Variant report

Variant	rs1886627
Chromosome Location	chr1:197557484-197557485
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:197555789..197558080-chr1:197564045..197566228,2	K562	blood:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10158300	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1028785	1.00[AMR][1000 genomes]
rs1033826	1.00[MEX][hapmap];0.83[MKK][hapmap]
rs10494759	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10737689	0.85[AMR][1000 genomes]
rs10737690	1.00[AMR][1000 genomes]
rs10737691	1.00[AMR][1000 genomes]
rs10754226	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10801610	1.00[AMR][1000 genomes]
rs10801611	1.00[AMR][1000 genomes]
rs10801615	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10922241	0.88[LWK][hapmap];1.00[AMR][1000 genomes]
rs10922245	1.00[AMR][1000 genomes]
rs1359458	1.00[AMR][1000 genomes]
rs1362940	1.00[MEX][hapmap]
rs1408841	1.00[AMR][1000 genomes]
rs1421389	1.00[AMR][1000 genomes]
rs1421396	0.85[AMR][1000 genomes]
rs1421398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1558975	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1570412	1.00[MEX][hapmap];0.83[MKK][hapmap]
rs1570413	1.00[MEX][hapmap];0.83[MKK][hapmap]
rs1570809	1.00[AMR][1000 genomes]
rs1582409	1.00[AMR][1000 genomes]
rs16841893	1.00[MEX][hapmap]
rs1862011	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1923757	1.00[AMR][1000 genomes]
rs1977330	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2013617	1.00[AMR][1000 genomes]
rs2147771	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2193733	0.84[YRI][hapmap]
rs3790737	1.00[AMR][1000 genomes]
rs3902057	1.00[MEX][hapmap]
rs3902061	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4244150	1.00[MEX][hapmap]
rs4427436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4477311	0.85[AMR][1000 genomes]
rs4915243	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4915547	1.00[AMR][1000 genomes]
rs4915548	1.00[AMR][1000 genomes]
rs6428407	0.85[AMR][1000 genomes]
rs6428408	1.00[AMR][1000 genomes]
rs6428409	1.00[AMR][1000 genomes]
rs6662893	1.00[AMR][1000 genomes]
rs6678240	0.85[AMR][1000 genomes]
rs6684593	1.00[MEX][hapmap]
rs7514167	1.00[MEX][hapmap];0.83[MKK][hapmap]
rs7519686	1.00[AMR][1000 genomes]
rs7543631	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7553327	0.88[LWK][hapmap];1.00[AMR][1000 genomes]
rs942050	1.00[MEX][hapmap]
rs980371	1.00[MEX][hapmap];0.83[MKK][hapmap]
rs981520	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873074	chr1:197464448-197698103	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv873075	chr1:197464448-197714851	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv548872	chr1:197529218-197644581	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv873076	chr1:197529218-197689967	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
5	esv3397065	chr1:197545083-197637033	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:197506800-197564600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr1:197508400-197602400	Weak transcription	Left Ventricle	heart
3	chr1:197526800-197563000	Weak transcription	Osteobl	bone
4	chr1:197537000-197574600	Weak transcription	NHDF-Ad	bronchial
5	chr1:197537400-197602200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr1:197537800-197585600	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr1:197538600-197563600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr1:197541800-197566000	Weak transcription	Ovary	ovary
9	chr1:197541800-197602400	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr1:197541800-197602600	Weak transcription	Fetal Thymus	thymus
11	chr1:197542000-197559600	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr1:197542000-197559800	Weak transcription	Liver	Liver
13	chr1:197542000-197568000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr1:197542000-197569200	Weak transcription	Pancreas	Pancrea
15	chr1:197542000-197571400	Weak transcription	Esophagus	oesophagus
16	chr1:197542000-197574400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr1:197542000-197609000	Weak transcription	Colonic Mucosa	Colon
18	chr1:197542000-197626400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr1:197542600-197563200	Weak transcription	Fetal Heart	heart
20	chr1:197544000-197562000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr1:197544400-197602400	Weak transcription	Primary B cells from cord blood	blood
22	chr1:197544600-197570000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr1:197545600-197567400	Weak transcription	Rectal Smooth Muscle	rectum
24	chr1:197547000-197587200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr1:197547400-197602400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr1:197547600-197566200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr1:197548600-197569400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr1:197551400-197585600	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr1:197551800-197559400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr1:197552600-197559600	Weak transcription	Duodenum Mucosa	Duodenum
31	chr1:197552600-197559800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr1:197552600-197563400	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr1:197553000-197583800	Weak transcription	Primary T cells from cord blood	blood
34	chr1:197553000-197585400	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr1:197553000-197629800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr1:197553200-197558400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr1:197553200-197558800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr1:197553200-197564000	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr1:197555200-197558000	Strong transcription	Dnd41	blood
40	chr1:197556200-197558000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr1:197556600-197560000	Weak transcription	Primary hematopoietic stem cells	blood
42	chr1:197556600-197563200	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr1:197557000-197564200	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr1:197557400-197559800	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links