Variant report

Variant	rs9965287
Chromosome Location	chr18:13504354-13504355
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:13501771..13505079-chr18:13539153..13541941,3	MCF-7	breast:
2	chr18:13441372..13443737-chr18:13501691..13504430,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs12607174	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs12955640	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs13381731	1.00[JPT][hapmap]
rs1559861	0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs1559862	0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs1559865	0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs1648585	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs1648586	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs1648592	0.97[ASN][1000 genomes]
rs1648597	0.82[EUR][1000 genomes]
rs1648598	0.82[EUR][1000 genomes]
rs1648599	0.91[CEU][hapmap];0.87[GIH][hapmap];0.82[TSI][hapmap];0.86[EUR][1000 genomes]
rs1648601	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1785151	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs1785152	0.80[CEU][hapmap];0.81[EUR][1000 genomes]
rs1785205	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs1940914	0.82[EUR][1000 genomes]
rs1940915	0.82[EUR][1000 genomes]
rs1940916	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs1940918	0.82[EUR][1000 genomes]
rs1940921	0.82[EUR][1000 genomes]
rs2163445	0.82[EUR][1000 genomes]
rs2567168	0.90[ASN][1000 genomes]
rs2567170	0.82[EUR][1000 genomes]
rs28415200	0.82[EUR][1000 genomes]
rs2847114	0.87[EUR][1000 genomes]
rs28553871	0.82[EUR][1000 genomes]
rs28767549	0.82[EUR][1000 genomes]
rs3097643	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs3132835	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs3909688	1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4796988	0.82[EUR][1000 genomes]
rs7229109	0.80[CEU][hapmap];0.82[EUR][1000 genomes]
rs7233826	0.81[EUR][1000 genomes]
rs7234676	0.81[EUR][1000 genomes]
rs7240391	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs7240795	0.82[EUR][1000 genomes]
rs7505922	0.82[EUR][1000 genomes]
rs8090616	1.00[JPT][hapmap]
rs8090627	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs890472	1.00[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs890473	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs890474	1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9952307	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs9958211	0.82[EUR][1000 genomes]
rs9958308	0.82[EUR][1000 genomes]
rs9958406	0.82[EUR][1000 genomes]
rs9958516	0.82[EUR][1000 genomes]
rs9958760	0.82[EUR][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	nsv531246	chr18:13298774-14082028	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13471000-13537400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr18:13499200-13505800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr18:13499400-13505400	Genic enhancers	Fetal Thymus	thymus
4	chr18:13499400-13506000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr18:13499600-13506000	Weak transcription	Primary B cells from cord blood	blood
6	chr18:13499600-13539200	Weak transcription	Gastric	stomach
7	chr18:13499800-13514200	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr18:13499800-13531000	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr18:13500000-13516800	Weak transcription	Duodenum Mucosa	Duodenum
10	chr18:13500400-13517400	Weak transcription	Spleen	Spleen
11	chr18:13500800-13505000	Enhancers	Fetal Muscle Leg	muscle
12	chr18:13500800-13505000	Enhancers	Psoas Muscle	Psoas
13	chr18:13500800-13505200	Enhancers	Fetal Heart	heart
14	chr18:13501400-13505600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr18:13501400-13505800	Weak transcription	Primary hematopoietic stem cells	blood
16	chr18:13501400-13518200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr18:13501600-13504800	Strong transcription	Dnd41	blood
18	chr18:13501600-13505800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr18:13501600-13505800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr18:13501600-13525000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr18:13501800-13530600	Weak transcription	Rectal Smooth Muscle	rectum
22	chr18:13502200-13504400	Enhancers	Brain Germinal Matrix	brain
23	chr18:13502200-13505400	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr18:13502600-13507000	Genic enhancers	Thymus	Thymus
25	chr18:13502800-13525200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr18:13503000-13504800	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr18:13503000-13517000	Weak transcription	Adipose Nuclei	Adipose
28	chr18:13503000-13519200	Weak transcription	Pancreas	Pancrea
29	chr18:13503200-13505000	Weak transcription	Right Ventricle	heart
30	chr18:13503200-13505200	Weak transcription	Primary T cells from cord blood	blood
31	chr18:13503200-13505200	Weak transcription	Brain Angular Gyrus	brain
32	chr18:13503200-13505800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr18:13503200-13506000	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr18:13503200-13506600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr18:13503200-13508000	Weak transcription	Fetal Stomach	stomach
36	chr18:13503200-13511800	Weak transcription	Brain Anterior Caudate	brain
37	chr18:13503200-13514600	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr18:13503200-13517200	Weak transcription	Fetal Lung	lung
39	chr18:13503200-13521000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr18:13503400-13504800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr18:13503400-13505200	Enhancers	Skeletal Muscle Male	skeletal muscle
42	chr18:13503400-13505800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr18:13503400-13505800	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr18:13503400-13506000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr18:13503400-13511600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr18:13503400-13512200	Weak transcription	Liver	Liver
47	chr18:13503400-13517400	Weak transcription	Aorta	Aorta
48	chr18:13503600-13504400	Enhancers	Colonic Mucosa	Colon
49	chr18:13503600-13505800	Weak transcription	Primary B cells from peripheral blood	blood
50	chr18:13503800-13508200	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links