EUR][1000 genomes]
rs9487180	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs9487183	0.80[EUR][1000 genomes]
rs971432	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs971433	0.81[EUR][1000 genomes]
rs9968792	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9986423	0.81[EUR][1000 genomes]
rs9986507	0.81[CEU][hapmap];0.84[EUR][1000 genomes]

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	nsv1026012	chr6:109851638-109999379	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv604484	chr6:109851937-109997529	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1019389	chr6:109868058-109987502	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv538416	chr6:109868058-109987502	Genic enhancers ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv917318	chr6:109885195-109982375	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv949475	chr6:109907936-110160501	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv933105	chr6:109933270-110064342	ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv817322	chr6:109933272-110070574	Strong transcription Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
9	nsv830769	chr6:109944334-110078120	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6921303	C6orf199	Cis_1M	lymphoblastoid	RTeQTL
rs6921303	SMPD2	cis	Whole Blood	GTEx

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109928000-109966400	Weak transcription	Pancreas	Pancrea
2	chr6:109933000-109962800	Weak transcription	Left Ventricle	heart
3	chr6:109933000-109966400	Weak transcription	Brain Germinal Matrix	brain
4	chr6:109933000-109985200	Weak transcription	Psoas Muscle	Psoas
5	chr6:109945400-109966400	Weak transcription	Duodenum Mucosa	Duodenum
6	chr6:109947200-109966800	Weak transcription	Gastric	stomach
7	chr6:109947400-109961200	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr6:109948000-109995000	Weak transcription	Brain Anterior Caudate	brain
9	chr6:109949600-109961200	Weak transcription	Lung	lung
10	chr6:109949600-109961200	Weak transcription	Spleen	Spleen
11	chr6:109949800-109952800	Weak transcription	Primary hematopoietic stem cells	blood
12	chr6:109949800-109954600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr6:109949800-109956400	Weak transcription	Aorta	Aorta
14	chr6:109949800-109961200	Weak transcription	Fetal Brain Female	brain
15	chr6:109950200-109952800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr6:109950200-109957800	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr6:109950800-109953000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr6:109950800-109953200	Weak transcription	Primary T cells from cord blood	blood
19	chr6:109950800-109956800	Weak transcription	Thymus	Thymus
20	chr6:109950800-109958800	Weak transcription	Fetal Thymus	thymus
21	chr6:109951200-109953200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr6:109951400-109953000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:109951400-109954000	Strong transcription	Primary B cells from cord blood	blood
24	chr6:109952000-109952800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr6:109952000-109953200	Weak transcription	Ovary	ovary
26	chr6:109952200-109961200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr6:109952600-109953400	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
28	chr6:109952600-109953800	ZNF genes & repeats	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links