Variant report

Variant	rs2505941
Chromosome Location	chr6:80860072-80860073
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10943700	1.00[EUR][1000 genomes]
rs151643	1.00[EUR][1000 genomes]
rs151647	1.00[EUR][1000 genomes]
rs151659	1.00[EUR][1000 genomes]
rs16891543	1.00[CEU][hapmap];1.00[LWK][hapmap];0.84[MKK][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes]
rs16891547	1.00[CEU][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes]
rs16891556	1.00[CEU][hapmap];0.80[YRI][hapmap]
rs187066	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs192130	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2182852	1.00[EUR][1000 genomes]
rs239499	1.00[EUR][1000 genomes]
rs239503	1.00[EUR][1000 genomes]
rs239510	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs239513	1.00[EUR][1000 genomes]
rs239557	1.00[CEU][hapmap]
rs239559	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs239561	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs239565	1.00[EUR][1000 genomes]
rs240215	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs240223	1.00[EUR][1000 genomes]
rs240227	1.00[EUR][1000 genomes]
rs2490225	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2490229	1.00[EUR][1000 genomes]
rs2490231	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2490233	1.00[EUR][1000 genomes]
rs2490237	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2490238	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2490242	1.00[EUR][1000 genomes]
rs2490246	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2490247	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2505931	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2505933	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2505934	1.00[CEU][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes]
rs2505936	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2505938	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2505943	1.00[EUR][1000 genomes]
rs2505947	1.00[EUR][1000 genomes]
rs2769338	1.00[EUR][1000 genomes]
rs2997392	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2997393	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56935289	1.00[EUR][1000 genomes]
rs58231181	1.00[EUR][1000 genomes]
rs58621476	1.00[EUR][1000 genomes]
rs58678861	1.00[EUR][1000 genomes]
rs60398437	1.00[EUR][1000 genomes]
rs61477549	1.00[EUR][1000 genomes]
rs6454141	1.00[EUR][1000 genomes]
rs6912898	1.00[EUR][1000 genomes]
rs6925435	1.00[EUR][1000 genomes]
rs73748800	1.00[EUR][1000 genomes]
rs7748996	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs806842	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9448918	1.00[EUR][1000 genomes]
rs9448921	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9448922	1.00[EUR][1000 genomes]
rs9448927	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830708	chr6:80844283-80996876	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv524214	chr6:80853873-80892427	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1034096	chr6:80856135-81150170	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80818000-80861400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:80818000-80866000	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr6:80836400-80863000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr6:80836400-80891200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:80837000-80895200	Weak transcription	Fetal Intestine Small	intestine
6	chr6:80838600-80873200	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:80839200-80873200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:80839200-80889600	Weak transcription	Lung	lung
9	chr6:80840000-80860800	Weak transcription	Fetal Intestine Large	intestine
10	chr6:80841000-80860800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr6:80841200-80861400	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr6:80841200-80895800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr6:80841400-80873400	Weak transcription	Primary B cells from peripheral blood	blood
14	chr6:80842200-80914200	Weak transcription	Primary B cells from cord blood	blood
15	chr6:80844200-80861400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr6:80844200-80873200	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr6:80846400-80861400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:80847800-80860200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:80853000-80860600	Weak transcription	Brain Cingulate Gyrus	brain
20	chr6:80853400-80877200	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr6:80853600-80862400	Weak transcription	Psoas Muscle	Psoas
22	chr6:80853600-80862600	Weak transcription	Pancreas	Pancrea
23	chr6:80853600-80873400	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr6:80853800-80891800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:80854400-80860400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr6:80854800-80860200	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr6:80855200-80880200	Weak transcription	Brain Angular Gyrus	brain
28	chr6:80855200-80907000	Weak transcription	Brain Hippocampus Middle	brain
29	chr6:80855200-80907200	Weak transcription	Ovary	ovary
30	chr6:80855400-80886200	Weak transcription	Fetal Muscle Leg	muscle
31	chr6:80855400-80895400	Weak transcription	Fetal Stomach	stomach
32	chr6:80855600-80860800	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr6:80855600-80861600	Weak transcription	Right Ventricle	heart
34	chr6:80855600-80872800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:80855800-80861600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr6:80855800-80863200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr6:80855800-80896000	Weak transcription	Aorta	Aorta
38	chr6:80856000-80861400	Weak transcription	Fetal Heart	heart
39	chr6:80856000-80863000	Weak transcription	Left Ventricle	heart
40	chr6:80856000-80873000	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr6:80856600-80873200	Weak transcription	Primary T helper cells fromperipheralblood	blood
42	chr6:80856800-80878400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr6:80858000-80870600	Weak transcription	HSMM	muscle
44	chr6:80858200-80873200	Weak transcription	Primary T cells from cord blood	blood
45	chr6:80858200-80877400	Weak transcription	Liver	Liver
46	chr6:80858400-80880200	Weak transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links