Variant report

Variant	rs344005
Chromosome Location	chr3:156404542-156404543
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156399372..156402148-chr3:156402188..156404792,4	MCF-7	breast:
2	chr3:156396313..156400179-chr3:156402067..156404958,4	K562	blood:
3	chr3:156402576..156405420-chr3:156534127..156536182,3	MCF-7	breast:
4	chr3:156404124..156405692-chr3:156554376..156556285,2	K562	blood:
5	chr3:156401581..156406675-chr3:156542145..156546248,5	MCF-7	breast:
6	chr3:156390425..156393975-chr3:156403365..156406512,4	K562	blood:
7	chr3:156402796..156405445-chr3:156530779..156533531,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163659	Chromatin interaction
ENSG00000243926	Chromatin interaction
ENSG00000240875	Chromatin interaction
ENSG00000197980	Chromatin interaction

Extended variants
information (count: 117 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs11710516	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11927500	1.00[CHB][hapmap]
rs1355280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1397194	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1397195	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1510269	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1510270	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs168245	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16826858	1.00[CHB][hapmap]
rs16826864	1.00[CHB][hapmap]
rs168295	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs171077	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs171080	1.00[CHB][hapmap]
rs180746	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs180747	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs182935	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs182936	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs184677	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1858229	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs186928	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs193198	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs193423	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2054881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2129909	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2136691	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2136692	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs237245	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs237246	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2633815	1.00[CHB][hapmap]
rs2665390	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.95[ASN][1000 genomes]
rs343991	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs343992	1.00[CHB][hapmap]
rs343995	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs343996	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs343997	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs343998	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344000	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs344001	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs344006	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344008	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs344009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344010	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344011	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344012	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344013	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344014	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344015	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344016	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs344017	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344023	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs344026	1.00[CEU][hapmap]
rs344029	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs344032	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344047	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs344048	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs344049	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs344050	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs344052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344053	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344054	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344055	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344058	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344059	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344060	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344061	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs344062	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs344064	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344065	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344066	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344068	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344069	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344070	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344074	1.00[CHB][hapmap]
rs344076	1.00[CHB][hapmap]
rs344078	1.00[CHB][hapmap]
rs344081	1.00[CHB][hapmap]
rs344083	1.00[CHB][hapmap]
rs344086	1.00[CHB][hapmap]
rs344090	1.00[CHB][hapmap]
rs344091	1.00[CHB][hapmap]
rs344092	1.00[CHB][hapmap]
rs345987	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs414683	1.00[CHB][hapmap]
rs419287	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs427384	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4279048	0.94[ASN][1000 genomes]
rs4429586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4679784	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4680297	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4680298	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4680299	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs491423	1.00[CHB][hapmap]
rs5012666	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6441089	0.83[AMR][1000 genomes]
rs6441092	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6441093	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6441094	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6441095	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6441099	1.00[CHB][hapmap]
rs6441100	1.00[CHB][hapmap]
rs6786167	1.00[CHB][hapmap]
rs6799457	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7630909	1.00[CHB][hapmap]
rs7640593	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs871232	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs871233	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs907063	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs931990	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs978108	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs978109	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9823112	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9833951	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9861359	1.00[CHB][hapmap]
rs9877043	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9878709	1.00[CHB][hapmap]

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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156394000-156436000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:156394200-156412600	Weak transcription	Placenta	Placenta
3	chr3:156394400-156404800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr3:156394400-156411800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:156395600-156438600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:156395800-156408600	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:156396200-156407400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:156396400-156407400	Weak transcription	Esophagus	oesophagus
9	chr3:156396400-156407400	Weak transcription	Spleen	Spleen
10	chr3:156396400-156408800	Weak transcription	Colonic Mucosa	Colon
11	chr3:156396400-156413000	Weak transcription	Fetal Muscle Trunk	muscle
12	chr3:156396400-156414400	Weak transcription	Thymus	Thymus
13	chr3:156396400-156424800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr3:156396600-156441000	Weak transcription	Lung	lung
15	chr3:156397800-156413000	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr3:156398400-156408800	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr3:156398600-156409600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr3:156399200-156405800	Enhancers	Primary T helper naive cells from peripheral blood	blood
19	chr3:156399200-156407400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr3:156399200-156407400	Weak transcription	Fetal Intestine Large	intestine
21	chr3:156399200-156412400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr3:156399600-156407400	Weak transcription	Fetal Brain Female	brain
23	chr3:156399800-156407400	Weak transcription	Gastric	stomach
24	chr3:156399800-156408600	Genic enhancers	NHEK	skin
25	chr3:156399800-156410200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr3:156399800-156411200	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr3:156399800-156411400	Weak transcription	Fetal Thymus	thymus
28	chr3:156399800-156411800	Enhancers	Brain Hippocampus Middle	brain
29	chr3:156399800-156413200	Weak transcription	Fetal Muscle Leg	muscle
30	chr3:156400000-156412200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr3:156400400-156411600	Weak transcription	Primary hematopoietic stem cells	blood
32	chr3:156400600-156405800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr3:156401200-156406400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
34	chr3:156401600-156409400	Enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr3:156402000-156404600	Enhancers	Primary neutrophils fromperipheralblood	blood
36	chr3:156402200-156406600	Enhancers	Stomach Mucosa	stomach
37	chr3:156402600-156404600	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
38	chr3:156402600-156405000	Enhancers	Primary T cells from cord blood	blood
39	chr3:156402600-156405400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
40	chr3:156402600-156405600	Weak transcription	Left Ventricle	heart
41	chr3:156402600-156405800	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr3:156402600-156407400	Weak transcription	Right Atrium	heart
43	chr3:156402600-156410800	Enhancers	Liver	Liver
44	chr3:156402800-156404600	Enhancers	Primary B cells from cord blood	blood
45	chr3:156402800-156404600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr3:156402800-156405000	Enhancers	Skeletal Muscle Male	skeletal muscle
47	chr3:156402800-156405800	Genic enhancers	Hela-S3	cervix
48	chr3:156402800-156409400	Enhancers	Fetal Heart	heart
49	chr3:156403000-156405800	Enhancers	Brain Substantia Nigra	brain
50	chr3:156403000-156406000	Transcr. at gene 5' and 3'	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links