Variant report

Variant	rs2639621
Chromosome Location	chr1:172609760-172609761
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:172596279..172598821-chr1:172607149..172609818,2	MCF-7	breast:
2	chr1:172607939..172610004-chr1:172610996..172613458,2	MCF-7	breast:
3	chr1:172608070..172609991-chr1:172610461..172612540,3	MCF-7	breast:
4	chr1:172607158..172609783-chr1:172617017..172618677,2	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10157500	0.81[EUR][1000 genomes]
rs10912058	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10912080	0.89[EUR][1000 genomes]
rs10912083	0.89[EUR][1000 genomes]
rs10912084	0.89[EUR][1000 genomes]
rs10912097	0.98[ASN][1000 genomes]
rs12087284	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs12121051	0.88[EUR][1000 genomes]
rs12146100	0.86[EUR][1000 genomes]
rs1492899	0.86[CHB][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes]
rs1873794	0.84[AFR][1000 genomes]
rs1894625	0.86[CEU][hapmap];0.89[EUR][1000 genomes]
rs2097492	0.85[EUR][1000 genomes]
rs2097493	0.83[EUR][1000 genomes]
rs2097494	0.86[EUR][1000 genomes]
rs2227188	0.84[EUR][1000 genomes]
rs2472550	0.85[CEU][hapmap]
rs2472552	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs2639619	0.98[ASN][1000 genomes]
rs2639620	0.98[ASN][1000 genomes]
rs2859224	0.98[ASN][1000 genomes]
rs2859225	0.98[ASN][1000 genomes]
rs2859226	0.98[ASN][1000 genomes]
rs2859228	0.95[CHB][hapmap];0.86[JPT][hapmap];0.97[ASN][1000 genomes]
rs2859229	0.86[CHB][hapmap]
rs2859237	0.95[CHB][hapmap]
rs3752515	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs3768444	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs4433434	0.89[EUR][1000 genomes]
rs6424973	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs6425007	0.89[EUR][1000 genomes]
rs6656713	0.89[EUR][1000 genomes]
rs6686080	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs6686157	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs6695152	0.80[EUR][1000 genomes]
rs7525372	0.89[EUR][1000 genomes]
rs7539231	0.82[EUR][1000 genomes]
rs763108	0.89[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2639621	SUCO	cis	Muscle Skeletal	GTEx

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172605800-172610400	Enhancers	Placenta Amnion	Placenta Amnion
2	chr1:172606600-172609800	Enhancers	Fetal Thymus	thymus
3	chr1:172606600-172609800	Enhancers	NHDF-Ad	bronchial
4	chr1:172606600-172610400	Enhancers	K562	blood
5	chr1:172606600-172610800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:172606600-172610800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr1:172606800-172610000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
8	chr1:172607000-172612000	Weak transcription	Esophagus	oesophagus
9	chr1:172608200-172609800	Flanking Active TSS	NHEK	skin
10	chr1:172608600-172610000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr1:172608600-172611400	Weak transcription	Hela-S3	cervix
12	chr1:172608600-172612400	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr1:172608800-172609800	Enhancers	HSMM	muscle
14	chr1:172608800-172610400	Enhancers	Muscle Satellite Cultured Cells	--
15	chr1:172608800-172610600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr1:172608800-172610600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr1:172608800-172611600	Weak transcription	HepG2	liver
18	chr1:172608800-172612000	Weak transcription	Left Ventricle	heart
19	chr1:172608800-172614000	Enhancers	Primary T cells fromperipheralblood	blood
20	chr1:172608800-172614400	Enhancers	Primary T killer memory cells from peripheral blood	blood
21	chr1:172608800-172615000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr1:172608800-172624000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr1:172609000-172609800	Enhancers	Dnd41	blood
24	chr1:172609000-172609800	Enhancers	NH-A	brain
25	chr1:172609000-172610000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
26	chr1:172609000-172610000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr1:172609000-172610000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr1:172609000-172610400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr1:172609000-172610400	Enhancers	HMEC	breast
30	chr1:172609000-172611000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr1:172609000-172611600	Weak transcription	A549	lung
32	chr1:172609000-172612000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr1:172609000-172612000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr1:172609000-172612200	Weak transcription	Primary B cells from peripheral blood	blood
35	chr1:172609000-172612600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
36	chr1:172609000-172612800	Weak transcription	Right Atrium	heart
37	chr1:172609000-172614800	Enhancers	Primary T cells from cord blood	blood
38	chr1:172609000-172614800	Enhancers	Primary T helper naive cells from peripheral blood	blood
39	chr1:172609000-172614800	Enhancers	Primary T helper cells fromperipheralblood	blood
40	chr1:172609400-172609800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
41	chr1:172609400-172612000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr1:172609600-172611800	Weak transcription	Osteobl	bone
43	chr1:172609600-172612000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr1:172609600-172612000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr1:172609600-172612000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr1:172609600-172612000	Weak transcription	NHLF	lung
47	chr1:172609600-172612200	Weak transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links